Term IRI Term label Parent term IRI Parent term label Alternative term Definition http://purl.obolibrary.org/obo/ICO_0000122 obsolete US federal policy for the protection of human subjects http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class Common Rule A directive information entity that specifies US federal policy for the protection of human subjects. http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module subset ontology An ontology module that is extracted from a main ontology module and includes only a subset of entities or axioms. http://purl.obolibrary.org/obo/ICO_0000229 human subject-specified contact person role http://purl.obolibrary.org/obo/ICO_0000230 contact person role emergency contact role A contact person role that is the output of either a human subject or patient assigning that person as their point of contact. http://purl.obolibrary.org/obo/ICO_0000282 description of legal responsibility http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity description of liability A descriptive information content entity that describes legal responsibility that an entity has due to some risk. http://purl.obolibrary.org/obo/IAO_0000648 zone improvement plan code http://purl.obolibrary.org/obo/IAO_0000646 postal code ZIP code A postal code that is used in the United States for the purpose of sorting and delivering mail, and that denotes some postal delivery route or some aggregate of postal delivery routes. http://purl.obolibrary.org/obo/ICO_0000046 act of authorizing http://purl.obolibrary.org/obo/IAO_0021003 social act permission A planned process of making the decision of the competent authorities in form of a letter, document, or verbal or electronic form, that confirms that somebody has permission to do something or be somewhere, e.g. to realize a given project. http://purl.obolibrary.org/obo/ICO_0000073 research subject role http://purl.obolibrary.org/obo/BFO_0000023 role human patient A role that inheres in human being and is an output of some participation in a research study. http://purl.obolibrary.org/obo/ICO_0000198 specimen sharing directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity directive information entity about specimen sharing A directive information entity that prescribes whether, under what conditions, and with which recipients biospecimens (including human biological materials and their derivatives) may be shared beyond the original study team or repository. http://purl.obolibrary.org/obo/IAO_0000580 looking up a centrally registered identifier http://purl.obolibrary.org/obo/OBI_0000011 planned process looking up a CRID A planned process in which a request to a CRID registry is made to return the information associated with a CRID symbol http://purl.obolibrary.org/obo/IAO_0000005 objective specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity goal specification A directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved. http://purl.obolibrary.org/obo/IAO_0000027 data item http://purl.obolibrary.org/obo/IAO_0000030 information content entity data An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements. http://purl.obolibrary.org/obo/IAO_0000035 obsolete_study interpretation http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class conclusion A study interpretation is a textual entity about the implications of a study result. Examples include discussion of whether a hypothesis is false, whether the study failed to address the hypothesis, and whether the study results have led to new hypotheses http://purl.obolibrary.org/obo/IAO_0000132 lot number http://purl.obolibrary.org/obo/IAO_0000028 symbol batch number A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots. http://purl.obolibrary.org/obo/IAO_0000184 scatter plot http://purl.obolibrary.org/obo/IAO_0000038 graph scattergraph A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis. http://purl.obolibrary.org/obo/IAO_0000300 textual entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity text A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc. http://purl.obolibrary.org/obo/IAO_0000311 publication http://purl.obolibrary.org/obo/IAO_0000310 document published document A document that is the output of a publishing process. http://purl.obolibrary.org/obo/IAO_0000312 publication about an investigation http://purl.obolibrary.org/obo/IAO_0000311 publication scientific publication A publication that is about an investigation http://purl.obolibrary.org/obo/IAO_0000315 abstract http://purl.obolibrary.org/obo/IAO_0000314 document part precis A summary of the entire document that is substantially smaller than the document it summarizes. It is about the document it summarizes. http://purl.obolibrary.org/obo/IAO_0000316 introduction to a publication about an investigation http://purl.obolibrary.org/obo/IAO_0000314 document part overview A part of a publication about an investigation that is about the objective specification (why the investigation is being done) http://purl.obolibrary.org/obo/IAO_0000317 methods section http://purl.obolibrary.org/obo/IAO_0000314 document part experimental methods A part of a publication about an investigation that is about the study design of the investigation http://purl.obolibrary.org/obo/IAO_0000318 results section http://purl.obolibrary.org/obo/IAO_0000314 document part results A part of a publication about an investigation that is about a study design execution http://purl.obolibrary.org/obo/IAO_0000319 discussion section of a publication about an investigation http://purl.obolibrary.org/obo/IAO_0000314 document part discussions A part of a publication about an investigation that is about the study interpretation of the investigation http://purl.obolibrary.org/obo/IAO_0000320 references section http://purl.obolibrary.org/obo/IAO_0000314 document part reference list A part of a document that has citations as parts http://purl.obolibrary.org/obo/IAO_0000323 author contributions section http://purl.obolibrary.org/obo/IAO_0000314 document part contributorship A part of a publication that is about the specific contributions of each author http://purl.obolibrary.org/obo/IAO_0000324 acknowledgements section http://purl.obolibrary.org/obo/IAO_0000314 document part acknowledgment Part of a publication that is about the contributions of people or institutions other than the authors. http://purl.obolibrary.org/obo/IAO_0000325 footnote http://purl.obolibrary.org/obo/IAO_0000314 document part footnotes A part of a document that is about a specific other part of the document. Usually footnotes are spatially segregated from the rest of the document. http://purl.obolibrary.org/obo/IAO_0000326 supplementary material to a document http://purl.obolibrary.org/obo/IAO_0000314 document part supplementary materials A part of a document that is segregated from the rest of the document due to its size http://purl.obolibrary.org/obo/IAO_0000573 line graph http://purl.obolibrary.org/obo/IAO_0000038 graph line chart A line graph is a type of graph created by connecting a series of data points together with a line. http://purl.obolibrary.org/obo/IAO_0000574 assigning a centrally registered identifier http://purl.obolibrary.org/obo/OBI_0000011 planned process assigning a CRID A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity http://purl.obolibrary.org/obo/IAO_0000575 associating information with a centrally registered identifier in its registry http://purl.obolibrary.org/obo/OBI_0000011 planned process associating information with a CRID in the CRID registry A planned process in which a CRID registry associates an information content entity with a CRID symbol http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol http://purl.obolibrary.org/obo/IAO_0000028 symbol CRID symbol A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry. http://purl.obolibrary.org/obo/IAO_0000578 centrally registered identifier http://purl.obolibrary.org/obo/IAO_0020000 identifier CRID An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs. http://purl.obolibrary.org/obo/IAO_0000579 centrally registered identifier registry http://purl.obolibrary.org/obo/IAO_0000100 data set CRID registry A CRID registry is a dataset of CRID records, each consisting of a CRID symbol and additional information which was recorded in the dataset through a assigning a centrally registered identifier process. http://purl.obolibrary.org/obo/IAO_0000584 time sampled measurement data set http://purl.obolibrary.org/obo/IAO_0000100 data set experimental time series A data set that is an aggregate of data recording some measurement at a number of time points. The time series data set is an ordered list of pairs of time measurement data and the corresponding measurement data acquired at that time. http://purl.obolibrary.org/obo/OBI_0000014 regulator role http://purl.obolibrary.org/obo/OBI_0000017 regulatory role regulator a regulatory role involved with making and/or enforcing relevant legislation and governmental orders http://purl.obolibrary.org/obo/OBI_0000086 reagent role http://purl.obolibrary.org/obo/OBI_0003610 reactant role reagent A role inhering in a biological or chemical entity that is intended to be applied in a scientific technique to participate (or have molecular components that participate) in a chemical reaction that facilitates the generation of data about some entity distinct from the bearer, or the generation of some specified material output distinct from the bearer. http://purl.obolibrary.org/obo/OBI_0000093 patient role http://purl.obolibrary.org/obo/BFO_0000023 role patient a role which inheres in a person and is realized by the process of being under the care of a physician or health care provider http://purl.obolibrary.org/obo/OBI_0000094 material processing http://purl.obolibrary.org/obo/OBI_0000011 planned process material transformation A planned process which results in physical changes in a specified input material http://purl.obolibrary.org/obo/OBI_0000102 responsible party role http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role responsible party a study personnel role played by a party who is accountable for the execution of a study component and can make decisions about the conduct of the study http://purl.obolibrary.org/obo/OBI_0000103 principal investigator role http://purl.obolibrary.org/obo/OBI_0000102 responsible party role principal investigator a responsible party role played by a person responsible for the overall conduct of a study http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role http://purl.obolibrary.org/obo/BFO_0000023 role investigator A role borne by an entity and that is realized in a process that is part of an investigation in which an objective is achieved. These processes include, among others: planning, overseeing, funding, reviewing. http://purl.obolibrary.org/obo/OBI_0000456 material transformation objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification artifact creation objective an objective specifiction that creates an specific output object from input materials. http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process http://purl.obolibrary.org/obo/OBI_0000011 planned process specimen collection A planned process with the objective to obtain a material entity for potential use as an input upon which measurements or observations are performed. http://purl.obolibrary.org/obo/OBI_0000747 material sample http://purl.obolibrary.org/obo/OBI_0100051 specimen sample population A material entity that has the material sample role http://purl.obolibrary.org/obo/OBI_0000968 device http://purl.obolibrary.org/obo/OBI_0000047 processed material instrument A material entity that is designed to perform a function in a scientific investigation, but is not a reagent. http://purl.obolibrary.org/obo/OBI_0001143 labeled nucleic acid extract http://purl.obolibrary.org/obo/OBI_0000924 labeled specimen labeled extract a labeled specimen that is the output of a labeling process and has grain labeled nucleic acid for detection of the nucleic acid in future experiments. http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism http://purl.obolibrary.org/obo/OBI_0100051 specimen tissue specimen A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm). http://purl.obolibrary.org/obo/OBI_0001942 grant agency http://purl.obolibrary.org/obo/OBI_0000245 organization funding organization An organization that provides funding support for projects such as investigations. http://purl.obolibrary.org/obo/OBI_0002503 feces specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism stool specimen A specimen that is derived from feces. http://purl.obolibrary.org/obo/OBI_0002504 digestive system fluid or secretion specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen gastric fluid specimen A specimen that is derived from digestive system fluid or secretion. http://purl.obolibrary.org/obo/OBI_0002511 vitreous humor specimen http://purl.obolibrary.org/obo/OBI_2000004 eye specimen vitreous fluid specimen A specimen that is derived from vireous humor. http://purl.obolibrary.org/obo/OBI_0002521 renal medulla specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism kidney medulla specimen A specimen that is derived from renal medulla. http://purl.obolibrary.org/obo/OBI_0002523 breast specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism mammary tissue specimen A specimen that is derived from breast. http://purl.obolibrary.org/obo/OBI_0002526 skin of body specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism skin specimen A specimen that is derived from skin. http://purl.obolibrary.org/obo/OBI_0002531 cortex of kidney specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism kidney cortex specimen A specimen that is derived from cortex of kidney. http://purl.obolibrary.org/obo/OBI_0002535 esophagus muscularis mucosa specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen esophagus muscularis specimen A specimen that is derived from esophagus muscularis mucosa. http://purl.obolibrary.org/obo/OBI_0002536 cerebral cortex specimen http://purl.obolibrary.org/obo/OBI_0002516 brain specimen brain cortex specimen A specimen that is derived from cerebral cortex. http://purl.obolibrary.org/obo/OBI_0002538 cerebellum specimen http://purl.obolibrary.org/obo/OBI_0002516 brain specimen brain cerebellum specimen A specimen that is derived from cerebellum. http://purl.obolibrary.org/obo/OBI_0100016 blood plasma specimen http://purl.obolibrary.org/obo/OBI_0000953 processed specimen plasma a material entity which corresponds to the liquid component of blood, in which the blood cells are suspended. http://purl.obolibrary.org/obo/OBI_0100060 cultured cell population http://purl.obolibrary.org/obo/OBI_0000047 processed material cell culture sample A processed material comprised of a collection of cultured cells that has been continuously maintained together in culture and shares a common propagation history. http://purl.obolibrary.org/obo/OBI_0100067 bronchial alveolar lavage http://purl.obolibrary.org/obo/OBI_0003666 lavage fluid specimen BAL Group of biomaterials present in the bronchial aveolar space of an organism which are collected through lavage including the reagents used to for the lavage process, organisms, cells, and cellular secretions present in the bronchial aveolar space. http://purl.obolibrary.org/obo/OBI_0500000 study design http://purl.obolibrary.org/obo/IAO_0000104 plan specification experimental design A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution. http://purl.obolibrary.org/obo/OBI_0500026 eligibility criterion http://purl.obolibrary.org/obo/IAO_0000033 directive information entity eligibility rule an eligibility criterion (rule) is_a selection criterion which defines and states the requirements (positive or negative) for an entity to be considered as suitable for a given task or participation in a process. http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion http://purl.obolibrary.org/obo/OBI_0500026 eligibility criterion inclusion rule an inclusion criterion (rule) is_a *eligibility criterion* which defines and states a condition which, if met, makes an entity suitable for a given task or participation in a given process. For instance, in a study protocol, inclusion criteria indicate the conditions that prospective subjects MUST meet to be eligible for participation in a study. http://purl.obolibrary.org/obo/OBI_0600038 addition of molecular label http://purl.obolibrary.org/obo/OBI_0000094 material processing labeling a material processing technique intended to add a molecular label to some input material entity, to allow detection of the molecular target of this label in a detection of molecular label assay http://purl.obolibrary.org/obo/OBI_1000049 whole mount tissue http://purl.obolibrary.org/obo/OBI_0000953 processed specimen whole mount sample A whole organism preparation resulting from a histological preparation known as whole mount preparation where the whole specimen is mounted or spread on the microscope (glass) slide http://purl.obolibrary.org/obo/SO_0000001 region http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant primary structure of sequence macromolecule A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids. http://purl.obolibrary.org/obo/ICO_0000001 informed consent form http://purl.obolibrary.org/obo/IAO_0021007 document act input document informed consent document A document that explains all relevant information to assist a human being in understanding the expectations and requirements of participation in a process, and is an instrument in obtaining consent and, after having obtained consent, is a record that such a consent has occurred. http://purl.obolibrary.org/obo/APOLLO_SV_00000796 dataset creating http://purl.obolibrary.org/obo/OBI_0000011 planned process dataset creation A planned process that has a data set as its specified output. http://purl.obolibrary.org/obo/OBI_0003415 peripheral blood mononuclear cell specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen PBMC specimen A processed specimen that is extracted from whole blood using gradient centrifugation that separates the blood into a layer of peripheral blood mononuclear cells under the top layer of plasma. It contains lymphocytes, monocytes or macrophages that are critical components in the immune system. http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule http://purl.obolibrary.org/obo/CHEBI_23367 molecular entity polymer A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. http://purl.obolibrary.org/obo/OAE_0000001 adverse event http://purl.obolibrary.org/obo/OGMS_0000060 bodily process adverse reaction a pathological bodily process that occurs after a medical intervention. An adverse event is likely caused by the medical intervention; however, such a causal association is not required to be an adverse event. http://purl.obolibrary.org/obo/IAO_0021005 obsolete_deontic declaration http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class status function declaration A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or transforms a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document. http://purl.obolibrary.org/obo/IAO_0021022 deontic declaration performer role http://purl.obolibrary.org/obo/BFO_0000023 role declaration performer role A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration. http://purl.obolibrary.org/obo/ICO_0000120 archiving signed informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process storage of signed informed consent form A planned process that collect a signed informed consent form. During this process, the information is systematically kept in a repository. http://purl.obolibrary.org/obo/ICO_0000081 legal guardian role http://purl.obolibrary.org/obo/BFO_0000023 role legally authorized representative role A role that inheres in an individual who is authorized under applicable State or local law to consent on behalf of a child or incapable person to general medical care including participation in clinical research. http://purl.obolibrary.org/obo/OMRSE_00002029 education process http://purl.obolibrary.org/obo/OBI_0000011 planned process learning process A planned process with an active participant who acquires mental representations of information content entities (ICEs), which had no previous mental representation in the cognitive system, and through repeated use or application of these ICEs either (1) becomes the bearer of a new instance of some type of capability, and the participant was not previously the bearer of that instance of that type of capability, (2) "improves" an existing capability as demonstrated through realization(s) of that capability, and/or (3) loses a capability whose realization is considered negative. http://purl.obolibrary.org/obo/OBI_0003667 oral lavage fluid http://purl.obolibrary.org/obo/OBI_0003666 lavage fluid specimen mouth rinse specimen A specimen collected through oral cavity lavage that contains the reagents used to for the lavage process, organisms, cells, cellular secretions, and other biomaterials present in the oral cavity space. http://purl.obolibrary.org/obo/ICO_0000143 obsolete assent process http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class assent process A planned process of acknowledgement, or agreement, to participate in a procedure or study, where the participant is incapable of informed consent. http://purl.obolibrary.org/obo/DUO_0000001 data use permission http://purl.obolibrary.org/obo/IAO_0000027 data item consent code A data item that is used to indicate consent permissions for datasets and/or materials, and relates to the purposes for which datasets and/or material might be removed, stored or used. http://purl.obolibrary.org/obo/DUO_0000011 population origins or ancestry research only http://purl.obolibrary.org/obo/DUO_0000001 data use permission population origins/ancestry research This data use permission indicates that use of the data is limited to the study of population origins or ancestry. http://purl.obolibrary.org/obo/DUO_0000024 publication moratorium http://purl.obolibrary.org/obo/DUO_0000017 data use modifier publication embargo This data use modifier indicates that requestor agrees not to publish results of studies until a specific date. http://purl.obolibrary.org/obo/ICO_0000125 archiving signed scanned paper informed consent form http://purl.obolibrary.org/obo/ICO_0000120 archiving signed informed consent form storage of signed scanned paper informed consent form A process of storage of signed informed consent form when the form is in digital format. http://purl.obolibrary.org/obo/IAO_0000707 graphical abstract http://purl.obolibrary.org/obo/IAO_0000315 abstract visual abstract An abstract that is pictorial summary of the main findings described in the document. http://purl.obolibrary.org/obo/OBI_0003054 blood specimen in vacutainer http://purl.obolibrary.org/obo/OBI_0000655 blood specimen Vacutainer sample A blood specimen that is located in a vacutainer. http://purl.obolibrary.org/obo/OBI_0003055 blood specimen on filter paper http://purl.obolibrary.org/obo/OBI_0000655 blood specimen Filter paper sample A blood specimen that is located on a filter paper. http://purl.obolibrary.org/obo/IAO_0000606 abbreviations section http://purl.obolibrary.org/obo/IAO_0000314 document part nonstandard abbreviations and acronyms A part of a document where abbreviations and their long-forms used within the document are listed. http://purl.obolibrary.org/obo/IAO_0000607 author information section http://purl.obolibrary.org/obo/IAO_0000314 document part contributor information A part of a document about the authors that provides biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document. http://purl.obolibrary.org/obo/IAO_0000609 author summary section http://purl.obolibrary.org/obo/IAO_0000314 document part synopsis A part of a document, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers. http://purl.obolibrary.org/obo/IAO_0000611 availability section http://purl.obolibrary.org/obo/IAO_0000314 document part data sharing statement A part of a document about a resource described in the document, e.g. software, that describes where and/or how that resource can be obtained. http://purl.obolibrary.org/obo/IAO_0000613 case report section http://purl.obolibrary.org/obo/IAO_0000314 document part case report A part of a document about the medical history of a specific patient as it relates to the topic of the document. http://purl.obolibrary.org/obo/IAO_0000615 conclusion section http://purl.obolibrary.org/obo/IAO_0000314 document part summary A part of a document used to summarize the findings discussed in the document. The conclusion section is typically found near the end of a document. http://purl.obolibrary.org/obo/IAO_0000616 conflict of interest section http://purl.obolibrary.org/obo/IAO_0000314 document part authors' disclosures of potential conflicts of interest A part of a document used to declare any competing interests regarding the authors and/or funding organization for the work described in the document. http://purl.obolibrary.org/obo/IAO_0000618 consent section http://purl.obolibrary.org/obo/IAO_0000314 document part consent A part of a document about the consent process that was used to enroll patients in a study. http://purl.obolibrary.org/obo/IAO_0000620 ethical approval section http://purl.obolibrary.org/obo/IAO_0000314 document part ethics statement A part of a document about the governance body responsible for approving the work discussed in a document on an ethical basis. http://purl.obolibrary.org/obo/IAO_0000622 figures section http://purl.obolibrary.org/obo/IAO_0000314 document part figures A part of a document that contains one or more figures. http://purl.obolibrary.org/obo/IAO_0000623 funding source declaration section http://purl.obolibrary.org/obo/IAO_0000314 document part study funding A part of a document used to detail information regarding the source of funding used in support of the generation of the document content. http://purl.obolibrary.org/obo/IAO_0000625 future directions section http://purl.obolibrary.org/obo/IAO_0000314 document part outlook A part of a document detailing extensions of the described work that may be implemented at some future point in time. http://purl.obolibrary.org/obo/IAO_0000627 genome announcement section http://purl.obolibrary.org/obo/IAO_0000314 document part genome announcement A document part announcing the publication of a novel draft genome sequence. http://purl.obolibrary.org/obo/IAO_0000630 keywords section http://purl.obolibrary.org/obo/IAO_0000314 document part keywords A part of a document where keywords selected by the author to categorize the major theme(s) of a document are listed. http://purl.obolibrary.org/obo/IAO_0000631 study limitations section http://purl.obolibrary.org/obo/IAO_0000314 document part study limitations A part of a document about biases or short comings related to the study design and execution. http://purl.obolibrary.org/obo/IAO_0000633 materials section http://purl.obolibrary.org/obo/IAO_0000314 document part materials A part of a document about the materials required to reproduce the content of the document. http://purl.obolibrary.org/obo/IAO_0000634 notes section http://purl.obolibrary.org/obo/IAO_0000314 document part notes A part of a document containing typically short notes about the document itself and/or the authors. Often the notes section contains subsections related to funding, competing interests, ethical approval, etc. http://purl.obolibrary.org/obo/IAO_0000637 pre-publication history section http://purl.obolibrary.org/obo/IAO_0000314 document part pre-publication history A part of the document about the publication history of a document. This section typically details dates of document submission to a journal and dates of any re-submissions as well as reviewer comments and responses to reviewers by the authors. http://purl.obolibrary.org/obo/IAO_0000639 related work section http://purl.obolibrary.org/obo/IAO_0000314 document part related work A part of a document about work in other publications that is relevant to the content of the document. http://purl.obolibrary.org/obo/IAO_0000641 requirements section http://purl.obolibrary.org/obo/IAO_0000314 document part requirements A part of a document about a resource described in the document, e.g. software, that describes the requirements necessary to use the resource, e.g. operating systems, hardware, etc. in the case of a software resource. http://purl.obolibrary.org/obo/IAO_0000644 statistical analysis section http://purl.obolibrary.org/obo/IAO_0000314 document part statistical analysis A part of the document used to describe the statistical methodologies employed in the work presented in the document. http://purl.obolibrary.org/obo/IAO_0000645 tables section http://purl.obolibrary.org/obo/IAO_0000314 document part tables A part of a document that contains one or more tables. http://purl.obolibrary.org/obo/IAO_0000650 database extract, transform, and load process http://purl.obolibrary.org/obo/OBI_0000011 planned process ETL A planned process which takes as input a database and fills another database by extracting concretizations of information entities from the first, transforming them, and loading the transformed concretizations into the second. http://purl.obolibrary.org/obo/IAO_8000002 editors ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module source ontology module An ontology module that is intended to be directly edited, typically managed in source control, and typically not intended for direct consumption by end-users. http://purl.obolibrary.org/obo/IAO_8000005 import ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module import file A subset ontology module that is intended to be imported from another ontology. http://purl.obolibrary.org/obo/IAO_8000009 single layer subset ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module ribbon subset A subset ontology that is largely comprised of a single layer or strata in an ontology class hierarchy. The purpose is typically for rolling up for visualization. The classes in the layer need not be disjoint. http://purl.obolibrary.org/obo/IAO_8000010 exclusion subset ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module antislim A subset of an ontology that is intended to be excluded for some purpose. For example, a blacklist of classes. http://purl.obolibrary.org/obo/IAO_8000011 external import ontology module http://purl.obolibrary.org/obo/IAO_8000005 import ontology module external import An imported ontology module that is derived from an external ontology. Derivation methods include the OWLAPI SLME approach. http://purl.obolibrary.org/obo/IAO_8000012 species subset ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module taxon subset A subset ontology that is crafted to either include or exclude a taxonomic grouping of species. http://purl.obolibrary.org/obo/OBIB_0000623 biobank organization http://purl.obolibrary.org/obo/OBI_0000245 organization biobank juristic person An organization bearing legal personality that owns or adminstrates a biobank. http://purl.obolibrary.org/obo/OBI_0002691 arthropod meal of blood specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen blood meal A specimen of the blood ingested by an arthropod. http://purl.obolibrary.org/obo/OBI_0002743 molecular label role http://purl.obolibrary.org/obo/OBI_0000086 reagent role molecular tracer role A reagent role inhering in a molecular entity intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay. http://purl.obolibrary.org/obo/OBI_0002744 molecular label http://purl.obolibrary.org/obo/OBI_0001879 reagent molecular tracer A molecular reagent intended to associate with some molecular target to serve as a proxy for the presence, abundance, or location of this target in a detection of molecular label assay http://purl.obolibrary.org/obo/ICO_0000138 informed consent form for vaccination http://purl.obolibrary.org/obo/ICO_0000001 informed consent form immunization consent form An informed consent form that contains sections specific to procedures in vaccination. http://purl.obolibrary.org/obo/ICO_0000157 parental informed consent process http://purl.obolibrary.org/obo/OBI_0000810 informed consent process parental permission consent An informed consent process in which a parent reaches a decision concerning whether or not to grant consent on a minor's behalf, when the minor is incapable of providing consent for themselves. http://purl.obolibrary.org/obo/IAO_0021102 standing declaration http://purl.obolibrary.org/obo/IAO_0021003 social act enactment A social act that postulates a socio-legal fact for a specified group of people or organizations. http://purl.obolibrary.org/obo/OBI_0002612 fecal swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen stool swab specimen A specimen that is collected with a swab from the surface of a feces. http://purl.obolibrary.org/obo/OBI_1200000 FFPE specimen http://purl.obolibrary.org/obo/OBI_0000950 paraffin specimen formalin-fixed paraffin-embeded specimen A specimen that has been fixed in formalin and embedded in paraffin. http://purl.obolibrary.org/obo/ICO_0000139 obsolete Walgreens vaccine informed consent form' http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class Walgreens Vaccine Administration Record Informed Concsent Form An informed consent form that is used for vaccination by Walgreens http://purl.obolibrary.org/obo/ICO_0000079 institutional review board http://purl.obolibrary.org/obo/OBI_0000245 organization IRB A specially constituted organization comprised of medical, scientific and non-scientific members established and designated by an entity to ensure the protection of the rights, safety and well-being of human subjects recruited to participate in biomedical or behavioral research according to the requirements outlined in Title 38, part 16 (same as Title 45, part 46 and Title 21, part 56) of the U.S. Code of Federal Regulations. IRB responsibility include but not limited to the reviewing, approving, and providing continuing review of trial protocol and amendments and of the methods and material to be used in obtaining and documenting informed consent of the trial. Other equivalent committees with the same or similar functions are also considered to be IRBs. http://purl.obolibrary.org/obo/ICO_0000007 part of informed consent form http://purl.obolibrary.org/obo/IAO_0000314 document part informed consent form element A document that is a part of an informed consent form. http://purl.obolibrary.org/obo/ICO_0000124 archiving signed electronic informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process storage of signed electronic informed consent form A planned process of storage of signed informed consent form when the form is in digital format. http://purl.obolibrary.org/obo/ICO_0000131 institutional review board approval number http://purl.obolibrary.org/obo/ICO_0000111 review board approval number institutional review board approval number A review board approval number that is assigned by an institutional review board. http://purl.obolibrary.org/obo/OBI_0002778 tracheal aspirate specimen http://purl.obolibrary.org/obo/OBI_0002781 lower respiratory tract aspirate specimen tracheal wash specimen A specimen that is collected with a suctioning tube from the trachea. http://purl.obolibrary.org/obo/OBI_0002780 nasal aspirate specimen http://purl.obolibrary.org/obo/OBI_2000006 upper respiratory tract specimen nasopharyngeal aspirate A specimen that is collected with a suctioning tube from the nasal cavity. http://purl.obolibrary.org/obo/OBI_0002781 lower respiratory tract aspirate specimen http://purl.obolibrary.org/obo/OBI_0002783 lower respiratory tract specimen lower respiratory tract wash specimen A specimen that is collected with a suctioning tube from the lower respiratory tract. http://purl.obolibrary.org/obo/OBI_0002785 aspiration specimen collection http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process aspiration procedure Procedure using suction, usually with a thin needle and syringe, to remove bodily fluid or tissue. http://purl.obolibrary.org/obo/ICO_0000155 obsolete informed consent http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3777303/ http://purl.obolibrary.org/obo/ICO_0000088 participation duration http://purl.obolibrary.org/obo/BFO_0000038 one-dimensional temporal region A temporal interval during which a human being participates in a process. http://purl.obolibrary.org/obo/ICO_0000005 signing an informed consent form http://purl.obolibrary.org/obo/IAO_0021003 social act A social act that is a part of an informed consent process and has output of a signed informed consent form. The signing process leads to a legal obligation. http://purl.obolibrary.org/obo/ICO_0000189 contact directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes a human being who is to bear a contact role. http://purl.obolibrary.org/obo/OBI_0002543 atrial appendage specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from the atrium auricular region. http://purl.obolibrary.org/obo/OBI_0002550 sigmoid colon specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from sigmoid colon. http://purl.obolibrary.org/obo/CHEBI_23367 molecular entity http://purl.obolibrary.org/obo/BFO_0000040 material entity Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity. http://purl.obolibrary.org/obo/OGMS_0000014 clinical finding http://purl.obolibrary.org/obo/IAO_0000027 data item A representation that is either the output of a clinical history taking or a physical examination or an image finding, or some combination thereof. http://purl.obolibrary.org/obo/APOLLO_SV_00000008 software development http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that has specified output a software product and that involves the creation of source code. http://purl.obolibrary.org/obo/ICO_0000141 question textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is a sentence in the interrogative mood. http://purl.unep.org/sdg/SDGIO_00000024 vulnerability http://purl.obolibrary.org/obo/BFO_0000016 disposition A disposition of an entity to undergo undesirable change in response to some exposure. http://www.ontologyrepository.com/CommonCoreOntologies/StasisOfGenericallyDependentContinuant stasis of generically dependent continuant http://www.ontologyrepository.com/CommonCoreOntologies/Stasis stasis A stasis in which some independent continuant bears some generically dependent continuant that remains unchanged during a temporal interval. http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that consists of a set of propositions that describe some entity. http://www.ontologyrepository.com/CommonCoreOntologies/Government government http://purl.obolibrary.org/obo/OBI_0000245 organization An Organization that exercises executive, legislative, or judicial authority over a Geopolitical Entity. http://www.ontologyrepository.com/CommonCoreOntologies/Stasis stasis http://purl.obolibrary.org/obo/BFO_0000015 process A process in which some independent continuant endures and one or more of the dependent entities it bears does not change in kind or intensity. http://purl.obolibrary.org/obo/ICO_0000185 informed assent form for cognitively impaired http://purl.obolibrary.org/obo/ICO_0000085 informed assent form An informed consent form that is adapted to the cognitive capacities of someone with significant mental impairment. http://purl.obolibrary.org/obo/ICO_0000187 legal representative role http://purl.obolibrary.org/obo/BFO_0000023 role A deontic role, which may be realized in an Act of Consent, where the bearer of the legal representative role consents on behalf of a person who lacks the capability to provide consent. http://purl.obolibrary.org/obo/ICO_0000188 organization-specified contact role http://purl.obolibrary.org/obo/ICO_0000230 contact person role A role borne by a human being who is part of a group of individuals and acts as a contact person for the group. http://purl.obolibrary.org/obo/ICO_0000190 description of participation benefit http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes potential benefit or estimates the likelihood of benefit. http://purl.obolibrary.org/obo/ICO_0000192 description of broad consent http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A description of allowed action types that has in view a wide, unspecified range of action types, and is restricted only by a regulator body. http://purl.obolibrary.org/obo/ICO_0000195 act of permitting http://purl.obolibrary.org/obo/IAO_0021009 deontic declaration A social act in which an agent bearing a deontic power role and realizes that role in the creation of a permission role. http://purl.obolibrary.org/obo/ICO_0000196 act of informed consenting http://purl.obolibrary.org/obo/ICO_0000195 act of permitting An act of permitting that is a process part of some informed consent process. http://purl.obolibrary.org/obo/ICO_0000199 permission role http://purl.obolibrary.org/obo/IAO_0021008 deontic role A deontic role that inheres in an agent and which permits certain actions. http://purl.obolibrary.org/obo/ICO_0000200 obsolete consent power role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic power role that, if realized, may permit an Act of Consent and thereby create a permission role, or revoke or modify a previously provided permission role created by permitting an Act of Consent. http://purl.obolibrary.org/obo/ICO_0000201 capability to consent http://purl.obolibrary.org/obo/BFO_0000016 disposition A cognitive capability inhering in some agent, which may be realized in an Act of Consent. http://purl.obolibrary.org/obo/ICO_0000202 competency to consent http://purl.obolibrary.org/obo/ICO_0000201 capability to consent A capability to consent that is sufficiently robust as to pass the legal requirements of some jurisdiction. http://purl.obolibrary.org/obo/ICO_0000203 obsolete assenter role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A role that is the output of an act of assent and which inheres in a human being, who, because they fail to satisfy certain criteria for consent, is thereby allowed the aid of a legal representative who aids them in an Act of Consent, and, in some contexts, may be realized in revoking or modifying the permission role that was output of the informed consent process of which the the Act of Assent was a process part. http://purl.obolibrary.org/obo/ICO_0000204 assenter http://purl.obolibrary.org/obo/ICO_0000220 agent An agent who has communicated their assent. http://purl.obolibrary.org/obo/ICO_0000205 consenter http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens An agent who, at some time, was the bearer of a consent power role, which was, in fact, realized in an act of informed consenting, and who, as a result of this act of informed consenting, now bears a consenter role. http://purl.obolibrary.org/obo/ICO_0000206 obsolete consenter role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic role that is output of some Act of Consent and, in some contexts, may be realized in revoking or modifying the permission role that was output of the same Act of Consent. http://purl.obolibrary.org/obo/ICO_0000215 deontic power role http://purl.obolibrary.org/obo/IAO_0021008 deontic role A deontic role that, if realized, is realized in the creation, modification, or revoking of other deontic roles. http://purl.obolibrary.org/obo/ICO_0000217 act of anonymizing http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves altering an information content entity that is associated with an individual, such that such association is lost or inaccessible. http://purl.obolibrary.org/obo/ICO_0000218 act of removing identifiable information http://purl.obolibrary.org/obo/ICO_0000217 act of anonymizing An act of anonymization that alters an information content entity by removing information content which identifies that individual. http://purl.obolibrary.org/obo/ICO_0000220 agent http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity (either a human being or an aggregate of humans such as an organization) which is active in a process or has the relevant capabilities of intentionality. http://purl.obolibrary.org/obo/ICO_0000221 act of informing http://purl.obolibrary.org/obo/IAO_0021003 social act A social act in which information that is thought to be true, salient, or which is held to have a high degree of certainty is communicated to an agent that previously lacked that information. http://purl.obolibrary.org/obo/ICO_0000223 consent power role http://purl.obolibrary.org/obo/ICO_0000215 deontic power role A deontic power role that may be realized in an act of consent that is a process part of an informed consent process. http://purl.obolibrary.org/obo/ICO_0000226 stasis of anonymization http://www.ontologyrepository.com/CommonCoreOntologies/StasisOfGenericallyDependentContinuant stasis of generically dependent continuant A stasis of generically dependent continuant that has participant some information content entity which, during the stasis, is unable to be used to identify some agent which the information is about. http://purl.obolibrary.org/obo/ICO_0000227 act of storing http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves placing a material entity in some location in order to maintain possession of it. http://purl.obolibrary.org/obo/ICO_0000228 act of data sharing http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which data possessed by one person or organization is shared with one or more other persons or organizations. http://purl.obolibrary.org/obo/ICO_0000230 contact person role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a person who is a designated contact for some other agent. http://purl.obolibrary.org/obo/ICO_0000231 jurisdiction http://purl.obolibrary.org/obo/BFO_0000029 site A site within which a deontic power may be realized, where that deontic power inheres in a formally created regulatory body. http://purl.obolibrary.org/obo/ICO_0000232 obsolete regulatory body http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An organization that has a deontic power role prescribed by some regulatory document that occurs in a stasis of regulation. http://purl.obolibrary.org/obo/ICO_0000233 regulatory document http://purl.obolibrary.org/obo/IAO_0000310 document A document that either prescribes actions or prescribes the permissions, obligations, restrictions, or protections relating to public or legal policy. http://purl.obolibrary.org/obo/ICO_0000234 human subject research regulatory document http://purl.obolibrary.org/obo/ICO_0000233 regulatory document A regulatory document designed to prescribe research involving human subjects. http://purl.obolibrary.org/obo/ICO_0000235 informed consent regulatory document http://purl.obolibrary.org/obo/ICO_0000233 regulatory document A regulatory document designed to prescribe an informed consent process or inputs in an informed consent process. http://purl.obolibrary.org/obo/ICO_0000236 informed consent rule http://purl.obolibrary.org/obo/IAO_0000055 rule A rule in an informed consent regulatory document that prescribes either an informed consent process or deontic roles inhering in agents that participate in an informed consent process. http://purl.obolibrary.org/obo/ICO_0000237 conditional informed consent rule http://purl.obolibrary.org/obo/IAO_0000055 rule A rule in an informed consent regulatory document that prescribes an informed consent process and has part trigger condition description. http://purl.obolibrary.org/obo/ICO_0000238 broad consent rule http://purl.obolibrary.org/obo/IAO_0000055 rule A rule in an informed consent regulatory document that prescribes deontic roles that may be realized in an unspecified range of activities, or which is subject to few restrictions. http://purl.obolibrary.org/obo/ICO_0000239 disclosure directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes information that must be revealed and prescribes to whom that information must be revealed. http://purl.obolibrary.org/obo/ICO_0000240 deontic power role directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes a deontic power role or the process that realizes it. http://purl.obolibrary.org/obo/ICO_0000241 obsolete confidentiality directive http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A directive information entity that prescribes the limits of disclosure regarding an agent’s identity. http://purl.obolibrary.org/obo/ICO_0000242 user input directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that, when signed, stamped, or initialed realizes a deontic role as described by the document specifications, or specifications in another related document. http://purl.obolibrary.org/obo/ICO_0000243 consequent directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that enumerates the results if a trigger condition describing failure to comply with a rule is met. http://purl.obolibrary.org/obo/ICO_0000244 permission directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A 'directive information entity' that prescribes an allowable action, where that action is otherwise impermissible. http://purl.obolibrary.org/obo/ICO_0000245 obsolete conditional permission directive http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A conditional specification that prescirbes a permission, should some trigger condition obtain. http://purl.obolibrary.org/obo/ICO_0000246 restriction directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes actions that are impermissible. http://purl.obolibrary.org/obo/ICO_0000247 conditional restriction directive http://purl.obolibrary.org/obo/IAO_0000001 conditional specification A conditional specification that prescirbes an impermissibility, should some trigger condition obtain. http://purl.obolibrary.org/obo/ICO_0000248 obligation directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes an obligation that is realized a deontic role that is the output of a document act. http://purl.obolibrary.org/obo/ICO_0000249 conditional obligation directive http://purl.obolibrary.org/obo/IAO_0000001 conditional specification A conditional specification that prescirbes an obligation, should some trigger condition obtain. http://purl.obolibrary.org/obo/ICO_0000250 liability directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the agent that is liable if a trigger condition is met. http://purl.obolibrary.org/obo/ICO_0000251 description of medical procedure http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes a medical procedure. http://purl.obolibrary.org/obo/ICO_0000252 trigger condition directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that describes some state of affairs such that, if that state of affairs holds, some other prescription follows. http://purl.obolibrary.org/obo/ICO_0000254 witness role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in an agent as a result of that agent having observed some process. http://purl.obolibrary.org/obo/ICO_0000255 withdrawal from participation directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some process for withdraw from another planned process. http://purl.obolibrary.org/obo/ICO_0000256 legal age http://purl.obolibrary.org/obo/IAO_0000030 information content entity A temporal region identifier that designates the temporal region during which a living person is alive, and where the temporal region is such that the living person is qualified to exercise a deontic power within a legal jurisdiction. http://purl.obolibrary.org/obo/ICO_0000257 act of approving http://purl.obolibrary.org/obo/IAO_0021003 social act A social act in which formal or official endorsement of some entity is communicated. http://purl.obolibrary.org/obo/ICO_0000258 consent language directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the language that must be used in an informed consent process. http://purl.obolibrary.org/obo/ICO_0000259 description of alternative http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes some process that may be elected. http://purl.obolibrary.org/obo/ICO_0000260 description of coercion http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes expressions or implications of threat that may compel an agent to act out of fear against the agent's will. http://purl.obolibrary.org/obo/ICO_0000262 cognitive impairment http://purl.obolibrary.org/obo/BFO_0000016 disposition A disposition to abnormality realized in cognitive processes that are qualitatively below those of individuals belonging to some type, to which the bearer of the disposition also belongs. http://purl.obolibrary.org/obo/ICO_0000263 economic vulnerability http://purl.unep.org/sdg/SDGIO_00000024 vulnerability A vulnerability due to exposure to a depressed or impoverished economic environment. http://purl.obolibrary.org/obo/ICO_0000264 educational vulnerability http://purl.unep.org/sdg/SDGIO_00000024 vulnerability A vulnerability due to exposure to a harsh learning environment. http://purl.obolibrary.org/obo/ICO_0000265 act of archiving informed consent http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process of storing the document output of an 'act of consent' for future use. http://purl.obolibrary.org/obo/ICO_0000266 contact method description http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes a method of some act of communicating. http://purl.obolibrary.org/obo/ICO_0000267 vulnerable population directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some process in which vulnerable individuals participate. http://purl.obolibrary.org/obo/ICO_0000268 confidentiality directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the nondisclosure of information. http://purl.obolibrary.org/obo/ICO_0000269 act of communicating http://purl.obolibrary.org/obo/IAO_0021003 social act A planned process in which some entity provides information to another entity. http://purl.obolibrary.org/obo/ICO_0000273 research method directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some research process. http://purl.obolibrary.org/obo/ICO_0000274 description of conditional compensation http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes the conditions under which compensation is due to some agent. http://purl.obolibrary.org/obo/ICO_0000275 description of discomfort http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes an emotional state of mental or physical uneasiness. http://purl.obolibrary.org/obo/ICO_0000276 description of collected biospecimens http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes biospecimens that have been collected. http://purl.obolibrary.org/obo/ICO_0000277 description of collected information http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes information that may be collected or the processes of information collection. http://purl.obolibrary.org/obo/ICO_0000278 description of future biospecimen use http://purl.obolibrary.org/obo/ICO_0000305 description of future use A descriptive information content entity that describes how biospecimens will be used. http://purl.obolibrary.org/obo/ICO_0000279 description of procedure for obtaining further information http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes some procedure for obtaining information only available at some future time. http://purl.obolibrary.org/obo/ICO_0000280 contact method directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes methods for contacting an agent. http://purl.obolibrary.org/obo/ICO_0000283 description of financial risk http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A description of risk that describes the magnitude of potential financial loss. http://purl.obolibrary.org/obo/ICO_0000284 description of reputational risk http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A description of risk that describes the magnitude or probability of damage to the reputation of an agent in a social context. http://purl.obolibrary.org/obo/ICO_0000285 vulnerable individual role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in an agent or group of agents that is the output of a process during which the agent or group of agents is designated as belonging to a vulnerable group. http://purl.obolibrary.org/obo/ICO_0000286 regulatory oversight role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a regulatory body that, if realized, is realized in some act of regulatory supervision. http://purl.obolibrary.org/obo/ICO_0000287 minor role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a Homo sapiens that, if realized, is realized within the organizational context of a legal jurisdiction, when the bearer fails to meet the legal threshold for adulthood. http://purl.obolibrary.org/obo/ICO_0000288 pregnant woman http://purl.obolibrary.org/obo/BFO_0000030 object A woman who is pregnant. http://purl.obolibrary.org/obo/ICO_0000289 prisoner role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a Homo sapiens that is realized in a process of incarceration. http://purl.obolibrary.org/obo/ICO_0000290 waiver document http://purl.obolibrary.org/obo/IAO_0000310 document A document designed for the purpose of assisting in an act of waiving, and which contains both some description of waiver and some waiver directive. http://purl.obolibrary.org/obo/ICO_0000291 description of incentive http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes an entity that provides positive motivation for some material entity. http://purl.obolibrary.org/obo/ICO_0000292 study protocol http://purl.obolibrary.org/obo/OBI_0000272 protocol A protocol that is formal plan of a research activity, including the objective, rationale, design, materials, and methods for the conduct of the activity. http://purl.obolibrary.org/obo/ICO_0000293 data sharing directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the information that is permitted to be shared or the processes for sharing that information. http://purl.obolibrary.org/obo/ICO_0000294 permission transfer directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the process of transferring a permission role from one bearer to another. http://purl.obolibrary.org/obo/ICO_0000295 future use directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the processes that involve some entity as a participant. http://purl.obolibrary.org/obo/ICO_0000296 description of consequences of voluntarily withdrawal http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes the negative impact or harm that may befall an agent who withdraws from an investigation. http://purl.obolibrary.org/obo/ICO_0000297 stasis of regulation http://www.ontologyrepository.com/CommonCoreOntologies/StasisOfGenericallyDependentContinuant stasis of generically dependent continuant A stasis of generically dependent continuant that has participant some information content entity and during which that information content entity is recognized within that jurisdiction and directs governance within that jurisdiction. http://purl.obolibrary.org/obo/ICO_0000298 stasis of law http://purl.obolibrary.org/obo/ICO_0000297 stasis of regulation A stasis of regulation that has participant some information content entity and during which that information content entity is recognized as a law within the jurisdiction in which the stasis of regulation is occurring. http://purl.obolibrary.org/obo/ICO_0000299 protection directive http://purl.obolibrary.org/obo/ICO_0000252 trigger condition directive A trigger condition directive that prescribes conditions for which a individual bears a vulnerability role or disposition of vulnerability, or a population of such individuals. http://purl.obolibrary.org/obo/ICO_0000300 act of regulatory supervision http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a regulatory body directs or monitors another planned process. http://purl.obolibrary.org/obo/ICO_0000301 act of abuse http://purl.obolibrary.org/obo/BFO_0000015 process A process of mistreating an entity such that the mistreated entity is harmed. http://purl.obolibrary.org/obo/ICO_0000302 act of disclosure http://purl.obolibrary.org/obo/ICO_0000269 act of communicating An act of communicating in which information is shared, overriding or violating a judgment that the information should not be shared. http://purl.obolibrary.org/obo/ICO_0000303 description of research procedure http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes a research procedure. http://purl.obolibrary.org/obo/ICO_0000304 description of future data use http://purl.obolibrary.org/obo/ICO_0000305 description of future use A descriptive information content entity that describes how data will be used. http://purl.obolibrary.org/obo/ICO_0000305 description of future use http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes future use of material or information. http://purl.obolibrary.org/obo/ICO_0000306 act of waiving http://purl.obolibrary.org/obo/IAO_0021003 social act A social act of relinquishing a right, claim, or privilege. http://purl.obolibrary.org/obo/ICO_0000307 waiver directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes an act of waiving. http://purl.obolibrary.org/obo/ICO_0000308 description of waiver http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes a directive information content entity that can be ignored. http://purl.obolibrary.org/obo/ICO_0000309 abused person role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a Homo sapiens that, if realized, is realized in being a passive participant in some act of abuse process. http://purl.obolibrary.org/obo/ICO_0000310 directive about research of biospecimens http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some investigation of biospecimens. http://purl.obolibrary.org/obo/ICO_0000311 act of genetic testing http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves the investigation of some sequence of DNA. http://purl.obolibrary.org/obo/ICO_0000312 genetic testing directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some act of genetic testing. http://purl.obolibrary.org/obo/ICO_0000313 excess material role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in some material entity that is realized in an act of artifact modification where the material entity is separated from another portion of material. http://purl.obolibrary.org/obo/ICO_0000314 investigation objective specification http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification whose intended process endpoint is an investigation. http://purl.obolibrary.org/obo/ICO_0000315 secondary use objective specification http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification that prescribes the participation of an information content entity or a material entity in a process prescirbed by a future invesitgation objective specification. http://purl.obolibrary.org/obo/ICO_0000316 role directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes some role. http://purl.obolibrary.org/obo/ICO_0000317 patient role directive http://purl.obolibrary.org/obo/ICO_0000316 role directive A role directive that prescribes the bearer of a patient role in a process. http://purl.obolibrary.org/obo/ICO_0000318 regulatory oversight role directive http://purl.obolibrary.org/obo/ICO_0000316 role directive A role directive that prescirbes the bearer of a regulatory oversight role in a process. http://purl.obolibrary.org/obo/ICO_0000319 investigator role directive http://purl.obolibrary.org/obo/ICO_0000316 role directive A role directive that prescribes the bearer of an investigator role in a process. http://purl.obolibrary.org/obo/ICO_0000320 legally authorized representative role directive http://purl.obolibrary.org/obo/ICO_0000316 role directive A role directive that prescribes the bearer of a legally authorized representative role in process. http://purl.obolibrary.org/obo/IAO_0000646 postal code http://purl.obolibrary.org/obo/IAO_0020000 identifier An identifier that denotes some postal delivery route, some aggregate of postal delivery routes or a geographical region and was created for the purpose of sorting and delivering mail. http://purl.obolibrary.org/obo/IAO_0000647 Postal delivery route http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification that if realized, is realized by the delivery of mail to some facility or mailbox within some geographical region. http://purl.obolibrary.org/obo/UBERON_0000310 breast http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The upper ventral region of the torso of an organism. http://purl.obolibrary.org/obo/PATO_0000051 morphology http://purl.obolibrary.org/obo/PATO_0001241 physical object quality A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure. http://purl.obolibrary.org/obo/PATO_0000169 viability http://purl.obolibrary.org/obo/PATO_0001995 organismal quality An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population. http://purl.obolibrary.org/obo/PATO_0001018 physical quality http://purl.obolibrary.org/obo/PATO_0001241 physical object quality A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities. http://purl.obolibrary.org/obo/PATO_0001241 physical object quality http://purl.obolibrary.org/obo/BFO_0000019 quality A quality which inheres in a continuant. http://purl.obolibrary.org/obo/UBERON_0036149 suprapubic skin http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Area of skin in the hypoastric region of the abdomen. http://purl.obolibrary.org/obo/ICO_0000171 filled multiple choice text entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is the recorded response to a multiple choice question. http://purl.obolibrary.org/obo/ICO_0000145 postmortem donation of biological specimen http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which an agent's designated biological specimen is collected after the death of the agent. http://purl.obolibrary.org/obo/ICO_0000164 subject withdrawal with sample stored for unlimited time http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that represents a study participant withdrawing from the study and agreeing to have the participant sample stored for unlimited time. http://purl.obolibrary.org/obo/OBI_0002544 esophagogastric junction specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from the esophagogastric junction. http://purl.obolibrary.org/obo/OBI_0002545 ileum specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from ileum. http://purl.obolibrary.org/obo/OBI_0002546 liver specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from liver. http://purl.obolibrary.org/obo/OBI_0002547 minor salivary gland specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from minor salivary gland. http://purl.obolibrary.org/obo/OBI_0002548 omentum specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from omentum. http://purl.obolibrary.org/obo/OBI_0002549 ovary specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from female gonad. http://purl.obolibrary.org/obo/OBI_0002551 suprapubic skin specimen http://purl.obolibrary.org/obo/OBI_0002526 skin of body specimen A specimen that is derived from suprapubic skin. http://purl.obolibrary.org/obo/OBI_0002552 testis specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from testis. http://purl.obolibrary.org/obo/OBI_0002553 uterus specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from uterus. http://purl.obolibrary.org/obo/OBI_0002555 age group inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states an age bracket which, if met, makes an entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002556 minimum age value specification http://purl.obolibrary.org/obo/OBI_0001933 value specification A value specifcation that specifies the youngest age when specifying an age range. http://purl.obolibrary.org/obo/OBI_0002557 maximum age value specification http://purl.obolibrary.org/obo/OBI_0001933 value specification A value specifcation that specifies the oldest age when specifying an age range. http://purl.obolibrary.org/obo/OBI_0002558 use of medication inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states a a set of medications, which, if used by an entity, makes that entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002559 hospital patient inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion defines that a human being has to be a hospital patient to be suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002560 family status inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more family statuses, which, if met, makes a human being suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002561 sex inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more sexes which, if met, makes an entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002562 country of residence inclusion criteria http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more countries of residence which, if met, makes a human being suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002563 ethnicity inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criteria that defines and states one or more ethnicities which, if met, makes an entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/MONDO_0000001 disease or disorder http://purl.obolibrary.org/obo/BFO_0000016 disposition A disease is a disposition to undergo pathological processes that exists in an organism because of one or more disorders in that organism. http://purl.obolibrary.org/obo/UBERON_8470000 placental blood http://purl.obolibrary.org/obo/UBERON_0000178 blood Blood located in the placenta. http://purl.obolibrary.org/obo/OBI_0003610 reactant role http://purl.obolibrary.org/obo/BFO_0000023 role A role borne by a biological or chemical entity that participates or has molecular components that participate in a chemical reaction. http://purl.obolibrary.org/obo/UBERON_0000002 uterine cervix http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Lower, narrow portion of the uterus where it joins with the top end of the vagina. http://purl.obolibrary.org/obo/UBERON_0000057 urethra http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The fibromuscular tubular canal through which urine is discharged from the bladder to the exterior via the external urinary meatus; in males, the urethra is joined by the ejaculatory ducts and serves as a passageway for semen during ejaculation, as well as a canal for urine during voiding; in females, the urethra is shorter and emerges above the vaginal opening. http://purl.obolibrary.org/obo/UBERON_0000473 testis http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A gonad of a male animal. A gonad produces and releases sperm. http://purl.obolibrary.org/obo/UBERON_0000947 aorta http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The main trunk of the systemic arterial system that carries blood from the heart to all the organs and other structures of the body, bringing oxygenated blood to all parts of the body in the systemic circulation. http://purl.obolibrary.org/obo/UBERON_0001037 strand of hair http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A filament, mostly protein, that grows from follicles found in the dermis[WP]. http://purl.obolibrary.org/obo/UBERON_0001264 pancreas http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating hormones[GO]. http://purl.obolibrary.org/obo/UBERON_0001557 upper respiratory tract http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The segment of the respiratory tract that starts proximally with the nose and ends distally with the cricoid cartilage, before continuing to the trachea. http://purl.obolibrary.org/obo/UBERON_0001621 coronary artery http://purl.obolibrary.org/obo/UBERON_0001637 artery An artery that supplies the myocardium. http://purl.obolibrary.org/obo/UBERON_0001728 nasopharynx http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The section of the pharynx that lies above the soft palate. http://purl.obolibrary.org/obo/UBERON_0001729 oropharynx http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The portion of the pharynx that lies between the soft palate and the upper edge of the epiglottis. http://purl.obolibrary.org/obo/UBERON_0001797 vitreous humor http://purl.obolibrary.org/obo/UBERON_0000463 organism substance A transparent, semigelatinous substance that fills the cavity behind the crystalline lens of the eye and in front of the retina. http://purl.obolibrary.org/obo/UBERON_0001987 placenta http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell. http://purl.obolibrary.org/obo/UBERON_0002037 cerebellum http://purl.obolibrary.org/obo/UBERON_0000481 multi-tissue structure Part of the metencephalon that lies in the posterior cranial fossa behind the brain stem. It is concerned with the coordination of movement[MESH]. A large dorsally projecting part of the brain concerned especially with the coordination of muscles and the maintenance of bodily equilibrium, situated between the brain stem and the back of the cerebrum , and formed in humans of two lateral lobes and a median lobe[BTO]. Brain structure derived from the anterior hindbrain, and perhaps including posterior midbrain. The cerebellum plays a role in somatic motor function, the control of muscle tone, and balance[ZFA]. http://purl.obolibrary.org/obo/UBERON_0002369 adrenal gland http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Either of a pair of complex endocrine organs near the anterior medial border of the kidney consisting of a mesodermal cortex that produces glucocorticoid, mineralocorticoid, and androgenic hormones and an ectodermal medulla that produces epinephrine and norepinephrine[BTO]. http://purl.obolibrary.org/obo/UBERON_0002371 bone marrow http://purl.obolibrary.org/obo/UBERON_0000479 tissue The soft tissue that fills the cavities of bones. http://purl.obolibrary.org/obo/UBERON_0007650 esophagogastric junction http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The junction between the esophagus and the stomach epithelium. http://purl.obolibrary.org/obo/BFO_0000002 continuant http://purl.obolibrary.org/obo/BFO_0000001 entity An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000001 entity An entity that has temporal parts and that happens, unfolds or develops through time. http://purl.obolibrary.org/obo/BFO_0000004 independent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. http://purl.obolibrary.org/obo/BFO_0000005 obsolete dependent continuant http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A continuant that is either dependent on one or other independent continuant bearers or inheres in or is borne by other entities. http://purl.obolibrary.org/obo/BFO_0000015 process http://purl.obolibrary.org/obo/BFO_0000003 occurrent An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. http://purl.obolibrary.org/obo/BFO_0000017 realizable entity http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances. http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n > 1 independent continuants c1, … cn which are not spatial regions are such that for all 1 i < j n, ci and cj share no common parts, are such that for each 1 i n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004]) http://purl.obolibrary.org/obo/BFO_0000023 role http://purl.obolibrary.org/obo/BFO_0000017 realizable entity A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts. http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time. http://purl.obolibrary.org/obo/BFO_0000035 process boundary http://purl.obolibrary.org/obo/BFO_0000003 occurrent p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001]) http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/BFO_0000004 independent continuant An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. http://purl.obolibrary.org/obo/BFO_0000140 continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001]) http://purl.obolibrary.org/obo/BFO_0000144 process profile http://purl.obolibrary.org/obo/BFO_0000015 process b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002]) http://purl.obolibrary.org/obo/BFO_0000145 relational quality http://purl.obolibrary.org/obo/BFO_0000019 quality b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001]) http://purl.obolibrary.org/obo/ENVO_00010483 environmental material http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity which other material entities in an environmental system are primarily or partially composed of. http://purl.obolibrary.org/obo/GAZ_00000448 geographic location http://purl.obolibrary.org/obo/BFO_0000029 site A reference to a place on the Earth, by its name or by its geographical location. http://purl.obolibrary.org/obo/IAO_0000001 conditional specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that specifies what should happen if the trigger condition is fulfilled. http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label http://purl.obolibrary.org/obo/IAO_0000009 datum label A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure. http://purl.obolibrary.org/obo/IAO_0000006 narrative object http://purl.obolibrary.org/obo/IAO_0000030 information content entity A narrative object is an information content entity that is a set of propositions. http://purl.obolibrary.org/obo/IAO_0000007 action specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that describes an action the bearer will take. http://purl.obolibrary.org/obo/IAO_0000009 datum label http://purl.obolibrary.org/obo/IAO_0000030 information content entity A label is a symbol that is part of some other datum and is used to either partially define the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label http://purl.obolibrary.org/obo/IAO_0000010 software http://purl.obolibrary.org/obo/IAO_0000104 plan specification Software is a plan specification composed of a series of instructions that can be interpreted by or directly executed by a processing unit. http://purl.obolibrary.org/obo/IAO_0000012 obsolete2_digital entity http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A digital entity is an information entity which is a collection of bits that can be interpreted by a computer. Two digital entities are the same if they are bitwise identical. http://purl.obolibrary.org/obo/IAO_0000013 journal article http://purl.obolibrary.org/obo/IAO_0000311 publication A report that is published in a journal. http://purl.obolibrary.org/obo/IAO_0000015 information carrier http://purl.obolibrary.org/obo/BFO_0000019 quality A quality of an information bearer that imparts the information content http://purl.obolibrary.org/obo/IAO_0000017 model number http://purl.obolibrary.org/obo/IAO_0000028 symbol A model number is an information content entity specifically borne by catalogs, design specifications, advertising materials, inventory systems and similar that is about manufactured objects of the same class. The model number is an alternative term for the class. The manufactered objects may or may not also bear the model number. Model numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots. http://purl.obolibrary.org/obo/IAO_0000019 obsolete2_binary digital entity http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A binary digital entity is a digital entity that is encoded in a way that is not easily human readable and that contains other than text characters. http://purl.obolibrary.org/obo/IAO_0000024 obsolete_unit of measure http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class a unit of measure is the quality of some material entity compared to which another quality is some multiple of. http://purl.obolibrary.org/obo/IAO_0000025 programming language http://purl.obolibrary.org/obo/IAO_0000104 plan specification A language in which source code is written that is intended to be executed/run by a software interpreter. Programming languages are ways to write instructions that specify what to do, and sometimes, how to do it. http://purl.obolibrary.org/obo/IAO_0000028 symbol http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is a mark(s) or character(s) used as a conventional representation of another entity. http://purl.obolibrary.org/obo/IAO_0000029 numeral http://purl.obolibrary.org/obo/IAO_0000028 symbol A symbol that denotes a number. http://purl.obolibrary.org/obo/IAO_0000030 information content entity http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant A generically dependent continuant that is about some thing. http://purl.obolibrary.org/obo/IAO_0000031 integer numeral http://purl.obolibrary.org/obo/IAO_0000029 numeral A numeral that denotes an integer http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label. http://purl.obolibrary.org/obo/IAO_0000033 directive information entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity whose concretizations indicate to their bearer how to realize them in a process. http://purl.obolibrary.org/obo/IAO_0000037 dot plot http://purl.obolibrary.org/obo/IAO_0000038 graph A dot plot is a report graph which is a graphical representation of data where each data point is represented by a single dot placed on coordinates corresponding to data point values in particular dimensions. http://purl.obolibrary.org/obo/IAO_0000038 graph http://purl.obolibrary.org/obo/IAO_0000309 diagram A diagram that presents one or more tuples of information by mapping those tuples in to a two dimensional space in a non arbitrary way. http://purl.obolibrary.org/obo/IAO_0000047 obsolete2_text based digital entity http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A text based digital entity is a digital entity that is encoded so that it only contains text characters. http://purl.obolibrary.org/obo/IAO_0000055 rule http://purl.obolibrary.org/obo/IAO_0000001 conditional specification A rule is an executable which guides, defines, restricts actions. http://purl.obolibrary.org/obo/IAO_0000059 obsolete2_report figure http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A report figure is a report display element that has some aspect of illustration, but may be a composite of figures, images, and other elements http://purl.obolibrary.org/obo/IAO_0000064 algorithm http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which describes the inputs and output of mathematical functions as well as workflow of execution for achieving an predefined objective. Algorithms are realized usually by means of implementation as computer programs for execution by automata. http://purl.obolibrary.org/obo/IAO_0000065 software interpreter http://purl.obolibrary.org/obo/IAO_0000064 algorithm A software interpreter is a software application that executes some specified input software. http://purl.obolibrary.org/obo/IAO_0000078 curation status specification http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value. http://purl.obolibrary.org/obo/IAO_0000079 density plot http://purl.obolibrary.org/obo/IAO_0000038 graph A density plot is a report graph which is a graphical representation of data where the tint of a particular pixel corresponds to some kind of function corresponding the the amount of data points relativelly with their distance from the the pixel. http://purl.obolibrary.org/obo/IAO_0000088 report http://purl.obolibrary.org/obo/IAO_0000310 document A document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record). http://purl.obolibrary.org/obo/IAO_0000091 obsolete_report element http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A report element is a narrative object in which information is presented and consumed by a human being, and is part of a report. Examples of report elements are figure (dot plot), table, text portion (may include a movie or audio clip on a web page). http://purl.obolibrary.org/obo/IAO_0000093 obsolete2_binary executable http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class Binary executable is a digital entity consisting of the binary representation of machine instructions of a specific processor or they may be binary pseudocode for a virtual machine. A non-source executable file is also called an object program. It is assumed that the binary executable file contains properly-formatted computer instructions. (derived from Wikipedia, Nov 1, 2007) http://purl.obolibrary.org/obo/IAO_0000096 source code module http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A source code module is a directive information entity that specifies, using a programming language, some algorithm. http://purl.obolibrary.org/obo/IAO_0000097 obsolete_report table http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A report table is a report display element consisting of a matrix of cells layed out in a grid, some set of which are filled with some information content http://purl.obolibrary.org/obo/IAO_0000098 data format specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A data format specification is the information content borne by the document published defining the specification. Example: The ISO document specifying what encompasses an XML document; The instructions in a XSD file http://purl.obolibrary.org/obo/IAO_0000100 data set http://purl.obolibrary.org/obo/IAO_0000027 data item A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets. http://purl.obolibrary.org/obo/IAO_0000101 image http://purl.obolibrary.org/obo/IAO_0000308 figure An image is an affine projection to a two dimensional surface, of measurements of some quality of an entity or entities repeated at regular intervals across a spatial range, where the measurements are represented as color and luminosity on the projected on surface. http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part http://purl.obolibrary.org/obo/IAO_0000027 data item Data about an ontology part is a data item about a part of an ontology, for example a term http://purl.obolibrary.org/obo/IAO_0000104 plan specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity with action specifications and objective specifications as parts, and that may be concretized as a realizable entity that, if realized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified. http://purl.obolibrary.org/obo/IAO_0000105 obsolete2_digital document http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A digital document is a digital entity consisting of an electronic file which can be rendered into human-readable form by one or more computational applications. The digital document does not refer to the information content of the document but to an instance of the file. http://purl.obolibrary.org/obo/IAO_0000109 measurement datum http://purl.obolibrary.org/obo/IAO_0000027 data item A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device. http://purl.obolibrary.org/obo/IAO_0000129 version number http://purl.obolibrary.org/obo/IAO_0000028 symbol A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name. http://purl.obolibrary.org/obo/IAO_0000131 serial number http://purl.obolibrary.org/obo/IAO_0000028 symbol A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots. http://purl.obolibrary.org/obo/IAO_0000140 setting datum http://purl.obolibrary.org/obo/IAO_0000027 data item A settings datum is a datum that denotes some configuration of an instrument. http://purl.obolibrary.org/obo/IAO_0000144 conclusion textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses the results of reasoning about a problem, for instance as typically found towards the end of scientific papers. http://purl.obolibrary.org/obo/IAO_0000178 material information bearer http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity in which a concretization of an information content entity inheres. http://purl.obolibrary.org/obo/IAO_0000179 histogram http://purl.obolibrary.org/obo/IAO_0000038 graph A histogram is a report graph which is a statistical description of a distribution in terms of occurrence frequencies of different event classes. http://purl.obolibrary.org/obo/IAO_0000180 heatmap http://purl.obolibrary.org/obo/IAO_0000038 graph A heatmap is a report graph which is a graphical representation of data where the values taken by a variable(s) are shown as colors in a two-dimensional map. http://purl.obolibrary.org/obo/IAO_0000181 Venn diagram http://purl.obolibrary.org/obo/IAO_0000038 graph A Venn diagram is a report graph showing all hypothetically possible logical relations between a finite collection of sets. http://purl.obolibrary.org/obo/IAO_0000182 obsolete_survival curve http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time. http://purl.obolibrary.org/obo/IAO_0000183 dendrogram http://purl.obolibrary.org/obo/IAO_0000038 graph A dendrogram is a report graph which is a tree diagram frequently used to illustrate the arrangement of the clusters produced by a clustering algorithm. http://purl.obolibrary.org/obo/IAO_0000185 photograph http://purl.obolibrary.org/obo/IAO_0000101 image A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc. http://purl.obolibrary.org/obo/IAO_0000186 photographic print http://purl.obolibrary.org/obo/IAO_0000178 material information bearer A photographic print is a material entity upon which a photograph generically depends. http://purl.obolibrary.org/obo/IAO_0000225 obsolescence reason specification http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value. http://purl.obolibrary.org/obo/IAO_0000301 citation http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity intended to identify a particular publication. http://purl.obolibrary.org/obo/IAO_0000302 author identification http://purl.obolibrary.org/obo/IAO_0000590 written name A textual entity intended to identify a particular author http://purl.obolibrary.org/obo/IAO_0000303 institutional identification http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity intended to identify a particular institution http://purl.obolibrary.org/obo/IAO_0000304 caption http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that describes a figure http://purl.obolibrary.org/obo/IAO_0000305 document title http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that names a document http://purl.obolibrary.org/obo/IAO_0000306 table http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions http://purl.obolibrary.org/obo/IAO_0000307 table of abbreviations http://purl.obolibrary.org/obo/IAO_0000306 table A table where the constituent texts are abbreviations and their expansions http://purl.obolibrary.org/obo/IAO_0000308 figure http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something. http://purl.obolibrary.org/obo/IAO_0000309 diagram http://purl.obolibrary.org/obo/IAO_0000308 figure A figure that expresses one or more propositions http://purl.obolibrary.org/obo/IAO_0000310 document http://purl.obolibrary.org/obo/IAO_0000030 information content entity A collection of information content entities intended to be understood together as a whole http://purl.obolibrary.org/obo/IAO_0000313 patent http://purl.obolibrary.org/obo/IAO_0000310 document A document that has been accepted by a patent authority http://purl.obolibrary.org/obo/IAO_0000314 document part http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is part of a document. http://purl.obolibrary.org/obo/IAO_0000321 author list http://purl.obolibrary.org/obo/IAO_0000314 document part A part of a document that enumerates the authors of the document http://purl.obolibrary.org/obo/IAO_0000322 institution list http://purl.obolibrary.org/obo/IAO_0000314 document part A part of a document that has parts that are institution identifications associated with the authors of the document http://purl.obolibrary.org/obo/IAO_0000327 table of contents http://purl.obolibrary.org/obo/IAO_0000306 table A table that relates document parts to specific locations in a document (usually page numbers). This is also a document part (subsumption there should be inferred). http://purl.obolibrary.org/obo/IAO_0000328 table of figures http://purl.obolibrary.org/obo/IAO_0000306 table A table that relates figures in a document to specific locations in that document (usually page numbers). This is also a document part (subsumption there should be inferred). http://purl.obolibrary.org/obo/IAO_0000329 running title http://purl.obolibrary.org/obo/IAO_0000305 document title A shorter version of a document title http://purl.obolibrary.org/obo/IAO_0000330 copyright section http://purl.obolibrary.org/obo/IAO_0000314 document part A document part that describes legal restrictions on making or distributing copies of the document http://purl.obolibrary.org/obo/IAO_0000400 cartesian spatial coordinate datum http://purl.obolibrary.org/obo/IAO_0000027 data item A cartesian spatial coordinate datum is a representation of a point in a spatial region, in which equal changes in the magnitude of a coordinate value denote length qualities with the same magnitude http://purl.obolibrary.org/obo/IAO_0000401 one dimensional cartesian spatial coordinate datum http://purl.obolibrary.org/obo/IAO_0000400 cartesian spatial coordinate datum A cartesion spatial coordinate datum that uses one value to specify a position along a one dimensional spatial region http://purl.obolibrary.org/obo/IAO_0000402 two dimensional cartesian spatial coordinate datum http://purl.obolibrary.org/obo/IAO_0000400 cartesian spatial coordinate datum A cartesion spatial coordinate datum that uses two values to specify a position within a two dimensional spatial region http://purl.obolibrary.org/obo/IAO_0000403 three dimensional cartesian spatial coordinate datum http://purl.obolibrary.org/obo/IAO_0000400 cartesian spatial coordinate datum A cartesion spatial coordinate datum that uses three values to specify a position within a three dimensional spatial region http://purl.obolibrary.org/obo/IAO_0000408 length measurement datum http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum A scalar measurement datum that is the result of measurement of length quality http://purl.obolibrary.org/obo/IAO_0000409 denotator type http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part A denotator type indicates how a term should be interpreted from an ontological perspective. http://purl.obolibrary.org/obo/IAO_0000414 mass measurement datum http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum A scalar measurement datum that is the result of measurement of mass quality http://purl.obolibrary.org/obo/IAO_0000415 hypothesis textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses an assertion that is intended to be tested. http://purl.obolibrary.org/obo/IAO_0000416 time measurement datum http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum A scalar measurement datum that is the result of measuring a temporal interval http://purl.obolibrary.org/obo/IAO_0000422 postal address http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is used as directive to deliver something to a person, or organization http://purl.obolibrary.org/obo/IAO_0000442 author role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a person or organization that is realized when the bearer participates in the work which is the basis of the document, in the writing of the document, and signs it with their name. http://purl.obolibrary.org/obo/IAO_0000443 data item extraction from journal article http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which journal articles are read or processed and data items are extracted, typically for further analysis or indexing http://purl.obolibrary.org/obo/IAO_0000572 documenting http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a document is created or added to by including the specified input in it. http://purl.obolibrary.org/obo/IAO_0000576 obsolete_establishing a CRID registry http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class a planned process with the objective to establish a system that allows to refer to specific entities of a certain kind and store information about them, by establishing a CRID registry and plan specifications for the process of 1) assigning a CRID and 2) looking up a CRID. http://purl.obolibrary.org/obo/IAO_0000590 written name http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that denotes a particular in reality. http://purl.obolibrary.org/obo/IAO_0000591 software method http://purl.obolibrary.org/obo/IAO_0000010 software A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task. http://purl.obolibrary.org/obo/IAO_0000592 software module http://purl.obolibrary.org/obo/IAO_0000010 software A software module is software composed of a collection of software methods. http://purl.obolibrary.org/obo/IAO_0000593 software library http://purl.obolibrary.org/obo/IAO_0000010 software A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application. http://purl.obolibrary.org/obo/IAO_0000594 software application http://purl.obolibrary.org/obo/IAO_0000010 software A software application is software that can be directly executed by some processing unit. http://purl.obolibrary.org/obo/IAO_0000595 software script http://purl.obolibrary.org/obo/IAO_0000010 software A software script is software whose instructions can be executed using a software interpreter. http://purl.obolibrary.org/obo/OBI_0000011 planned process http://purl.obolibrary.org/obo/BFO_0000015 process A process that realizes a plan which is the concretization of a plan specification. http://purl.obolibrary.org/obo/OBI_0000017 regulatory role http://purl.obolibrary.org/obo/BFO_0000023 role a role which inheres in material entities and is realized in the processes of making, enforcing or being defined by legislation or orders issued by a governmental body. http://purl.obolibrary.org/obo/OBI_0000047 processed material http://purl.obolibrary.org/obo/BFO_0000040 material entity Is a material entity that is created or changed during material processing. http://purl.obolibrary.org/obo/OBI_0000066 investigation http://purl.obolibrary.org/obo/OBI_0000011 planned process a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s). http://purl.obolibrary.org/obo/OBI_0000079 culture medium http://purl.obolibrary.org/obo/OBI_0000047 processed material a processed material that provides the needed nourishment for microorganisms or cells grown in vitro. http://purl.obolibrary.org/obo/OBI_0000097 participant under investigation role http://purl.obolibrary.org/obo/BFO_0000023 role A role that is realized through the execution of a study design in which the bearer of the role participates and in which data about that bearer is collected. http://purl.obolibrary.org/obo/OBI_0000112 specimen role http://purl.obolibrary.org/obo/BFO_0000023 role A role borne by a material entity that is obtained during a specimen collection process and that can be realized by performing measurements or observations on the specimen. http://purl.obolibrary.org/obo/OBI_0000151 filter paper http://purl.obolibrary.org/obo/OBI_0000932 material separation device A device manufacture with the intent to provide a porous unsized paper used for filtering. http://purl.obolibrary.org/obo/OBI_0000181 population http://purl.obolibrary.org/obo/BFO_0000040 material entity a population is a collection of individuals from the same taxonomic class living, counted or sampled at a particular site or in a particular area http://purl.obolibrary.org/obo/OBI_0000245 organization http://purl.obolibrary.org/obo/ICO_0000220 agent An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members. http://purl.obolibrary.org/obo/OBI_0000257 DNA extraction http://purl.obolibrary.org/obo/OBI_0666667 nucleic acid extraction A DNA extraction is a nucleic acid extraction where the desired output material is DNA. http://purl.obolibrary.org/obo/OBI_0000272 protocol http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process. http://purl.obolibrary.org/obo/OBI_0000274 adding a material entity into a target http://purl.obolibrary.org/obo/OBI_0000652 material combination is a process with the objective to place a material entity bearing the 'material to be added role' into a material bearing the 'target of material addition role'. http://purl.obolibrary.org/obo/OBI_0000319 material to be added role http://purl.obolibrary.org/obo/BFO_0000023 role A role of a material entity that is realized in an "adding a material entity into a target" process where the bearer of the role is added into another material entity (the target). http://purl.obolibrary.org/obo/OBI_0000338 drawing a conclusion based on data http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which data gathered in an investigation is evaluated in the context of existing knowledge with the objective to generate more general conclusions or to conclude that the data does not allow one to draw general conclusion http://purl.obolibrary.org/obo/OBI_0000339 planning http://purl.obolibrary.org/obo/BFO_0000015 process a process of creating or modifying a plan specification http://purl.obolibrary.org/obo/OBI_0000341 histological sample preparation http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process histological sample preparation is the preparation of an input tissue via slicing and labeling to make tissue microstructure of interest visible in a future histology assay http://purl.obolibrary.org/obo/OBI_0000370 contain function http://purl.obolibrary.org/obo/BFO_0000034 function A contain function is a function to constrain a material entities location in space http://purl.obolibrary.org/obo/OBI_0000372 material separation function http://purl.obolibrary.org/obo/BFO_0000034 function A material separation function is a function that increases the resolution between two or more material entities. The to distinction between the entities is usually based on some associated physical quality. http://purl.obolibrary.org/obo/OBI_0000378 filter function http://purl.obolibrary.org/obo/OBI_0000372 material separation function A filter function is a function to prevent the flow of certain entities based on a quality or qualities of the entity while allowing entities which have different qualities to pass through http://purl.obolibrary.org/obo/OBI_0000379 mechanical function http://purl.obolibrary.org/obo/BFO_0000034 function A mechanical function is a function that is realised via mechanical work (through an certain amount of energy transferred by some force). http://purl.obolibrary.org/obo/OBI_0000434 adding material objective http://purl.obolibrary.org/obo/OBI_0000686 material combination objective is the specification of an objective to add a material into a target material. The adding is asymmetric in the sense that the target material largely retains its identity http://purl.obolibrary.org/obo/OBI_0000444 target of material addition role http://purl.obolibrary.org/obo/BFO_0000023 role A role of a material entity that is realized in an "adding a material entity into a target" process where the bearer of the role (the target) receives the addition of another material entity. http://purl.obolibrary.org/obo/OBI_0000450 regulatory agency http://purl.obolibrary.org/obo/OBI_0000245 organization A regulatory agency is a organization that has responsibility over or for the legislation (acts and regulations) for a given sector of the government. http://purl.obolibrary.org/obo/OBI_0000453 measure function http://purl.obolibrary.org/obo/BFO_0000034 function Measure function is a function that is borne by a processed material and realized in a process in which information about some entity is expressed relative to some reference. http://purl.obolibrary.org/obo/OBI_0000471 study design execution http://purl.obolibrary.org/obo/OBI_0000011 planned process a planned process that carries out a study design http://purl.obolibrary.org/obo/OBI_0000639 material separation objective http://purl.obolibrary.org/obo/OBI_0000456 material transformation objective is an objective to transform a material entity into spatially separated components. http://purl.obolibrary.org/obo/OBI_0000651 urine specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen a portion of urine collected from an organism http://purl.obolibrary.org/obo/OBI_0000652 material combination http://purl.obolibrary.org/obo/OBI_0000094 material processing is a material processing with the objective to combine two or more material entities as input into a single material entity as output. http://purl.obolibrary.org/obo/OBI_0000655 blood specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen a material entity derived from a portion of blood collected from an organism http://purl.obolibrary.org/obo/OBI_0000671 sample from organism http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism a material obtained from an organism in order to be a representative of the whole http://purl.obolibrary.org/obo/OBI_0000678 portioning objective http://purl.obolibrary.org/obo/OBI_0000639 material separation objective A material separation objective aiming to separate material into multiple portions, each of which contains a similar composition of the input material. http://purl.obolibrary.org/obo/OBI_0000680 whole organism preparation http://purl.obolibrary.org/obo/OBI_0100051 specimen A material entity which is the output of a process in which one or more whole organisms are prepared in a way to make it easier to study them, and in which the great majority of organismal parts are maintained http://purl.obolibrary.org/obo/OBI_0000681 separation into different composition objective http://purl.obolibrary.org/obo/OBI_0000639 material separation objective A material separation objective aiming to separate a material entity that has parts of different types, and end with at least one output that is a material with parts of fewer types (modulo impurities). http://purl.obolibrary.org/obo/OBI_0000684 specimen collection objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification A objective specification that is fulfilled by obtaining a material entity for potential use as an input upon which measurements or observations are performed. http://purl.obolibrary.org/obo/OBI_0000686 material combination objective http://purl.obolibrary.org/obo/OBI_0000456 material transformation objective is an objective to obtain an output material that contains several input materials. http://purl.obolibrary.org/obo/OBI_0000740 material sample role http://purl.obolibrary.org/obo/OBI_0000112 specimen role A material sample role is a specimen role borne by a material entity that is the output of a material sampling process. http://purl.obolibrary.org/obo/OBI_0000806 material maintenance objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification maintains some or all of the qualities of a material over time. http://purl.obolibrary.org/obo/OBI_0000810 informed consent process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process with the objective to inform a person or their legal representative of legally and ethically relevant facts about a process that the person in question is asked to participate in, and which results in a documented decision as to whether the person in question will participate. http://purl.obolibrary.org/obo/OBI_0000832 measurement device http://purl.obolibrary.org/obo/OBI_0000968 device A device in which a measure function inheres. http://purl.obolibrary.org/obo/OBI_0000834 high molecular weight DNA extract http://purl.obolibrary.org/obo/OBI_0001051 DNA extract The output of an extraction process in which DNA molecules above a molecular weight cutoff are purified in order to exclude DNA from organellas. http://purl.obolibrary.org/obo/OBI_0000838 material maintenance http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process with the objective to maintain some or all of the characteristics of an input material over time. http://purl.obolibrary.org/obo/OBI_0000848 polyA RNA extraction http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process typically involving the use of poly dT oligomers in which the desired output material is polyA RNA. http://purl.obolibrary.org/obo/OBI_0000849 organellar RNA extraction http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process in which the desired output material is RNA in the organelle(s). http://purl.obolibrary.org/obo/OBI_0000855 total RNA extraction http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process in which total cellular and organelle RNA are extracted. http://purl.obolibrary.org/obo/OBI_0000859 cytoplasmic RNA extraction http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process in which the desired output material is RNA in the cytoplasm. http://purl.obolibrary.org/obo/OBI_0000862 nuclear RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of an extraction process in which RNA molecules found in the nucleus, including mRNA precursors (pre-mRNA), are extracted. http://purl.obolibrary.org/obo/OBI_0000869 polyA RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of an extraction process in which RNA molecules with poly A tail at its 3' end are purified. http://purl.obolibrary.org/obo/OBI_0000873 pre-mortem specimen http://purl.obolibrary.org/obo/OBI_0001506 specimen with pre- or post-mortem status a specimen that was taken from a live organism http://purl.obolibrary.org/obo/OBI_0000876 cytoplasmic RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of a RNA extraction process in which RNA molecules found in the cytoplasm are extracted. http://purl.obolibrary.org/obo/OBI_0000880 RNA extract http://purl.obolibrary.org/obo/OBI_0001010 nucleic acid extract an extract which is the output of an extraction process in which RNA molecules are isolated from a specimen. http://purl.obolibrary.org/obo/OBI_0000888 nuclear RNA extraction http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process in which the desired output material is RNA in the nucleus. http://purl.obolibrary.org/obo/OBI_0000895 total RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of an extraction process in which total celluar and organelle RNA molecules are isolated from a specimen. http://purl.obolibrary.org/obo/OBI_0000899 organellar RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of an extraction process in which RNA molecules found in an organelle, e.g., mitochondrion, ER, or chloroplast, excluding the nucleus, are extracted. http://purl.obolibrary.org/obo/OBI_0000902 post mortem specimen http://purl.obolibrary.org/obo/OBI_0001506 specimen with pre- or post-mortem status a specimen that was taken from a dead organism http://purl.obolibrary.org/obo/OBI_0000908 labeled DNA extract http://purl.obolibrary.org/obo/OBI_0001143 labeled nucleic acid extract a labeled specimen that is the output of a labeling process and has grain labeled DNA to be able to detect DNA in future experiments. http://purl.obolibrary.org/obo/OBI_0000909 cloacal specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen obtained by inserting a swab deeply into the vent of the cloaca of an organism and vigorously swabbing the wall. The swab should be deeply stained with fecal material and is then placed in transport medium. http://purl.obolibrary.org/obo/OBI_0000914 nasopharyngeal aspirate specimen http://purl.obolibrary.org/obo/OBI_2000007 nasopharynx specimen A specimen which derives from nasopharyngeal mucosa after aspiration. http://purl.obolibrary.org/obo/OBI_0000915 freezing storage http://purl.obolibrary.org/obo/OBI_0302893 storage A storage process in temperature that maintenance the frozen status of the stored entities. http://purl.obolibrary.org/obo/OBI_0000917 nasal swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen obtained using a cotton swab on a stick, passed up the nostril to obtain a sample of exudate and epithelial debris for microbiological or cellular examination. http://purl.obolibrary.org/obo/OBI_0000921 labeled RNA extract http://purl.obolibrary.org/obo/OBI_0001143 labeled nucleic acid extract a labeled specimen that is the output of a labeling process and has grain labeled RNA to be able to detect RNA in future experiments. http://purl.obolibrary.org/obo/OBI_0000922 frozen specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state A specimen that has been frozen in order to store it. http://purl.obolibrary.org/obo/OBI_0000924 labeled specimen http://purl.obolibrary.org/obo/OBI_0001936 molecular-labeled material A specimen that has been modified in order to be able to detect it in future experiments http://purl.obolibrary.org/obo/OBI_0000927 lyophilization storage http://purl.obolibrary.org/obo/OBI_0302893 storage a storage process with input material entity and output freeze dried material for long time storage http://purl.obolibrary.org/obo/OBI_0000932 material separation device http://purl.obolibrary.org/obo/OBI_0000968 device A device with a separation function realized in a planed process http://purl.obolibrary.org/obo/OBI_0000950 paraffin specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state a specimen that is output of a paraffin storage process in which specimen is embedded in paraffin http://purl.obolibrary.org/obo/OBI_0000953 processed specimen http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen that has been intentionally physically modified. http://purl.obolibrary.org/obo/OBI_0000965 lyophilized specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state a specimen that is output of a lyophilization storage process in which specimen is lyophilized for storage. http://purl.obolibrary.org/obo/OBI_0000971 fresh specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state a specimen that is output of a specimen creation process used for an investigation without storage. http://purl.obolibrary.org/obo/OBI_0000977 paraffin storage http://purl.obolibrary.org/obo/OBI_0302893 storage a storage process with input organism or anatomical entity and paraffin and output material embedded in paraffin for long term storage http://purl.obolibrary.org/obo/OBI_0000981 agar stab specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state a specimen that is output of a process that cell culture inoculated into agar for long term storage. http://purl.obolibrary.org/obo/OBI_0001000 questionnaire http://purl.obolibrary.org/obo/IAO_0000310 document A document with a set of printed or written questions with a choice of answers, devised for the purposes of a survey or statistical study. http://purl.obolibrary.org/obo/OBI_0001003 agar stab storage http://purl.obolibrary.org/obo/OBI_0302893 storage a storage process with input cell culture and agar and output agar stab for long time storage http://purl.obolibrary.org/obo/OBI_0001010 nucleic acid extract http://purl.obolibrary.org/obo/OBI_0000953 processed specimen An extract that is the output of an extraction process in which nucleic acid molecules are isolated from a specimen. http://purl.obolibrary.org/obo/OBI_0001051 DNA extract http://purl.obolibrary.org/obo/OBI_0001010 nucleic acid extract The output of an extraction process in which DNA molecules are purified in order to exclude DNA from organellas. http://purl.obolibrary.org/obo/OBI_0001225 genetic population background information http://purl.obolibrary.org/obo/OBI_0001404 genetic characteristics information a genetic characteristics information which is a part of genotype information that identifies the population of organisms http://purl.obolibrary.org/obo/OBI_0001305 genotype information http://purl.obolibrary.org/obo/OBI_0001404 genetic characteristics information a genetic characteristics information that is about the genetic material of an organism and minimally includes information about the genetic background and can in addition contain information about specific alleles, genetic modifications, etc. http://purl.obolibrary.org/obo/OBI_0001364 genetic alteration information http://purl.obolibrary.org/obo/OBI_0001404 genetic characteristics information a genetic characteristics information that is about known changes or the lack thereof from the genetic background, including allele information, duplication, insertion, deletion, etc. http://purl.obolibrary.org/obo/OBI_0001404 genetic characteristics information http://purl.obolibrary.org/obo/IAO_0000027 data item a data item that is about genetic material including polymorphisms, disease alleles, and haplotypes. http://purl.obolibrary.org/obo/OBI_0001468 cell specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen primarily composed of a cell or cells collected from a multicellular organism or a cell culture. http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen for which it is known whether it has been subjected to storage of a specified type. http://purl.obolibrary.org/obo/OBI_0001506 specimen with pre- or post-mortem status http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that has been established to be taken from a live (pre-mortem) or dead (post-mortem) organism. http://purl.obolibrary.org/obo/OBI_0001622 investigation title http://purl.obolibrary.org/obo/OBI_0001898 comment on investigation A textual entity that denotes an investigation. http://purl.obolibrary.org/obo/OBI_0001879 reagent http://purl.obolibrary.org/obo/OBI_0000047 processed material A biological or chemical entity that bears a reagent role in virtue of it being intended for application in a scientific technique to participate in (or have molecular parts that participate in) a chemical reaction that facilitates the generation of data about some distinct entity, or the generation of some distinct material specified output. http://purl.obolibrary.org/obo/OBI_0001898 comment on investigation http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is about any of the aspects of an investigation worth noting http://purl.obolibrary.org/obo/OBI_0001909 conclusion based on data http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is inferred from data. http://purl.obolibrary.org/obo/OBI_0001912 cell freezing medium http://purl.obolibrary.org/obo/OBI_0000047 processed material A processed material that serves as a liquid vehicle for freezing cells for long term quiescent stroage, which contains chemicls needed to sustain cell viability across freeze-thaw cycles. http://purl.obolibrary.org/obo/OBI_0001933 value specification http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that specifies a value within a classification scheme or on a quantitative scale. http://purl.obolibrary.org/obo/OBI_0001936 molecular-labeled material http://purl.obolibrary.org/obo/OBI_0000047 processed material a material entity that is the specified output of an addition of molecular label process that aims to label some molecular target to allow for its detection in a detection of molecular label assay http://purl.obolibrary.org/obo/OBI_0002500 amniotic fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from amniotic fluid. http://purl.obolibrary.org/obo/OBI_0002501 bile specimen http://purl.obolibrary.org/obo/OBI_0002504 digestive system fluid or secretion specimen A specimen that is derived from bile. http://purl.obolibrary.org/obo/OBI_0002502 cerebrospinal fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from cerbrospinal fluid. http://purl.obolibrary.org/obo/OBI_0002505 milk specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from milk. http://purl.obolibrary.org/obo/OBI_0002506 pericardial fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from pericardial fluid. http://purl.obolibrary.org/obo/OBI_0002507 saliva specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from saliva. http://purl.obolibrary.org/obo/OBI_0002508 sputum specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from sputum. http://purl.obolibrary.org/obo/OBI_0002509 sweat specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from sweat. http://purl.obolibrary.org/obo/OBI_0002510 synovial fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from synovial fluid. http://purl.obolibrary.org/obo/OBI_0002512 bone marrow specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from bone marrow. http://purl.obolibrary.org/obo/OBI_0002513 placenta specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from placenta. http://purl.obolibrary.org/obo/OBI_0002514 peritoneal fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from peritoneal fluid. http://purl.obolibrary.org/obo/OBI_0002515 pleural fluid specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from pleural fluid. http://purl.obolibrary.org/obo/OBI_0002516 brain specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from brain. http://purl.obolibrary.org/obo/OBI_0002517 hair specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from hair. http://purl.obolibrary.org/obo/OBI_0002518 prostate gland specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from prostate gland. http://purl.obolibrary.org/obo/OBI_0002519 skeletal muscle tissue specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from skeletal muscle. http://purl.obolibrary.org/obo/OBI_0002520 heart specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from heart. http://purl.obolibrary.org/obo/OBI_0002522 adrenal gland specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from adrenal gland. http://purl.obolibrary.org/obo/OBI_0002524 urinary bladder specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from urinary bladder. http://purl.obolibrary.org/obo/OBI_0002525 tibial artery specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from tibial artery. http://purl.obolibrary.org/obo/OBI_0002527 pancreas specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from pancreas. http://purl.obolibrary.org/obo/OBI_0002528 stomach specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from stomach. http://purl.obolibrary.org/obo/OBI_0002529 pituitary gland specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from pituitary gland. http://purl.obolibrary.org/obo/OBI_0002530 adipose tissue specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from adipose tissue. http://purl.obolibrary.org/obo/OBI_0002532 esophagus mucosa specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from esophagus mucosa. http://purl.obolibrary.org/obo/OBI_0002533 colon specimen http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen A specimen that is derived from colon. http://purl.obolibrary.org/obo/OBI_0002534 lung specimen http://purl.obolibrary.org/obo/OBI_0002783 lower respiratory tract specimen A specimen that is derived from lung. http://purl.obolibrary.org/obo/OBI_0002537 thyroid gland specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from thyroid gland. http://purl.obolibrary.org/obo/OBI_0002539 tibial nerve specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from tibial nerve. http://purl.obolibrary.org/obo/OBI_0002540 coronary artery specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from coronary artery. http://purl.obolibrary.org/obo/OBI_0002541 spleen specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from spleen. http://purl.obolibrary.org/obo/OBI_0002542 aorta specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from aorta. http://purl.obolibrary.org/obo/OBI_0100017 blood serum specimen http://purl.obolibrary.org/obo/OBI_0100016 blood plasma specimen A material entity which derives from blood and corresponds to blood plasma without fibrinogen or the other clotting factors. http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs. http://purl.obolibrary.org/obo/OBI_0100051 specimen http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that is collected for potential use as an input upon which measurements or observations are performed. http://purl.obolibrary.org/obo/OBI_0100066 organ section http://purl.obolibrary.org/obo/OBI_0000047 processed material A processed material which derives from an organ and results from a process of dissection or histological sample preparation a portion(formerly an organ section is portion of an organ removed from the context of the organ) http://purl.obolibrary.org/obo/OBI_0200000 data transformation http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that produces output data from input data. http://purl.obolibrary.org/obo/OBI_0302716 pool of specimens http://purl.obolibrary.org/obo/OBI_0000953 processed specimen A pool of specimens is a mixture of a population of samples which have been gathered from one or more sample populations, obtained by the physical process of mixing individual specimens, e.g. mixing the DNA collected from the individual fish. http://purl.obolibrary.org/obo/OBI_0302884 extraction http://purl.obolibrary.org/obo/OBI_0600014 material component separation A material separation in which a desired component of an input material is separated from the remainder http://purl.obolibrary.org/obo/OBI_0302885 filtration http://purl.obolibrary.org/obo/OBI_0600014 material component separation filtration is a process which separates components suspended in a fluid based on granularity properties relying on a filter device http://purl.obolibrary.org/obo/OBI_0302886 centrifugation http://purl.obolibrary.org/obo/OBI_0600014 material component separation centrifugation is a process separating molecules by size or density using centrifugal forces generated by a spinning rotor. G-forces of several hundred thousand times gravity are generated in ultracentrifugation http://purl.obolibrary.org/obo/OBI_0302887 staining http://purl.obolibrary.org/obo/OBI_0000094 material processing Staining is a process which results in the addition a class-specific (DNA, proteins, lipids, carbohydrates) dye to a substrate to qualify or quantify the presence of a specific compound. http://purl.obolibrary.org/obo/OBI_0302893 storage http://purl.obolibrary.org/obo/OBI_0000838 material maintenance A planned process with the objective to preserve and protect material entities by placing them in an identified location which may have a controlled environment. http://purl.obolibrary.org/obo/OBI_0400106 centrifuge http://purl.obolibrary.org/obo/OBI_0000932 material separation device A device with a rapidly rotating container that applies centrifugal force to its contents http://purl.obolibrary.org/obo/OBI_0400168 microtome http://purl.obolibrary.org/obo/OBI_0000932 material separation device A microtome is a mechanical instrument used to cut biological specimens into very thin segments for further treatment (e.g. ISH) and ultimately microscopic or histologic examination. Most microtomes provide cooling facilities (cryo-microtome) and use a steel blade to cut a slice of defined thickness. Some are automatic, and some are driven by hand. http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion http://purl.obolibrary.org/obo/OBI_0500026 eligibility criterion an exclusion criterion (rule) is_a *eligibility criterion* which defines and states a condition which, if met, makes an entity unsuitable for a given task or participation in a given process. For instance, in a study protocol, exclusion criteria indicate the conditions that prospective subjects SHOULD NOT meet to be eligible for participation in a study http://purl.obolibrary.org/obo/OBI_0600005 collecting specimen from organism http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process a process with the objective to obtain a material entity that was part of an organism for potential future use in an investigation http://purl.obolibrary.org/obo/OBI_0600014 material component separation http://purl.obolibrary.org/obo/OBI_0000094 material processing a material processing in which components of an input material become segregated in space http://purl.obolibrary.org/obo/OBI_0600024 maintaining cell culture http://purl.obolibrary.org/obo/OBI_0000838 material maintenance A planned process with the objective to keep cells alive in a defined environment outside of an organism. http://purl.obolibrary.org/obo/OBI_0600036 establishing cell culture http://purl.obolibrary.org/obo/OBI_0000094 material processing a process through which a new type of cell culture or cell line is created, either through the isolation and culture of one or more cells from a fresh source, or the deliberate experimental modification of an existing cell culture (e.g passaging a primary culture to become a secondary culture or line, or the immortalization or stable genetic modification of an existing culture or line). http://purl.obolibrary.org/obo/OBI_0600044 lavage http://purl.obolibrary.org/obo/OBI_0600014 material component separation A protocol application to separate cells and/or cellular secretions from an anatomical space by the introduction and removal of fluid http://purl.obolibrary.org/obo/OBI_0600052 dialysis http://purl.obolibrary.org/obo/OBI_0600014 material component separation a protocol application that uses diffusion through a semi-permeable membrane to separate an input material into two fractions of different composition http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction http://purl.obolibrary.org/obo/OBI_0666667 nucleic acid extraction A RNA extraction is a nucleic acid extraction where the desired output material is RNA http://purl.obolibrary.org/obo/OBI_0666667 nucleic acid extraction http://purl.obolibrary.org/obo/OBI_0302884 extraction a material separation to recover the nucleic acid fraction of an input material http://purl.obolibrary.org/obo/OBI_1110041 lymph node cell specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A cell specimen comprised of a mixed population of cells obtained by processing whole lymph node into individual cells, typically performed using a sieve. This population includes T cells, B cells, macrophages, and other cell types. http://purl.obolibrary.org/obo/OBI_1110046 organ harvesting http://purl.obolibrary.org/obo/OBI_0600014 material component separation The process of removing an organ from its source organism http://purl.obolibrary.org/obo/OBI_1110109 target of material addition http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that receives the addition of another material entity in an “adding a material entity into a target” process. http://purl.obolibrary.org/obo/OBI_1110116 splenocyte specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A cell specimen comprised of a mixed cell population obtained by processing whole spleen into individual cells, typically performed using a sieve or blender. This population includes T cells, B cells, macrophages, and other cell types. http://purl.obolibrary.org/obo/OGMS_0000090 treatment http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process whose completion is hypothesized by a health care provider to eliminate, prevent, or alleviate a disorder, the signs and symptoms of a disorder, or a pathological process http://purl.obolibrary.org/obo/PATO_0000122 length http://purl.obolibrary.org/obo/PATO_0000051 morphology A 1-D extent quality which is equal to the distance between two points. http://purl.obolibrary.org/obo/PATO_0000125 mass http://purl.obolibrary.org/obo/PATO_0001018 physical quality A physical quality that inheres in a bearer by virtue of the proportion of the bearer's amount of matter. http://purl.obolibrary.org/obo/PATO_0000146 temperature http://purl.obolibrary.org/obo/PATO_0001018 physical quality A physical quality of the thermal energy of a system. http://purl.obolibrary.org/obo/PATO_0001421 alive http://purl.obolibrary.org/obo/PATO_0000169 viability A viability quality inhering in a bearer by virtue of the bearer's condition before death. http://purl.obolibrary.org/obo/PATO_0001422 dead http://purl.obolibrary.org/obo/PATO_0000169 viability A viability quality inhering in a bearer by virtue of the cessation of the bearer's life. http://purl.obolibrary.org/obo/PATO_0001985 frozen http://purl.obolibrary.org/obo/PATO_0000146 temperature A quality inhering in a bearer by virtue of the bearer's being kept below its freezing point. http://purl.obolibrary.org/obo/PATO_0001995 organismal quality http://purl.obolibrary.org/obo/PATO_0001241 physical object quality A quality that inheres in an entire organism or part of an organism. http://purl.obolibrary.org/obo/PR_000000001 protein http://purl.obolibrary.org/obo/CHEBI_16670 peptide An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA, and any derivatives thereof. http://purl.obolibrary.org/obo/UO_0000001 length unit http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label A unit which is a standard measure of the distance between two points. http://purl.obolibrary.org/obo/UO_0000002 mass unit http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label A unit which is a standard measure of the amount of matter/energy of a physical object. http://purl.obolibrary.org/obo/UO_0000003 time unit http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label A unit which is a standard measure of the dimension in which events occur in sequence. http://purl.obolibrary.org/obo/APOLLO_SV_00000032 count http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A measurement datum that is the output of counting. http://purl.obolibrary.org/obo/IAO_0020000 identifier http://purl.obolibrary.org/obo/IAO_0000030 information content entity An identifier is an information content entity that is the outcome of a dubbing process and is used to refer to one instance of entity shared by a group of people to refer to that individual entity. http://purl.obolibrary.org/obo/ICO_0000023 completely filled informed consent form http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that has been filled with all required contents. http://purl.obolibrary.org/obo/ICO_0000024 partially filled informed consent form http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that has been partially filled with required contents. http://purl.obolibrary.org/obo/OBIB_0000039 blood specimen on blood spot card http://purl.obolibrary.org/obo/OBI_0000655 blood specimen A blood specimen that is located on a blood spot card. http://purl.obolibrary.org/obo/OGMS_0000104 diagnostic process http://purl.obolibrary.org/obo/OGMS_0000096 health care process A health care process that involves the interpretation of a clinical picture from a given patient (input) and the assertion to the effect that the patient has a disease, disorder, or syndrome of a certain type, or none of these (output). http://purl.obolibrary.org/obo/OMIABIS_0000050 fixed tissue specimen http://purl.obolibrary.org/obo/OBI_0000953 processed specimen A processed specimen that is the output of a fixation process. http://purl.obolibrary.org/obo/OMIABIS_0000052 fixed tissue slide specimen http://purl.obolibrary.org/obo/OMIABIS_0000050 fixed tissue specimen A fixed tissue specimen that is placed in a slide. http://purl.obolibrary.org/obo/OMRSE_00000024 obsolete role in human social processes http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in an entity realized by social interactions in human society. http://purl.obolibrary.org/obo/OMRSE_00000033 aggregate of organizations http://purl.obolibrary.org/obo/BFO_0000040 material entity An aggregate of organizations that have some feature in common, but is not itself an organization. http://purl.obolibrary.org/obo/OMRSE_00000038 legal person role http://purl.obolibrary.org/obo/BFO_0000023 role A role borne by a human individual or by a collection of humans regarded as possessing rights and duties enforeable at law. http://semanticscience.org/resource/SIO_000184 legal name http://purl.obolibrary.org/obo/IAO_0000302 author identification A legal name is a name given at birth, or which appears on their birth certificate, marriage certificate, or change of name certificate. http://purl.obolibrary.org/obo/ICO_0000197 act of communicating assent http://purl.obolibrary.org/obo/IAO_0021003 social act An act of communicating one’s agreement. http://purl.obolibrary.org/obo/ICO_0000135 explaining record confidentiality to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process In order to enable the candidate to make voluntary decision, the options for enhancing the protection of confidentiality for participants who have contributed personal information to a study is to be explained. http://purl.obolibrary.org/obo/ICO_0000165 subject withdrawal with sample stored for limited time http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that represents a study participant withdrawing from the study and agreeing to have the participant sample stored for a limited time period. http://purl.obolibrary.org/obo/CHEBI_16991 deoxyribonucleic acid http://purl.obolibrary.org/obo/CHEBI_33696 nucleic acid High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms. http://purl.obolibrary.org/obo/CHEBI_33696 nucleic acid http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid. http://purl.obolibrary.org/obo/CL_0000000 cell http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. http://purl.obolibrary.org/obo/CL_0000010 cultured cell http://purl.obolibrary.org/obo/CL_0000578 experimentally modified cell in vitro A cell in vitro that is or has been maintained or propagated as part of a cell culture. http://purl.obolibrary.org/obo/CL_0000232 erythrocyte http://purl.obolibrary.org/obo/CL_0000000 cell A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen. http://purl.obolibrary.org/obo/CL_0000558 reticulocyte http://purl.obolibrary.org/obo/CL_0000000 cell An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds. http://purl.obolibrary.org/obo/CL_0000578 experimentally modified cell in vitro http://purl.obolibrary.org/obo/CL_0000000 cell A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure. http://purl.obolibrary.org/obo/CL_0000738 leukocyte http://purl.obolibrary.org/obo/CL_0000000 cell An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue. http://purl.obolibrary.org/obo/CL_0000842 mononuclear cell http://purl.obolibrary.org/obo/CL_0000000 cell A leukocyte with a single non-segmented nucleus in the mature form. http://purl.obolibrary.org/obo/CL_2000001 peripheral blood mononuclear cell http://purl.obolibrary.org/obo/CL_0000842 mononuclear cell A leukocyte with a single non-segmented nucleus in the mature form found in the circulatory pool of blood. http://purl.obolibrary.org/obo/UBERON_0000007 pituitary gland http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The pituitary gland is an endocrine gland that secretes hormones that regulate many other glands [GO]. An endocrine gland located ventral to the diencephalon and derived from mixed neuroectodermal and non neuroectodermal origin [ZFIN]. http://purl.obolibrary.org/obo/UBERON_0000029 lymph node http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Any of the rounded masses of lymphoid tissue that are surrounded by a capsule of connective tissue, are distributed along the lymphatic vessels, and contain numerous lymphocytes which filter the flow of lymph. http://purl.obolibrary.org/obo/UBERON_0000165 mouth http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks). http://purl.obolibrary.org/obo/UBERON_0000178 blood http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid A fluid that is composed of blood plasma and erythrocytes. http://purl.obolibrary.org/obo/UBERON_0000945 stomach http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity An expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ. A stomach is lined, in whole or in part by a glandular epithelium. http://purl.obolibrary.org/obo/UBERON_0000948 heart http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ. http://purl.obolibrary.org/obo/UBERON_0000955 brain http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]. http://purl.obolibrary.org/obo/UBERON_0000970 eye http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity An organ that detects light. http://purl.obolibrary.org/obo/UBERON_0000992 ovary http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The gonad of a female organism which contains germ cells. http://purl.obolibrary.org/obo/UBERON_0000995 uterus http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The female muscular organ of gestation in which the developing embryo or fetus is nourished until birth. http://purl.obolibrary.org/obo/UBERON_0000996 vagina http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A fibromuscular tubular tract leading from the uterus to the exterior of the body in female placental mammals and marsupials, or to the cloaca in female birds, monotremes, and some reptiles[WP]. http://purl.obolibrary.org/obo/UBERON_0001004 respiratory system http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Functional system which consists of structures involved in respiration. http://purl.obolibrary.org/obo/UBERON_0001052 rectum http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The terminal portion of the intestinal tube, terminating with the anus. http://purl.obolibrary.org/obo/UBERON_0001134 skeletal muscle tissue http://purl.obolibrary.org/obo/UBERON_0000479 tissue Muscle tissue that consists primarily of skeletal muscle fibers. http://purl.obolibrary.org/obo/UBERON_0001155 colon http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A portion of the large intestine before it becomes the rectum. In mammals, the colon is the most part of the large intestine, excluding the vermiform appendix, the rectum and the anal canal. http://purl.obolibrary.org/obo/UBERON_0001159 sigmoid colon http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The part of the large intestine that is closest to the rectum and anus. It forms a loop that averages about 40 cm. in length, and normally lies within the pelvis, but on account of its freedom of movement it is liable to be displaced into the abdominal cavity. http://purl.obolibrary.org/obo/UBERON_0001255 urinary bladder http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Distensible musculomembranous organ situated in the anterior part of the pelvic cavity in which urine collects before excretion[MP]. http://purl.obolibrary.org/obo/UBERON_0001323 tibial nerve http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The tibial nerve is a branch of the sciatic nerve. The tibial nerve passes through the popliteal fossa to pass below the arch of soleus. In the popliteal fossa the nerve gives off branches to gastrocnemius, popliteus, soleus and plantaris muscles, an articular branch to the knee joint, and a cutaneous branch that will become the sural nerve. The sural nerve is joined by fibres from the common peroneal nerve and runs down the calf to supply the lateral side of the foot. Below the soleus muscle the nerve lies close to the tibia and supplies the tibialis posterior, the flexor digitorum longus and the flexor hallucis longus. The nerve passes into the foot running posterior to the medial malleolus. Here it is bound down by the flexor retinaculum in company with the posterior tibial artery. [WP,unvetted]. http://purl.obolibrary.org/obo/UBERON_0001558 lower respiratory tract http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The segment of the respiratory tract that starts proximally with the trachea and includes all distal structures including the lungs[WP,modified]. http://purl.obolibrary.org/obo/UBERON_0001637 artery http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]. http://purl.obolibrary.org/obo/UBERON_0001723 tongue http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A muscular organ in the floor of the mouth. http://purl.obolibrary.org/obo/UBERON_0002046 thyroid gland http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A two-lobed endocrine gland found in all vertebrates, located in front of and on either side of the trachea in humans, and producing various hormones, such as triiodothyronine and calcitonin[BTO]. http://purl.obolibrary.org/obo/UBERON_0002048 lung http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Respiration organ that develops as an outpocketing of the esophagus. http://purl.obolibrary.org/obo/UBERON_0002106 spleen http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The organ that functions to filter blood and to store red corpuscles and platelets. http://purl.obolibrary.org/obo/UBERON_0002107 liver http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity An exocrine gland which secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes[GO]. http://purl.obolibrary.org/obo/UBERON_0002116 ileum http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The portion of the small intestine that extends from the jejunum to the colon. http://purl.obolibrary.org/obo/UBERON_0002367 prostate gland http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The prostate gland is a partly muscular, partly glandular body that is situated near the base of the mammalian male urethra and secretes an alkaline viscid fluid which is a major constituent of the ejaculatory fluid. http://purl.obolibrary.org/obo/UBERON_0002391 lymph http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Lymph is the fluid that is formed when interstitial fluid enters the conduits of the lymphatic system through lymph capillaries[WP]. http://purl.obolibrary.org/obo/UBERON_0003126 trachea http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The trachea is the portion of the airway that attaches to the bronchi as it branches [GO:dph]. http://purl.obolibrary.org/obo/OBI_0002460 defined population inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that is based on fitting within the defined characteristics of a population based study design. http://purl.obolibrary.org/obo/OBI_0002573 polyA depleted RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract A RNA extract that is the output of an extraction process in which RNA molecules lacking poly A tails at thier 3' ends are purified. http://purl.obolibrary.org/obo/OBI_0002574 RNA extraction with polyA depletion http://purl.obolibrary.org/obo/OBI_0666666 RNA extraction A RNA extraction process in which only RNAs lacking a polyA tail are retained http://purl.obolibrary.org/obo/OBI_0003482 lymph specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from a portion of lymph collected from an organism. http://purl.obolibrary.org/obo/OBI_0003483 digestive tract specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from part of a digestive tract. http://purl.obolibrary.org/obo/CHEBI_16670 peptide http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc. http://purl.obolibrary.org/obo/CHEBI_33697 ribonucleic acid http://purl.obolibrary.org/obo/CHEBI_33696 nucleic acid High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins. http://purl.obolibrary.org/obo/GO_0007565 female pregnancy http://purl.obolibrary.org/obo/BFO_0000015 process The set of physiological processes that allow an embryo or foetus to develop within the body of a female animal. It covers the time from fertilization of a female ovum by a male spermatozoon until birth. http://purl.obolibrary.org/obo/UBERON_0000162 cloaca http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Common chamber into which the intestines and excretory system opens. Arises during development in all vertebrates, but in many it becomes subdivided, lost or incorporated into other structures. http://purl.obolibrary.org/obo/UBERON_0000173 amniotic fluid http://purl.obolibrary.org/obo/UBERON_0000463 organism substance Amniotic fluid is a bodily fluid consisting of watery liquid surrounding and cushioning a growing fetus within the amnion. It allows the fetus to move freely without the walls of the uterus being too tight against its body. Buoyancy is also provided. The composition of the fluid changes over the course of gestation. Initially, amniotic fluid is similar to maternal plasma, mainly water with electrolytes. As the fetus develops, proteins, carbohydrates, lipids, phospholipids originating from the lungs, fetal cells, and urea are deposited in the fluid. http://purl.obolibrary.org/obo/UBERON_0000316 cervical mucus http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid A substance produced by the cervix and endocervical glands[BTO]. Thick acidic mucus that blocks the cervical os after mestruation[WP]. This 'infertile' mucus blocks spermatozoa from entering the uterus. http://purl.obolibrary.org/obo/UBERON_0000341 throat http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity In anatomy, the throat is the anterior part of the neck, in front of the vertebral column. It consists of the pharynx and larynx. An important feature of the throat is the epiglottis, a flap which separates the esophagus from the trachea and prevents inhalation of food or drink. The throat contains various blood vessels, various pharyngeal muscles, the trachea (windpipe) and the esophagus. The hyoid bone and the clavicle are the only bones located in the throat of mammals. It is sometimes considered a synonym for fauces. [WP,unvetted]. http://purl.obolibrary.org/obo/UBERON_0000362 renal medulla http://purl.obolibrary.org/obo/UBERON_0000481 multi-tissue structure The inner portion of the kidney consisting of the renal pyramids. http://purl.obolibrary.org/obo/UBERON_0000463 organism substance http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body. http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity http://purl.obolibrary.org/obo/BFO_0000040 material entity Anatomical entity that has mass. http://purl.obolibrary.org/obo/UBERON_0000477 anatomical cluster http://purl.obolibrary.org/obo/BFO_0000040 material entity Anatomical group whose component anatomical structures lie in close proximity to each other. http://purl.obolibrary.org/obo/UBERON_0000479 tissue http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. http://purl.obolibrary.org/obo/UBERON_0000481 multi-tissue structure http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types. http://purl.obolibrary.org/obo/UBERON_0000956 cerebral cortex http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The thin layer of gray matter on the surface of the cerebral hemisphere that develops from the telencephalon. It consists of the neocortex (6 layered cortex or isocortex), the hippocampal formation and the olfactory cortex. http://purl.obolibrary.org/obo/UBERON_0001013 adipose tissue http://purl.obolibrary.org/obo/UBERON_0000479 tissue Portion of connective tissue composed of adipocytes enmeshed in areolar tissue. http://purl.obolibrary.org/obo/UBERON_0001087 pleural fluid http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Transudate contained in the pleural cavity. http://purl.obolibrary.org/obo/UBERON_0001088 urine http://purl.obolibrary.org/obo/UBERON_0000463 organism substance Excretion that is the output of a kidney. http://purl.obolibrary.org/obo/UBERON_0001089 sweat http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Secretion produced by a sweat gland. http://purl.obolibrary.org/obo/UBERON_0001090 synovial fluid http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Joint fluid is a transudate of plasma that is actively secreted by synovial cells. http://purl.obolibrary.org/obo/UBERON_0001225 cortex of kidney http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Outer cortical portion of the kidney, between the renal capsule and the renal medulla. http://purl.obolibrary.org/obo/UBERON_0001268 peritoneal fluid http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Transudate contained in the peritoneal cavity. http://purl.obolibrary.org/obo/UBERON_0001359 cerebrospinal fluid http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid A clear, colorless, bodily fluid, that occupies the subarachnoid space and the ventricular system around and inside the brain and spinal cord. http://purl.obolibrary.org/obo/UBERON_0001555 digestive tract http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A tube extending from the mouth to the anus. http://purl.obolibrary.org/obo/UBERON_0001567 cheek http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A fleshy subdivision of one side of the face bounded by an eye, ear and the nose. http://purl.obolibrary.org/obo/UBERON_0001826 nasal cavity mucosa http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The mucous membrane that lines the nasal cavity[MP]. http://purl.obolibrary.org/obo/UBERON_0001830 minor salivary gland http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity One of the smaller, largely mucus-secreting, exocrine glands of the oral cavity, consisting of the labial, buccal, molar, lingual, and palatine glands[MP]. http://purl.obolibrary.org/obo/UBERON_0001836 saliva http://purl.obolibrary.org/obo/UBERON_0000463 organism substance A fluid produced in the oral cavity by salivary glands, typically used in predigestion, but also in other functions. http://purl.obolibrary.org/obo/UBERON_0001913 milk http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid An emulsion of fat globules within a fluid that is secreted by the mammary gland during lactation. http://purl.obolibrary.org/obo/UBERON_0001968 semen http://purl.obolibrary.org/obo/UBERON_0000463 organism substance Organism substance that is composed of sperm cells suspended in seminal fluid. http://purl.obolibrary.org/obo/UBERON_0001970 bile http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Vital aqueous secretion of the liver that is formed by hepatocytes and modified down stream by absorptive and secretory properties of the bile duct epithelium. http://purl.obolibrary.org/obo/UBERON_0001988 feces http://purl.obolibrary.org/obo/UBERON_0000463 organism substance Portion of semisolid bodily waste discharged through the anus[MW,modified]. http://purl.obolibrary.org/obo/UBERON_0002032 areola http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Subdivision of breast which consists of skin, connective tissue and smooth muscle bundle and modified sebaceous glands and which surrounds the nipple. http://purl.obolibrary.org/obo/UBERON_0002097 skin of body http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The organ covering the body that consists of the dermis and epidermis. http://purl.obolibrary.org/obo/UBERON_0002409 pericardial fluid http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid Transudate contained in the pericardial cavity.[FMA]. http://purl.obolibrary.org/obo/UBERON_0002469 esophagus mucosa http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A mucosa that is part of a esophagus [Automatically generated definition]. http://purl.obolibrary.org/obo/UBERON_0003688 omentum http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity A fold of peritoneum originating at the stomach and supporting the viscera. http://purl.obolibrary.org/obo/UBERON_0004648 esophagus muscularis mucosa http://purl.obolibrary.org/obo/UBERON_0000479 tissue A muscularis mucosa that is part of a esophagus. http://purl.obolibrary.org/obo/UBERON_0005921 middle nasal concha http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity The medial surface of the labyrinth of ethmoid consists of a thin lamella, which descends from the under surface of the cribriform plate, and ends below in a free, convoluted margin, the middle nasal concha. It is rough, and marked above by numerous grooves, directed nearly vertically downward from the cribriform plate; they lodge branches of the olfactory nerves, which are distributed to the mucous membrane covering the superior nasal concha. http://purl.obolibrary.org/obo/UBERON_0006314 bodily fluid http://purl.obolibrary.org/obo/UBERON_0000463 organism substance Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not. http://purl.obolibrary.org/obo/UBERON_0006538 respiratory system fluid/secretion http://purl.obolibrary.org/obo/UBERON_0000463 organism substance A portion of organism substance that secreted_by a respiratory system. http://purl.obolibrary.org/obo/UBERON_0006618 atrium auricular region http://purl.obolibrary.org/obo/UBERON_0000481 multi-tissue structure A small conical pouch projections located on the upper anterior portion of each atrium of the heart. http://purl.obolibrary.org/obo/UBERON_0007106 chorionic villus http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity One of the minute vascular projections of the fetal chorion that combines with maternal uterine tissue to form the placenta. http://purl.obolibrary.org/obo/UBERON_0007109 meconium http://purl.obolibrary.org/obo/UBERON_0001988 feces A dark greenish mass that accumulates in the bowel during fetal life and is discharged shortly after birth. http://purl.obolibrary.org/obo/UBERON_0007311 sputum http://purl.obolibrary.org/obo/UBERON_0006538 respiratory system fluid/secretion Matter ejected from the lungs, bronchi, and trachea, through the mouth. http://purl.obolibrary.org/obo/UBERON_0007610 tibial artery http://purl.obolibrary.org/obo/UBERON_0001637 artery The anterior and posterior arteries created at the bifurcation of the popliteal artery. The anterior tibial artery begins at the lower border of the popliteus muscle and lies along the tibia at the distal part of the leg to surface superficially anterior to the ankle joint. Its branches are distributed throughout the leg, ankle, and pes. The posterior tibial artery begins at the lower border of the popliteus muscle, lies behind the tibia in the lower part of its course, and is found situated between the medial malleolus and the medial process of the calcaneal tuberosity. Its branches are distributed throughout the leg and foot. http://purl.obolibrary.org/obo/UBERON_0012168 umbilical cord blood http://purl.obolibrary.org/obo/UBERON_0013755 arterial blood Blood that remains in the placenta and in the attached umbilical cord after childbirth[WP]. http://purl.obolibrary.org/obo/UBERON_0013755 arterial blood http://purl.obolibrary.org/obo/UBERON_0000178 blood A blood that is part of a artery. http://purl.obolibrary.org/obo/UBERON_0013756 venous blood http://purl.obolibrary.org/obo/UBERON_0000178 blood A blood that is part of a vein. http://purl.obolibrary.org/obo/UBERON_0013757 capillary blood http://purl.obolibrary.org/obo/UBERON_0000178 blood A blood that is part of a capillary. http://purl.obolibrary.org/obo/UBERON_3000016 anterior nasal wall http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity Paired, vertical, and relatively straight plates that form the anterior limit of the nasal capsule. http://purl.obolibrary.org/obo/PR_000003918 albumin http://purl.obolibrary.org/obo/PR_000000001 protein A protein that is a translation product of the human ALB gene or a 1:1 ortholog thereof. http://purl.obolibrary.org/obo/APOLLO_SV_00000033 counting http://purl.obolibrary.org/obo/OBI_0000011 planned process The planned process of finding the number of elements in a finite set of objects. http://purl.obolibrary.org/obo/GEO_000000400 governmental organization http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that governs the people living in a particular geographical region or aggregate of geographical regions. The geographical region it governs can change over time (such as the westward expansion of the United States and the addition of Hawaii). Note: this definition was taken over from "geopolitical organization". http://purl.obolibrary.org/obo/NCIT_C70800 Institutional Review Board Approval http://purl.obolibrary.org/obo/IAO_0000310 document A document containing the determination of the Institutional Review Board (IRB) that the clinical study with human subject participation has been reviewed and may be conducted at a particular study site within the constraints set forth by the IRB and other institutional and federal requirements. The regulations require that an IRB conduct continuing review of research at intervals appropriate to the degree of risk, but not less than once a year. http://purl.obolibrary.org/obo/NCIT_C85521 Incarceration http://purl.obolibrary.org/obo/BFO_0000015 process The state of being confined to jail or prison. http://purl.obolibrary.org/obo/IAO_0020022 documented identity http://purl.obolibrary.org/obo/IAO_0000030 information content entity A documented identity is the aggregate of all data items about an entity. Notice that a documented identity is not itself a document since a document is intended to be understood as a whole and data items about an individual are usually scattered across different documents. http://purl.obolibrary.org/obo/IAO_0020023 authentication http://purl.obolibrary.org/obo/BFO_0000015 process Authentication is the act of checking or verifying an identity claim (that is either tacit or explicit). http://purl.obolibrary.org/obo/IAO_0020024 credential role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a concretization of an identity document and is realized by an authentication process. http://purl.obolibrary.org/obo/IAO_0021002 obsolete_document act http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A social act creating, revoking or transferring a socio-legal generically dependent continuant or a role by validating (signing, stamping, publishing) a document. http://purl.obolibrary.org/obo/IAO_0021003 social act http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that needs to be perceived. http://purl.obolibrary.org/obo/IAO_0021004 obsolete_socio-legal generically dependent continuant http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class Socio-legal generically dependent continuants are generically dependent continuants that come into existence through social acts and that if they get concretized are concretized as realizable entities. http://purl.obolibrary.org/obo/OMRSE_00000015 health care provider organization role http://purl.obolibrary.org/obo/OMRSE_00000027 organization health care role A role that inheres in an organization and that is realized by the providing of services in a health care encounter. http://purl.obolibrary.org/obo/OMRSE_00000022 collection of organisms http://purl.obolibrary.org/obo/BFO_0000040 material entity An object aggregate of organisms. http://purl.obolibrary.org/obo/OMRSE_00000025 organization social role http://purl.obolibrary.org/obo/OMRSE_00000024 obsolete role in human social processes A role in human social processes that inheres in an organization. http://purl.obolibrary.org/obo/OMRSE_00000027 organization health care role http://purl.obolibrary.org/obo/OMRSE_00000025 organization social role An organization social role that, if realized, is realized by either a health care process or an ancillary health care process http://purl.obolibrary.org/obo/OMRSE_00000054 hospital role http://purl.obolibrary.org/obo/OMRSE_00000015 health care provider organization role A healthcare provider role that inheres in an organization and is realized by providing inpatient care. http://purl.obolibrary.org/obo/OMRSE_00000056 hospital organization http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is the bearer of a hospital role. http://purl.obolibrary.org/obo/OMRSE_00000087 employer role http://purl.obolibrary.org/obo/OMRSE_00000024 obsolete role in human social processes a role in human social processes that is realized when the bearer provides a wage or salary in exchange for some labour or services as specified by some declaration http://purl.obolibrary.org/obo/ICO_0000110 standard medical treatment http://purl.obolibrary.org/obo/OGMS_0000090 treatment A treatment currently in wide use and approved by a regulatory body or health authority, considered to be effective in the treatment of a specific disease or condition. http://purl.obolibrary.org/obo/ICO_0000112 data administration function http://purl.obolibrary.org/obo/BFO_0000034 function An organizational function that involves the areas of information systems and computer science; and that may be realized in planning, organizing, describing, and controlling data resources. http://purl.obolibrary.org/obo/ICO_0000194 obsolete social act (placeholder) http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A process that is carried out by a conscious being or an aggregate of conscious beings, and is spontaneous, directed towards another conscious being or another aggregate of conscious beings, and that needs to be perceived. http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process of communicating information about an informed consent process. http://purl.obolibrary.org/obo/ICO_0000158 act of declining to provide consent http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a person decides not to provide consent. http://purl.obolibrary.org/obo/ICO_0000159 informed verbal consent http://purl.obolibrary.org/obo/ICO_0000196 act of informed consenting An informed consent process in which the participant communicates consent orally rather than by filling out and signing a written form. http://purl.obolibrary.org/obo/ICO_0000161 biological sample collecting http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a biological sample from a subject is collected for testing. http://purl.obolibrary.org/obo/ICO_0000163 blood sample collecting http://purl.obolibrary.org/obo/ICO_0000161 biological sample collecting A biological sample collecting in which a blood sample from a subject is collected for testing. http://purl.obolibrary.org/obo/ICO_0000167 obsolete permittee deontic role in genetic research http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic role that if realized is realized by its bearer conducting or overseeing genetic research on the genome of a human donor. http://purl.obolibrary.org/obo/ICO_0000168 obsolete genetic research permission deontic declaration http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic declaration that has output a permittee role that permits genetic research on a human donor as a specified outcome. http://purl.obolibrary.org/obo/ICO_0000176 obsolete permittee deontic role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic role that if realized is realized by its bearer conducting or overseeing genetic research on the genome of a human donor. http://purl.obolibrary.org/obo/ICO_0000177 consenting not to have financial benefit http://purl.obolibrary.org/obo/ICO_0000196 act of informed consenting An informed consent for a subject agrees not to have financial benefit in the future. http://purl.obolibrary.org/obo/ICO_0000178 consenting to not to be informed about incidental finding http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process for a subject agrees not to be informed about any incidental finding. http://purl.obolibrary.org/obo/ICO_0000179 broad consent process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process for an unspecified range of future research subject to a few content or process restrictions. http://purl.obolibrary.org/obo/ICO_0000180 obsolete process of providing broad consent for research with biological sample http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A broad consent that is for an unspecified range of future research subject to a few content or process restrictions with biological sample. http://purl.obolibrary.org/obo/ICO_0000181 secondary use http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves a human biological specimen originally collected for the purpose of treatment or a different investigation. http://purl.obolibrary.org/obo/ICO_0000169 assenter role http://purl.obolibrary.org/obo/BFO_0000023 role a role that inheres in a human subject who participates in an assending process. http://purl.obolibrary.org/obo/OGMS_0000018 laboratory finding http://purl.obolibrary.org/obo/OGMS_0000014 clinical finding A representation of a quality of a specimen that is the output of a laboratory test and that can support an inference to an assertion about some quality of the patient. http://purl.obolibrary.org/obo/OGMS_0000056 clinical laboratory test http://purl.obolibrary.org/obo/OBI_0000011 planned process A measurement assay that has as input a patient-derived specimen and as output a data item that is about a quality of the specimen. http://purl.obolibrary.org/obo/OGMS_0000096 health care process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process with the objective to improve the health status of a patient that directly involves the treatment, diagnosis, or prevention of disease or injury of a patient http://purl.obolibrary.org/obo/OGMS_0000102 injury http://purl.obolibrary.org/obo/OGMS_0000045 disorder A disorder that involves some structural damage that is immediately caused by a catastrophic external force. http://purl.obolibrary.org/obo/ICO_0000105 explaining study purpose to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process As a partial process of inform the candidate about the study participating information, the purpose of the study will be explained to make sure that the candidate is informed adequately from his/her perspective. http://purl.obolibrary.org/obo/ICO_0000086 consenter role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a patient or the legal guadian when he/she participates the consenting process. http://purl.obolibrary.org/obo/ICO_0000087 study duration measurement http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A time measurement datum that measures the duration of a study. http://purl.obolibrary.org/obo/ICO_0000095 minimal risk http://purl.obolibrary.org/obo/ICO_0000078 risk A risk that is equal or lesser than those ordinarily encountered in daily life or during the performance of routine physical or psychological examinations or tests. http://purl.obolibrary.org/obo/ICO_0000146 eligibility of candidate participation http://purl.obolibrary.org/obo/BFO_0000023 role A role that represents the eligibility of a candidate according to a study protocol. http://purl.obolibrary.org/obo/ICO_0000016 allowed research scope in informed consent form http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that specifies the scope of allowed research and is derived from a research protocol. http://purl.obolibrary.org/obo/ICO_0000170 filled questionnaire http://purl.obolibrary.org/obo/OBI_0001000 questionnaire A questionnaire that is filled up with answers. http://purl.obolibrary.org/obo/ICO_0000156 adult consent process http://purl.obolibrary.org/obo/OBI_0000810 informed consent process An informed consent process where the person who is being asked to consent is an adult. http://purl.obolibrary.org/obo/ICO_0000134 explaining study derived data usage to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process In the case of promoting future data sharing, the usage of the data derived from a study is to be explained to the candidate. http://purl.obolibrary.org/obo/ICO_0000133 explaining sample process and usage to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process In order to make sure that the candidate is informed adequately from his or her perspective, the process of collecting, storing or destroying the sample collected from the study subject is to be explained. http://purl.obolibrary.org/obo/ICO_0000058 investigation period http://purl.obolibrary.org/obo/BFO_0000038 one-dimensional temporal region A one-dimensional temporal region to which an investigation stands in the occupies_temporal_region relation. http://purl.obolibrary.org/obo/ICO_0000072 contact person in informed consent process http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who can be contacted during an informed consent process. http://purl.obolibrary.org/obo/ICO_0000077 obsolete benefit http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A benefit is a disposition or the potential positive effects that may arise from participating in a study. http://purl.obolibrary.org/obo/ICO_0000098 explaining to participant candidate about the study participating information http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves explanation to a human subject candidate with relevant study information, including study purpose, protocol, and human subject benefits and risks, that indicated in an informed consent form. http://purl.obolibrary.org/obo/ICO_0000117 explaining study protocol to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process In order to make sure that the candidate is informed adequately from his or her perspective, the protocol of the study including the protocol of participating, for example, what kind of procedure the participant will be involved, how many scheduled visits will be explained. http://purl.obolibrary.org/obo/ICO_0000121 explaining benefits of participation to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process The potential benefit to the study subject that may arise from participating the study research is to be explained to candidate http://purl.obolibrary.org/obo/ICO_0000128 explaining risks of participation to participant candidate http://purl.obolibrary.org/obo/ICO_0000154 explaining to participant candidate in informed consent process The potential future harm that may arise from participating the study research is to be explained to candidate http://purl.obolibrary.org/obo/DUO_0000031 method development http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning development of methods, algorithms, software or analytical tools. http://purl.obolibrary.org/obo/DUO_0000032 population research http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning a specific population group. http://purl.obolibrary.org/obo/DUO_0000033 ancestry research http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning ancestry or population origins. http://purl.obolibrary.org/obo/DUO_0000034 age category research http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning specific age categories. http://purl.obolibrary.org/obo/DUO_0000035 gender category research http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning specific gender categories. http://purl.obolibrary.org/obo/DUO_0000036 research control http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning use of data as reference or control material. http://purl.obolibrary.org/obo/DUO_0000037 biomedical research http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation concerning health, medical, or biomedical research. http://purl.obolibrary.org/obo/DUO_0000038 genetic research http://purl.obolibrary.org/obo/DUO_0000037 biomedical research Biomedical research concerning genetics (i.e., the study of genes, genetic variations and heredity). http://purl.obolibrary.org/obo/DUO_0000039 drug development research http://purl.obolibrary.org/obo/DUO_0000037 biomedical research Biomedical research concerning drug development. http://purl.obolibrary.org/obo/DUO_0000040 disease category research http://purl.obolibrary.org/obo/DUO_0000037 biomedical research Biomedical research research concerning specific disease/s http://purl.obolibrary.org/obo/DUO_0000042 general research use http://purl.obolibrary.org/obo/DUO_0000001 data use permission This data use permission indicates that use is allowed for general research use for any research purpose. http://purl.obolibrary.org/obo/OBI_0003595 nasal lavage fluid http://purl.obolibrary.org/obo/OBI_0003666 lavage fluid specimen A specimen collected through nasal cavity lavage that contains the reagents used to for the lavage process, organisms, cells, cellular secretions, and other biomaterials present in the nasal cavity space. http://purl.obolibrary.org/obo/OBI_0003666 lavage fluid specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen obtained through a lavage process which includes fluid in addition to cells and/or cellular secretions. http://purl.obolibrary.org/obo/OBI_0002650 biopsy http://purl.obolibrary.org/obo/OBI_0600005 collecting specimen from organism A specimen collection that obtains a sample of tissue or cell from a living multicellular organism body for diagnostic purposes by means intended to be minimally invasive. http://purl.obolibrary.org/obo/OBI_0002662 bone marrow biopsy http://purl.obolibrary.org/obo/OBI_0002650 biopsy A biopsy where a small amount of bone and a small amount of fluid and bone marrow are collected. http://purl.obolibrary.org/obo/OBI_0002746 induced sputum specimen http://purl.obolibrary.org/obo/OBI_0002508 sputum specimen A sputum specimen that is collected from an organism following its inhalation of a nebulized salt solution. http://purl.obolibrary.org/obo/OBI_0002774 platelet-poor plasma specimen http://purl.obolibrary.org/obo/OBI_0100016 blood plasma specimen A blood plasma specimen that is the output of some platelet-poor plasma preparation and is the portion of plasma that contains fewer than 10,000 platelets per microliter. http://purl.obolibrary.org/obo/OBI_2000000 uterine cervix specimen http://purl.obolibrary.org/obo/OBI_0002553 uterus specimen A specimen that is derived from some uterine cervix http://purl.obolibrary.org/obo/OBI_2000001 urethra specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from some urethra http://purl.obolibrary.org/obo/OBI_2000002 cervical mucus specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from some cervical mucus http://purl.obolibrary.org/obo/OBI_2000003 throat specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from some throat http://purl.obolibrary.org/obo/OBI_2000004 eye specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from some eye http://purl.obolibrary.org/obo/OBI_2000005 respiratory system specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from some respiratory system http://purl.obolibrary.org/obo/OBI_2000006 upper respiratory tract specimen http://purl.obolibrary.org/obo/OBI_2000005 respiratory system specimen A specimen that is derived from some upper respiratory tract http://purl.obolibrary.org/obo/OBI_2000007 nasopharynx specimen http://purl.obolibrary.org/obo/OBI_2000006 upper respiratory tract specimen A specimen that is derived from some nasopharynx http://purl.obolibrary.org/obo/OBI_2000008 semen specimen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen A specimen that is derived from some semen http://purl.obolibrary.org/obo/OBI_2000009 bodily fluid specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from some bodily fluid http://purl.obolibrary.org/obo/OBI_2000010 chorionic villus specimen http://purl.obolibrary.org/obo/OBI_0002513 placenta specimen A specimen that is derived from some chorionic villus http://purl.obolibrary.org/obo/OBI_2000011 meconium specimen http://purl.obolibrary.org/obo/OBI_0002503 feces specimen A specimen that is derived from some meconium http://purl.obolibrary.org/obo/OBI_2000012 umbilical cord blood specimen http://purl.obolibrary.org/obo/OBI_2000013 arterial blood specimen A specimen that is derived from some umbilical cord blood http://purl.obolibrary.org/obo/OBI_2000013 arterial blood specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen A specimen that is derived from some arterial blood http://purl.obolibrary.org/obo/OBI_2000014 venous blood specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen A specimen that is derived from some venous blood http://purl.obolibrary.org/obo/OBI_2000015 capillary blood specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen A specimen that is derived from some capillary blood http://purl.obolibrary.org/obo/OBI_2000016 erythrocyte specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A specimen that is derived from some erythrocytes http://purl.obolibrary.org/obo/OBI_2000017 reticulocyte specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A specimen that is derived from some reticulocytes http://purl.obolibrary.org/obo/OBI_2000018 leukocyte specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A specimen that is derived from some leukocytes http://purl.obolibrary.org/obo/OGMS_0000045 disorder http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity which is clinically abnormal and part of an extended organism. Disorders are the physical basis of disease. http://purl.obolibrary.org/obo/ICO_0000050 obsolete animal research investigation http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An investigation that involves animal research. http://purl.obolibrary.org/obo/DUO_0000002 obsolete consent code primary category http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A categorical data item indicating the primary category the consent code belongs to according to Dyke et al. 2016. http://purl.obolibrary.org/obo/DUO_0000003 obsolete consent code secondary category http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A categorical data item indicating the secondary category the consent code belongs to according to Dyke et al. 2016. http://purl.obolibrary.org/obo/DUO_0000004 no restriction http://purl.obolibrary.org/obo/DUO_0000001 data use permission This data use permission indicates there is no restriction on use. http://purl.obolibrary.org/obo/DUO_0000005 obsolete general research use and clinical care http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class This data use limitation indicates that use is allowed for health/medical/biomedical purposes and other biological research, including the study of population origins or ancestry. http://purl.obolibrary.org/obo/DUO_0000006 health or medical or biomedical research http://purl.obolibrary.org/obo/DUO_0000042 general research use This data use permission indicates that use is allowed for health/medical/biomedical purposes; does not include the study of population origins or ancestry. http://purl.obolibrary.org/obo/DUO_0000007 disease specific research http://purl.obolibrary.org/obo/DUO_0000006 health or medical or biomedical research This data use permission indicates that use is allowed provided it is related to the specified disease. http://purl.obolibrary.org/obo/DUO_0000012 research specific restrictions http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to studies of a certain research type. http://purl.obolibrary.org/obo/DUO_0000014 obsolete research use only http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class This data use limitation indicates that use is limited to research purposes (e.g., does not include its use in clinical care). http://purl.obolibrary.org/obo/DUO_0000015 no general methods research http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use does not allow methods development research (e.g., development of software or algorithms). http://purl.obolibrary.org/obo/DUO_0000016 genetic studies only http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to genetic studies only (i.e., studies that include genotype research alone or both genotype and phenotype research, but not phenotype research exclusively) http://purl.obolibrary.org/obo/DUO_0000017 data use modifier http://purl.obolibrary.org/obo/IAO_0000027 data item Data use modifiers indicate additional conditions for use. http://purl.obolibrary.org/obo/DUO_0000018 not for profit, non commercial use only http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use of the data is limited to not-for-profit organizations and not-for-profit use, non-commercial use. http://purl.obolibrary.org/obo/DUO_0000019 publication required http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that requestor agrees to make results of studies using the data available to the larger scientific community. http://purl.obolibrary.org/obo/DUO_0000020 collaboration required http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that the requestor must agree to collaboration with the primary study investigator(s). http://purl.obolibrary.org/obo/DUO_0000021 ethics approval required http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that the requestor must provide documentation of local IRB/ERB approval. http://purl.obolibrary.org/obo/DUO_0000022 geographical restriction http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to within a specific geographic region. http://purl.obolibrary.org/obo/DUO_0000025 time limit on use http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is approved for a specific number of months. http://purl.obolibrary.org/obo/DUO_0000026 user specific restriction http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to use by approved users. http://purl.obolibrary.org/obo/DUO_0000027 project specific restriction http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to use within an approved project. http://purl.obolibrary.org/obo/DUO_0000028 institution specific restriction http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is limited to use within an approved institution. http://purl.obolibrary.org/obo/DUO_0000029 return to database or resource http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that the requestor must return derived/enriched data to the database/resource. http://purl.obolibrary.org/obo/topic_0003 Topic http://purl.obolibrary.org/obo/IAO_0000030 information content entity A category denoting a rather broad domain or field of interest, study, application, work, data, or technology. Topics have no clearly defined borders between each other. http://purl.obolibrary.org/obo/ERO_0000333 video http://purl.obolibrary.org/obo/IAO_0000098 data format specification Data containing moving pictures stored in digital and analog formats. http://purl.obolibrary.org/obo/ICO_0000096 obsolete alcohol abuse treatment record http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A medical record that records the history of a subject's treatment for alcohol abuse. http://purl.obolibrary.org/obo/ICO_0000162 tissue sample collecting http://purl.obolibrary.org/obo/ICO_0000161 biological sample collecting A biological sample collecting in which a tissue sample from a subject is collected for testing. http://purl.obolibrary.org/obo/ICO_0000193 act of filling out form http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process of providing information according to prompts on a form. http://purl.obolibrary.org/obo/OBI_0002453 health status inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more clinically significant bodily components, dispositions, and/or bodily processes of an entity that are inferred from relevant clinical findings or self-reported, which, if met, makes the entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002454 clinically relevant lifestyle inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more clinically relevant planned processes that a human being actively participates in , which, if met, makes the human being suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002455 clinically relevant exposure inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more clinically relevant histories of exposure of an entity, which, if met, makes the entity suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002456 gravidity inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states one or more gravidity statuses of an organism, which, if met, makes the entity suitable for a given task or participation in a given process. http://purl.obolibary.org/obo/IAO_0021001 obsolete_deontic document act http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document. http://purl.obolibrary.org/obo/IAO_0021008 deontic role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in an agent and which is externally grounded in the normative expectations that other agents within a social context have concerning how that agent should behave. http://purl.obolibrary.org/obo/IAO_0021009 deontic declaration http://purl.obolibrary.org/obo/IAO_0021003 social act A social act that creates or revokes a deontic role. http://purl.obolibrary.org/obo/OBI_0002627 ribosomal RNA-depleted RNA extract http://purl.obolibrary.org/obo/OBI_0000880 RNA extract An extract of RNA which is produced through rRNA (ribosomal RNA) depletion (the removal of highly abundant rRNA species). http://purl.obolibrary.org/obo/IAO_0000444 publishing process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process of making information, such as literature, music, and software etc., available to the public for sale or for free. http://purl.obolibrary.org/obo/IAO_0000445 document in preparation for publication http://purl.obolibrary.org/obo/IAO_0000310 document A document that is in preparation for submission to be published. http://purl.obolibrary.org/obo/IAO_0000701 descriptive data section http://purl.obolibrary.org/obo/IAO_0000314 document part A document part that lists and defines data variables, describes data characteristics (e.g. missing data information) and any assumptions and simplifications made. http://purl.obolibrary.org/obo/IAO_0000702 additional results section http://purl.obolibrary.org/obo/IAO_0000318 results section A results section that reports analyses other than main results of the study (e.g. subgroups analyses, adjusted analyses, sensitivity analyses, etc.) http://purl.obolibrary.org/obo/IAO_0000703 research participants section http://purl.obolibrary.org/obo/IAO_0000314 document part A document part that describes human subject(s) that participated in a study (e.g. inclusion & exclusion criteria, recruitment methods, reasons for non-participation, grouping and randomisation, methods of follow-up, etc.). http://purl.obolibrary.org/obo/IAO_0000704 measurement methods section http://purl.obolibrary.org/obo/IAO_0000317 methods section A methods section that describes details of data assessment methods (data measurement). http://purl.obolibrary.org/obo/IAO_0000705 research settings section http://purl.obolibrary.org/obo/IAO_0000314 document part A document part that describes the physical/social/cultural conditions around a research trial. http://purl.obolibrary.org/obo/IAO_0000706 study bias section http://purl.obolibrary.org/obo/IAO_0000631 study limitations section A study limitations section that describes systematic error introduced into sampling or testing by selecting or encouraging one outcome or answer over others. http://purl.obolibrary.org/obo/IAO_0000605 abbreviation textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity listing abbreviations and their expansions that are used in a document. http://purl.obolibrary.org/obo/IAO_0000608 author information textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document. http://purl.obolibrary.org/obo/IAO_0000610 author summary textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity, distinct from the abstract, that describes the significance and broader context of the document content. The author summary is often written in a non-technical manner and is aimed at both scientists and non-scientist readers, e.g as described in the article submission guidelines for PLoS Genetics (http://journals.plos.org/plosgenetics/s/submission-guidelines). http://purl.obolibrary.org/obo/IAO_0000612 availability textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity expressing the location of a resource, e.g. software, or the manner in which a resource can be obtained. http://purl.obolibrary.org/obo/IAO_0000614 case report textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses a detailed account of a portion of the medical history for a specific patient. http://purl.obolibrary.org/obo/IAO_0000617 conflict of interest textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses a situation involving one or more of the authors, or the funding source of a document whereby the authors or funding source stand to potentially gain (typically financially) from the results reported in the document. http://purl.obolibrary.org/obo/IAO_0000619 consent textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that documents the consenting process used to enroll patients in a study. http://purl.obolibrary.org/obo/IAO_0000621 ethical approval textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that documents the ethical approval of some study design. http://purl.obolibrary.org/obo/IAO_0000624 funding source declaration textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity documenting the source of funding that supported some study. http://purl.obolibrary.org/obo/IAO_0000626 future directions textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity expressing ideas regarding future work relevant to work described in a document that could be done. http://purl.obolibrary.org/obo/IAO_0000628 genome announcement textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that describes the generation and public release of a novel, draft genome sequence. http://purl.obolibrary.org/obo/IAO_0000629 keyword textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity listing keywords indicating the major theme(s) of a document. http://purl.obolibrary.org/obo/IAO_0000632 study limitations textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity addressing a shortcoming or bias of a study design or execution. http://purl.obolibrary.org/obo/IAO_0000635 patients section http://purl.obolibrary.org/obo/IAO_0000314 document part A part of a document about the patients that participated in a study. http://purl.obolibrary.org/obo/IAO_0000636 patients textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity expressing information regarding the patients used in a study. http://purl.obolibrary.org/obo/IAO_0000638 pre-publication history textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses the pre-publication history (submission dates, reviewer comments, etc) for a document, often including a hyperlink to a web page detailing the information. http://purl.obolibrary.org/obo/IAO_0000640 related work textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that discusses work from other publications and expresses their relevancy to the content of a document. http://purl.obolibrary.org/obo/IAO_0000642 requirements textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that expresses the requirements necessary to use a resource, e.g. software. http://purl.obolibrary.org/obo/IAO_0000643 statistical analysis textual entity http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity documenting statistical analysis tools and techniques employed. http://purl.obolibrary.org/obo/ICO_0000069 contact person for questions about research http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who is the contact for questions about research. http://purl.obolibrary.org/obo/IAO_8000001 base ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module An ontology module that comprises only of asserted axioms local to the ontology, excludes import directives, and excludes axioms or declarations from external ontologies. http://purl.obolibrary.org/obo/IAO_8000003 main release ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module An ontology module that is intended to be the primary release product and the one consumed by the majority of tools. http://purl.obolibrary.org/obo/IAO_8000004 bridge ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module An ontology module that consists entirely of axioms that connect or bridge two distinct ontology modules. For example, the Uberon-to-ZFA bridge module. http://purl.obolibrary.org/obo/IAO_8000007 curation subset ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module A subset ontology that is intended as a whitelist for curators using the ontology. Such a subset will exclude classes that curators should not use for curation. http://purl.obolibrary.org/obo/IAO_8000008 analysis subset ontology module http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module An ontology module that is intended for usage in analysis or discovery applications. http://purl.obolibrary.org/obo/IAO_8000013 reasoned ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module An ontology module that contains axioms generated by a reasoner. The generated axioms are typically direct SubClassOf axioms, but other possibilities are available. http://purl.obolibrary.org/obo/IAO_8000014 generated ontology module http://purl.obolibrary.org/obo/IAO_8000000 ontology module An ontology module that is automatically generated, for example via a SPARQL query or via template and a CSV. http://purl.obolibrary.org/obo/IAO_8000015 template generated ontology module http://purl.obolibrary.org/obo/IAO_8000014 generated ontology module An ontology module that is automatically generated from a template specification and fillers for slots in that template. http://purl.obolibrary.org/obo/IAO_8000018 obo basic subset ontology module http://purl.obolibrary.org/obo/IAO_8000017 ontology module subsetted by expressivity A subset ontology that is designed for basic applications to continue to make certain simplifying assumptions; many of these simplifying assumptions were based on the initial version of the Gene Ontology, and have become enshrined in many popular and useful tools such as term enrichment tools. Examples of such assumptions include: traversing the ontology graph ignoring relationship types using a naive algorithm will not lead to cycles (i.e. the ontology is a DAG); every referenced term is declared in the ontology (i.e. there are no dangling clauses). An ontology is OBO Basic if and only if it has the following characteristics: DAG Unidirectional No Dangling Clauses Fully Asserted Fully Labeled No equivalence axioms Singly labeled edges No qualifier lists No disjointness axioms No owl-axioms header No imports http://purl.obolibrary.org/obo/OMRSE_00000192 obsolete communication http://purl.obolibrary.org/obo/BFO_0000015 process A process in which some participant shares some information content entity about some state of that participant with some other participant. http://purl.obolibrary.org/obo/OBIB_0000630 department http://purl.obolibrary.org/obo/OBI_0000245 organization An organization with a specific responsibility that is a part of a larger organization with a specific responsibility. http://purl.obolibrary.org/obo/OBIB_0000702 medical record http://purl.obolibrary.org/obo/IAO_0000310 document A document that contains information representing health-relevant qualities of a patient written in a chronological manner and that is primarily used for patient care in a clinical setting. http://purl.obolibrary.org/obo/OBI_0003380 placental blood specimen http://purl.obolibrary.org/obo/OBI_0000655 blood specimen A specimen that is derived from placental blood. http://purl.obolibrary.org/obo/CHMO_0002832 material disposal http://purl.obolibrary.org/obo/CHMO_0002845 waste management A planned process in which materials are removed permanently from the laboratory or repository. http://purl.obolibrary.org/obo/CHMO_0002845 waste management http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves all aspects of dealing with the waste produced in experiments. http://purl.obolibrary.org/obo/ICO_0000002 designing an informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves the design of an informed consent form. http://purl.obolibrary.org/obo/ICO_0000078 risk http://purl.obolibrary.org/obo/BFO_0000016 disposition A risk is a disposition or the potential future harm that may arise from some present action. It is often combined or confused with the probability of an event which is seen as undesirable. http://purl.obolibrary.org/obo/ICO_0000080 research assistant role http://purl.obolibrary.org/obo/BFO_0000023 role a role inhering in a homo sapiens that, if realized, is realized in assisting with a research process. http://purl.obolibrary.org/obo/ICO_0000126 storage duration of signed informed consent form http://purl.obolibrary.org/obo/BFO_0000008 temporal region A temporal interval that represents a period of time during which a signed informed consent form is stored. http://purl.obolibrary.org/obo/ICO_0000137 obsolete assessment of participant candidate understanding http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class In order for the consent valid, the candidate should be competent to understand what has been explained. http://purl.obolibrary.org/obo/ICO_0000186 permission temporal region http://purl.obolibrary.org/obo/BFO_0000008 temporal region A temporal region during which some act is permitted. http://purl.obolibrary.org/obo/ICO_0000160 consenting in short form http://purl.obolibrary.org/obo/OBI_0000810 informed consent process An informed consent process in which the participant is not able to read and write in the language of the informed consent form, but is aided in understanding the informed consent process by a translation into the agent's native language. http://www.ontologyrepository.com/CommonCoreOntologies/DesignativeInformationContentEntity Designative Information Content Entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An Information Content Entity that consists of a set of symbols that denote some Entity. http://purl.obolibrary.org/obo/ICO_0000322 consent directive http://purl.obolibrary.org/obo/ICO_0000244 permission directive A 'permission directive' that prescribes some action that is made allowable by a consenting entity. http://purl.obolibrary.org/obo/ICO_0000323 assent directive http://purl.obolibrary.org/obo/ICO_0000244 permission directive A 'permission directive' that prescribes some action that is made allowable by an assenting entity. http://purl.obolibrary.org/obo/ICO_0000324 designated action http://www.ontologyrepository.com/CommonCoreOntologies/DesignativeInformationContentEntity Designative Information Content Entity A 'Directive Information Content Entity' that designates a process as permissable. http://purl.obolibrary.org/obo/ICO_0000325 designated actor http://www.ontologyrepository.com/CommonCoreOntologies/DesignativeInformationContentEntity Designative Information Content Entity A 'Designative Information Content Entity' that designates an entity which can bear deontic roles. http://purl.obolibrary.org/obo/ICO_0000326 designated object http://www.ontologyrepository.com/CommonCoreOntologies/DesignativeInformationContentEntity Designative Information Content Entity A 'Designative Information Content Entity' that designates the object of a 'designated action'. http://purl.obolibrary.org/obo/ICO_0000327 permission condition directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A 'directive information entity' that directs the conditions of 'allowability' for a 'consent directive'. http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive http://purl.obolibrary.org/obo/ICO_0000357 permission restriction directive A 'permission condition directive' that directs the purpose for a 'permission directive'. http://purl.obolibrary.org/obo/ICO_0000329 designated process of access http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of access as permissable. http://purl.obolibrary.org/obo/ICO_0000330 designated process of analysis http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of analysis as permissable. http://purl.obolibrary.org/obo/ICO_0000331 designated procedure http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a procedure as permissable. http://purl.obolibrary.org/obo/ICO_0000332 designated process of collection http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of collection as permissable. http://purl.obolibrary.org/obo/ICO_0000333 designated process of destruction http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of destruction as permissable. http://purl.obolibrary.org/obo/ICO_0000334 designated process of disclosure http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of disclosure as permissable. http://purl.obolibrary.org/obo/ICO_0000335 designated process of duplication http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of duplication as permissable. http://purl.obolibrary.org/obo/ICO_0000336 designated process of unspecified use http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process unspecified use as permissable. http://purl.obolibrary.org/obo/ICO_0000337 designated process of modification http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of modifcation as permissable. http://purl.obolibrary.org/obo/ICO_0000338 designated process of contact http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of contact permissable. http://purl.obolibrary.org/obo/ICO_0000339 designated process of retention http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of retention as permissable. http://purl.obolibrary.org/obo/ICO_0000340 designated process of sharing http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of sharing permissable. http://purl.obolibrary.org/obo/ICO_0000341 designated process of study http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of study as permissable. http://purl.obolibrary.org/obo/ICO_0000342 designated process of surveillance http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of surveillance. http://purl.obolibrary.org/obo/ICO_0000343 designated process of transfer http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of transferral of ownership permissable. http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a research process as its end. http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates a biomedical research process as its end. http://purl.obolibrary.org/obo/ICO_0000346 designated genetic research purpose http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose A 'designated research purpose' that designates a process of genetic research as its end. http://purl.obolibrary.org/obo/ICO_0000347 designated administrative purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a process relating to the management of an organization as its end. http://purl.obolibrary.org/obo/ICO_0000348 designated diagnostic purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a process of diagnosis as its end. http://purl.obolibrary.org/obo/ICO_0000349 designated educational purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates an educational process as its end. http://purl.obolibrary.org/obo/ICO_0000350 designated evaluation purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a process of evaluation as its end. http://purl.obolibrary.org/obo/ICO_0000351 designated commercial purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a for-profit activity as its end. http://purl.obolibrary.org/obo/ICO_0000352 designated healthcare operation purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a healthcare operation process as its end. http://purl.obolibrary.org/obo/ICO_0000353 designated non-commercial purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a nonprofit activity as its end. http://purl.obolibrary.org/obo/ICO_0000354 designated therapeutic purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a process related to healing a disease as its end. http://purl.obolibrary.org/obo/ICO_0000355 designated unspecified purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates an unspecified process as its end. http://purl.obolibrary.org/obo/ICO_0000356 permission precondition http://purl.obolibrary.org/obo/ICO_0000327 permission condition directive A 'permission condition directive' which states a preceding event or condition. http://purl.obolibrary.org/obo/ICO_0000357 permission restriction directive http://purl.obolibrary.org/obo/ICO_0000327 permission condition directive A 'permission requirement directive' that directs a 'permissable' limit of a 'consent directive'. http://purl.obolibrary.org/obo/ICO_0000359 permitted actor restriction directive http://purl.obolibrary.org/obo/ICO_0000357 permission restriction directive A 'permission restriction directive' that designates an actor. http://purl.obolibrary.org/obo/ICO_0000360 jurisdiction restriction directive http://purl.obolibrary.org/obo/ICO_0000357 permission restriction directive A 'permission restriction directive' that defines the spatial boundaries of a 'designated action'. http://purl.obolibrary.org/obo/ICO_0000363 temporal restriction directive http://purl.obolibrary.org/obo/ICO_0000357 permission restriction directive A 'permission restriction directive' that designates the temporal boundaries of the 'designated action'. http://purl.obolibrary.org/obo/ICO_0000364 permission requirement directive http://purl.obolibrary.org/obo/ICO_0000327 permission condition directive A 'permission condition directive' that states an additional requirement. http://purl.obolibrary.org/obo/ICO_0000365 permission sub-directive http://purl.obolibrary.org/obo/ICO_0000327 permission condition directive A 'permission condition directive' that directs another 'consent directive' as a requirement of a primary 'consent directive'. http://purl.obolibrary.org/obo/ICO_0000366 possibility of withdraw directive http://purl.obolibrary.org/obo/ICO_0000364 permission requirement directive A 'permission requirement directive' that directs the possibility of withdraw. http://purl.obolibrary.org/obo/ICO_0000367 designated data http://purl.obolibrary.org/obo/ICO_0000326 designated object A 'designated object' that designates data or information. http://purl.obolibrary.org/obo/ICO_0000368 designated waveform data http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates waveform data. http://purl.obolibrary.org/obo/ICO_0000369 designated genetic data http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates genetic data. http://purl.obolibrary.org/obo/ICO_0000370 designated health information http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates data about health. http://purl.obolibrary.org/obo/ICO_0000371 designated identifiable information http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates information that may identify an entity. http://purl.obolibrary.org/obo/ICO_0000372 designated image data http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates image data. http://purl.obolibrary.org/obo/ICO_0000373 designated video data http://purl.obolibrary.org/obo/ICO_0000367 designated data A 'designated data' that designates video data. http://purl.obolibrary.org/obo/ICO_0000374 designated human object http://purl.obolibrary.org/obo/ICO_0000326 designated object A 'designated object' that designates a person, or part of a person, as the target of a 'designated action.' http://purl.obolibrary.org/obo/ICO_0000375 designated biospecimen http://purl.obolibrary.org/obo/ICO_0000326 designated object A 'designated object' that designates a biospecimen. http://purl.obolibrary.org/obo/ICO_0000376 designated residual tissue http://purl.obolibrary.org/obo/ICO_0000375 designated biospecimen A 'designated biospecimen' that designates a portion of excess tissue. http://purl.obolibrary.org/obo/ICO_0000377 designated unspecified object http://purl.obolibrary.org/obo/ICO_0000326 designated object A 'designated object' that designates an unspecified object. http://purl.obolibrary.org/obo/ICO_0000378 designated permitted actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an actor that may bear a permission role that may be realized in the process prescribed by the process designated by the 'designated action.' http://purl.obolibrary.org/obo/ICO_0000379 designated affiliated actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an actor with an affilitation to an organization or institution. http://purl.obolibrary.org/obo/ICO_0000380 designated corporation http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates a corporation. http://purl.obolibrary.org/obo/ICO_0000381 designated institution http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an institution. http://purl.obolibrary.org/obo/ICO_0000382 designated principal investigator http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates a principal investigator. http://purl.obolibrary.org/obo/ICO_0000383 designated information system actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an information system. http://purl.obolibrary.org/obo/ICO_0000384 designated organization http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an organization. http://purl.obolibrary.org/obo/ICO_0000385 designated educational organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that desginates an educational organization. http://purl.obolibrary.org/obo/ICO_0000386 designated biobank organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a biobank organization. http://purl.obolibrary.org/obo/ICO_0000387 designated for-profit organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a for-profit organization. http://purl.obolibrary.org/obo/ICO_0000388 designated funding organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a funding organization. http://purl.obolibrary.org/obo/ICO_0000389 designated government organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a government organization. http://purl.obolibrary.org/obo/ICO_0000390 designated healthcare organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a healthcare organization. http://purl.obolibrary.org/obo/ICO_0000391 designated regulatory organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a regulatory organization. http://purl.obolibrary.org/obo/ICO_0000392 designated media organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a media organization. http://purl.obolibrary.org/obo/ICO_0000393 designated non-profit organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designated a non-profit organization. http://purl.obolibrary.org/obo/ICO_0000394 designated public health organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates a public health organization. http://purl.obolibrary.org/obo/ICO_0000395 designated research organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that desginates a research organization. http://purl.obolibrary.org/obo/ICO_0000396 designated team http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates a team. http://purl.obolibrary.org/obo/ICO_0000397 designated unspecified organization http://purl.obolibrary.org/obo/ICO_0000384 designated organization A 'designated organization' that designates an unspecified organization. http://purl.obolibrary.org/obo/ICO_0000398 designated permitting actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an actor that may permit some 'designated action'. http://purl.obolibrary.org/obo/ICO_0000399 designated assenting actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates the entity that is permitting some 'designated action'. http://purl.obolibrary.org/obo/ICO_0000400 designated consenting actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates the actor that is permitting some 'designated action'. http://purl.obolibrary.org/obo/ICO_0000401 designated authorized representative http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an authorized representative. http://purl.obolibrary.org/obo/ICO_0000403 designated unspecified actor http://purl.obolibrary.org/obo/ICO_0000325 designated actor A 'designated actor' that designates an unspecified actor. http://purl.obolibrary.org/obo/ICO_0000405 designated health services research purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates a health services research process as its end. http://purl.obolibrary.org/obo/ICO_0000406 designated methods development purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates a process of methods development research as it's end. http://purl.obolibrary.org/obo/ICO_0000407 designated control material research purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates reference control material research processes as its end. http://purl.obolibrary.org/obo/ICO_0000408 designated populations research purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates a process of population research as its end. http://purl.obolibrary.org/obo/ICO_0000409 designated ancestry research purpose http://purl.obolibrary.org/obo/ICO_0000344 designated research purpose A 'designated research purpose' that designates ancestry research as its end. http://purl.obolibrary.org/obo/ICO_0000410 designated drug research purpose http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose A 'designated biomedical research purpose' that designates a process of drug research as its end. http://purl.obolibrary.org/obo/ICO_0000411 designated disease research purpose http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose A 'designated biomedical research purpose' that designates a process of disease specific research as its end. http://purl.obolibrary.org/obo/ICO_0000412 designated age category research purpose http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose A 'designated biomedical research purpose' that designates a process of age category research as its end. http://purl.obolibrary.org/obo/ICO_0000413 designated gender research purpose http://purl.obolibrary.org/obo/ICO_0000345 designated biomedical research purpose A 'designated biomedical research purpose' that designates a process of gender category research as its end. http://purl.obolibrary.org/obo/ICO_0000414 designated process of administration http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process of administration as permissable. http://purl.obolibrary.org/obo/ICO_0000415 designated pharmaceutical object http://purl.obolibrary.org/obo/ICO_0000326 designated object A 'designated object' that designates a pharmaceutical object http://purl.obolibrary.org/obo/ICO_0000416 designated recruitment purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a process of recruitment. http://purl.obolibrary.org/obo/ICO_0000417 designated return of results purpose http://purl.obolibrary.org/obo/ICO_0000328 permission purpose directive A 'permission purpose directive' that designates a return of results. http://purl.obolibrary.org/obo/ICO_0000418 sensitive information protection directive http://purl.obolibrary.org/obo/ICO_0000364 permission requirement directive A 'permission requirement directive' that directs sensitive infotmation proctection. http://purl.obolibrary.org/obo/ICO_0000419 designated process of treatment http://purl.obolibrary.org/obo/ICO_0000324 designated action A 'designated action' that designates a process fo treament. http://purl.obolibrary.org/obo/ICO_0000421 act of data use http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which data is put to some use by an entity. http://purl.obolibrary.org/obo/ICO_0000422 patient http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens An agent who bears a patient role. http://purl.obolibrary.org/obo/ICO_0000423 act of selling http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which goods or services are exachanged for money. http://purl.obolibrary.org/obo/ICO_0000424 covered entity role http://purl.obolibrary.org/obo/BFO_0000023 role A role based on the Health Insurance Portability and Accountability Act that inheres in individuals, organizations, and agencies that are also health care providers, health plans, or health care clearinghouse. http://purl.obolibrary.org/obo/ICO_0000425 data recipient role http://purl.obolibrary.org/obo/BFO_0000023 role A role which is realized in processes of data disclosure. http://purl.obolibrary.org/obo/ICO_0000426 limited data set http://purl.obolibrary.org/obo/ICO_0000103 protected health information entity Protected health information that excludes HIPAA-specified identifiers of the individual or of relatives, employers, or household members of the individual. http://purl.obolibrary.org/obo/ICO_0000427 owner role directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that prescribes the owner role. http://purl.obolibrary.org/obo/ICO_0000428 ownership statis http://www.ontologyrepository.com/CommonCoreOntologies/Stasis stasis A stasis in which an entity bears an ownership role. http://purl.obolibrary.org/obo/ICO_0000429 residual clinical biospecimen http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity, collected during some health care process, that bears both a specimen role and an excess material role following some act of artifact modification. http://purl.obolibrary.org/obo/OBI_0003652 albumin-free serum http://purl.obolibrary.org/obo/OBI_0100017 blood serum specimen A blood serum specimen that contains no albumin. http://purl.obolibrary.org/obo/ICO_0000089 actual duration of study subject participation http://purl.obolibrary.org/obo/BFO_0000008 temporal region Total length of time of subject's participation in a clinical study; from the time of enrollment to the completion of follow-up. http://purl.obolibrary.org/obo/ICO_0000115 obsolete anonymized genomic sample http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An anonymized information content entity about a genomic sample. http://purl.obolibrary.org/obo/ICO_0000064 study requiring informed consent http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that requires an informed consent process. http://purl.obolibrary.org/obo/APOLLO_SV_00000522 source code repository http://purl.obolibrary.org/obo/IAO_0000310 document A document that comprises at least one source code module and provenance data about who contributed the set of files making up the module(s), and optionally comprises also multiple versions of files with detailed change history about who committed files and when, a license for the software, readme files, documentation, executables, etc. http://purl.obolibrary.org/obo/APOLLO_SV_00000524 compiling software http://purl.obolibrary.org/obo/APOLLO_SV_00000008 software development A planned process that converts human-written or curated software into a machine-executable or interpretable set of instructions. http://purl.obolibrary.org/obo/OBI_0002554 vagina specimen http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism A specimen that is derived from vagina. http://purl.obolibrary.org/obo/OBI_0002423 age of majority inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that uses the age of majority for a state or institution, where one is generally considered to be an adult, which if met, makes an individual suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002424 chemotherapy treatment exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion that defines whether chemotherapy was received or is being received for a previous or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process http://purl.obolibrary.org/obo/OBI_0002425 radiation treatment exclusion criteria http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion that defines whether radiation was received or is being received for a previous or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process http://purl.obolibrary.org/obo/OBI_0002426 chemotherapy treatment within the recent past exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion that defines whether chemotherapy was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002427 radiation treatment within the recent past exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion that defines whether radiation was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002428 BMI range inclusion criterion http://purl.obolibrary.org/obo/OBI_0500027 inclusion criterion An inclusion criterion that defines and states a Body Mass Index range, which if met, makes an individual suitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002429 blood transfusion exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion that is defined by whether the specimen donor received a whole blood transfusion within a specified time frame prior to death, which if met, makes a specimen donor unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002430 history of metastatic cancer exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as whether an individual has ever been diagnosed with metastatic cancer (cancer that spread beyond the initial site such as to other organs like brain bone or liver), which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002431 intravenous drug use exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as when an individual has a history of intravenous drug abuse for a specific timeframe, which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002432 history of sex with someone with a history of blood borne infection exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as whether an individual has a history of sex with someone who has been diagnosed or at risk for a blood borne infections disease in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002433 history of sex with someone with a history of intravenous drugs exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as whether an individual has a history of sex with someone who has used intravenous drugs in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002434 HIV exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as whether an individual has a history of repeatedly reactive screening assays for HIV-1 or HIV-2 antibody regardless of the results of supplemental assays, which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002435 exposure to blood borne infectious disease exclusion criterion http://purl.obolibrary.org/obo/OBI_0500028 exclusion criterion An exclusion criterion defined as whether an individual has been exposed to a blood borne infections disease through needle sticks and/or contact with non-intact skin and/or contact with open wounds and/or contact with mucous membranes, which if met, makes the individual unsuitable for a given task or participation in a given process. http://purl.obolibrary.org/obo/OBI_0002648 individual organism specimen http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen composed of an individual organism to be studied in an investigation. http://purl.obolibrary.org/obo/DUO_00000044 population origins or ancestry research prohibited http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates use for purposes of population, origin, or ancestry research is prohibited. http://purl.obolibrary.org/obo/DUO_0000043 clinical care use http://purl.obolibrary.org/obo/DUO_0000017 data use modifier This data use modifier indicates that use is allowed for clinical use and care. http://purl.obolibrary.org/obo/DUO_0000045 not for profit organisation use only http://purl.obolibrary.org/obo/DUO_0000018 not for profit, non commercial use only This data use modifier indicates that use of the data is limited to not-for-profit organizations. http://purl.obolibrary.org/obo/DUO_0000046 non-commercial use only http://purl.obolibrary.org/obo/DUO_0000018 not for profit, non commercial use only This data use modifier indicates that use of the data is limited to not-for-profit use. http://purl.obolibrary.org/obo/ICO_0000191 obsolete description of allowed action types http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A document part that describes the action types to be permitted. http://purl.obolibrary.org/obo/ICO_0000149 act of contact for future research http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which an agent contacts a participant of an informed consent process regarding opportunities related to future research. http://purl.obolibrary.org/obo/IAO_0021007 document act input document http://purl.obolibrary.org/obo/IAO_0000310 document A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification). http://purl.obolibrary.org/obo/ICO_0000213 incomplete informed consent form http://purl.obolibrary.org/obo/ICO_0000001 informed consent form A document act input document that explains all relevant information to assist a human being in understanding the expectations and requirements of participation in a process, and whose purpose is to assist in obtaining consent. http://purl.obolibrary.org/obo/ICO_0000214 complete informed consent form indicating consent http://purl.obolibrary.org/obo/ICO_0000001 informed consent form A document act input document that has, as part, an incomplete informed consent form, along with some additional parts, such as a signature, stamp, or initials, which serve as a record to an act of consent that had the incomplete informed consent form as a specified input. http://purl.obolibrary.org/obo/ICO_0000222 signature http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is a handwritten depiction of a name. http://purl.obolibrary.org/obo/IAO_0021001 deontic document act http://purl.obolibrary.org/obo/IAO_0021009 deontic declaration A deontic declaration creating or revoking a deontic role by lawfully manipulating (signing, stamping, publishing) a document. http://purl.obolibrary.org/obo/IAO_0021006 obligee role http://purl.obolibrary.org/obo/BFO_0000023 role A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the providing part of a process that fulfills the previously agreed upon requirements. http://purl.obolibrary.org/obo/IAO_0021014 obsolete_declaration executive role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The role borne by a human being, an organization or an aggregate of either of both that is realized by being the active participant in a declaration. http://purl.obolibrary.org/obo/IAO_0021015 obsolete_document template creator role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The role of a human being or an aggregate of human beings preparing the initial document to undergo a document act, thus creating a socio-legal generically dependent continuant. http://purl.obolibrary.org/obo/IAO_0021017 obsolete_claimant role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The role of a human being or an aggregate of human beings concretizing a claim. http://purl.obolibrary.org/obo/IAO_0021018 obsolete_obligator role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The role of a human being or an aggregate of human beings concretizing an obligation. http://purl.obolibrary.org/obo/IAO_0021020 obsolete_declaration target http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act. http://purl.obolibrary.org/obo/IAO_0021021 document act template creator role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a human being or organization or aggregate of any of the aforementioned that prepares a document that is the specified input to a document act and is the input document of a document act. http://purl.obolibrary.org/obo/IAO_0021030 obsoleted_document act target http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The human being or organization or aggregate of any of the aforementioned that is the bearer of a concretization of a socio-legal generically dependent continuant brought about by or transferred in a specific document act. http://purl.obolibrary.org/obo/IAO_0021031 document act performer role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a document act. http://purl.obolibrary.org/obo/IAO_0021300 obligor role http://purl.obolibrary.org/obo/BFO_0000023 role A role that is either the specified output of an obligation generating social act or the concretization of a transferable obligation and that is realized by it's bearer being the receiving part of a process that fulfills the previously agreed upon requirements. http://purl.obolibrary.org/obo/OOSTT_00000062 hospital governing body role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in an organization and that, if realized, is realized by its bearer overseeing the overall operation of a hospital. http://purl.obolibrary.org/obo/OOSTT_00000117 committee member role http://purl.obolibrary.org/obo/BFO_0000023 role A role that, if realized, is realized in the organizational context of a committee. http://purl.obolibrary.org/obo/ICO_0000041 informed consent rule specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that specifies the deontic roles that are produced, revoked, or modified following a process of informed consent, where those deontic roles inhere in the human subject consenter signing an informed consent form, and the investigator or organization leading a research study or providing health care. http://purl.obolibrary.org/obo/ICO_0000127 planned duration of study subject participation http://purl.obolibrary.org/obo/IAO_0000104 plan specification A participation time that is the total length of time of subject's participation in a research study; from the time of enrollment to the completion of follow-up. http://purl.obolibrary.org/obo/ICO_0000094 obsolete follow-up visit http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The process by which information about the health status of an individual is obtained after a study has officially closed; an activity that continues something that has already begun or that repeats something that has already been done. http://purl.obolibrary.org/obo/ICO_0000071 obsolete contact person in the event of a research-related injury to the subject http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A person who is the contact for questions in the event of a research-related injury to the subject http://purl.obolibrary.org/obo/OBI_0002123 IHC slide staining http://purl.obolibrary.org/obo/OBI_0302887 staining A staining using labeled antibodies, i.e. the analytical part of immunohistochemistry. The staining is applied to fixed specimens on slides to identify biomarkers in tissues. http://purl.obolibrary.org/obo/OBI_0002124 H&E slide staining http://purl.obolibrary.org/obo/OBI_0302887 staining A staining using hematoxylin and eosin. The staining is applied to fixed specimens on slides to observe the whole structure and morphology of cells in a tissue; nuclei are stained dark blue/purple while cytoplasm is stained pink. http://purl.obolibrary.org/obo/OBI_0002125 H&E-stained fixed tissue slide specimen http://purl.obolibrary.org/obo/OMIABIS_0000052 fixed tissue slide specimen A fixed tissue slide specimen that is the output of H&E slide staining. http://purl.obolibrary.org/obo/OBI_0002126 IHC-stained fixed tissue slide specimen http://purl.obolibrary.org/obo/OMIABIS_0000052 fixed tissue slide specimen A fixed tissue slide specimen that is the output of immunohistochemistry slide staining. http://purl.obolibrary.org/obo/OBI_0002127 single cell specimen http://purl.obolibrary.org/obo/OBI_0001468 cell specimen A cell specimen that contains only one cell. http://purl.obolibrary.org/obo/OBI_0002599 swab specimen http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen that is stored on a swab as the output of a collecting specimen with swab process. http://purl.obolibrary.org/obo/OBI_0002600 collecting specimen with swab http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process A specimen collection process that uses a swab as the collection device. A swab is an absorbent material (e.g. cotton) on a rod (e.g., wooden stick). http://purl.obolibrary.org/obo/OBI_0002603 areolar swab specimen http://purl.obolibrary.org/obo/OBI_0002604 breast swab specimen A specimen that is collected with a swab from the surface of an areola of a breast. http://purl.obolibrary.org/obo/OBI_0002604 breast swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of a breast. http://purl.obolibrary.org/obo/OBI_0002605 cheek swab specimen http://purl.obolibrary.org/obo/OBI_0002607 oral swab specimen A specimen that is collected with a swab from the cheek portion of the inside surface of a mouth. http://purl.obolibrary.org/obo/OBI_0002606 nasopharyngeal swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of a nasopharynx. http://purl.obolibrary.org/obo/OBI_0002607 oral swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the inside surface of a mouth. http://purl.obolibrary.org/obo/OBI_0002608 oropharyngeal swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of a oropharynx. http://purl.obolibrary.org/obo/OBI_0002609 rectal swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of a rectum. http://purl.obolibrary.org/obo/OBI_0002610 tongue swab specimen http://purl.obolibrary.org/obo/OBI_0002607 oral swab specimen A specimen that is collected with a swab from the surface of a tongue. http://purl.obolibrary.org/obo/OBI_0002611 vagina swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of a vagina. http://purl.obolibrary.org/obo/OBI_0002613 environmental swab specimen http://purl.obolibrary.org/obo/OBI_0002599 swab specimen A specimen that is collected with a swab from the surface of an environmenal material. http://purl.obolibrary.org/obo/OMRSE_00000198 information content entity-request process http://purl.obolibrary.org/obo/OMRSE_00000192 obsolete communication a communication in which some participant requests of some other participant an information content entity about some portion of reality http://purl.obolibrary.org/obo/ICO_0000003 validating an informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that validates an informed consent form. http://purl.obolibrary.org/obo/ICO_0000004 approving an informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that approves an informed consent form. http://purl.obolibrary.org/obo/ICO_0000006 informed consent regulatory body http://purl.obolibrary.org/obo/OBI_0000245 organization An organization charged with approving clinical study protocols and ensuring that applicable governing rules and laws are upheld. http://purl.obolibrary.org/obo/ICO_0000008 description of participation risk http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity A descriptive information content entity that describes potential harm or estimates the likelihood of harm. http://purl.obolibrary.org/obo/ICO_0000009 recontact method directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A document part that prescribes a method of contact in the future. http://purl.obolibrary.org/obo/ICO_0000010 option to check http://purl.obolibrary.org/obo/ICO_0000242 user input directive An answer directive that is part of a document and whose filling in or leaving blank is incidental to the completion of the form. http://purl.obolibrary.org/obo/ICO_0000011 required informed consent element http://purl.obolibrary.org/obo/IAO_0000314 document part A document part of an informed consent form for which an answer is required in order to complete the form. http://purl.obolibrary.org/obo/ICO_0000012 optional informed consent element http://purl.obolibrary.org/obo/IAO_0000314 document part A document part of an informed consent form for which an answer is not required in order to complete the form. http://purl.obolibrary.org/obo/ICO_0000013 informed consent form for human biospecimen collection http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that documents a voluntary decision to deposit a human biospecimen. http://purl.obolibrary.org/obo/ICO_0000014 informed consent form for human blood sample collection http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that is specifically for human blood sample collection. http://purl.obolibrary.org/obo/ICO_0000015 signed informed consent form http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that has been signed by at least one participant. http://purl.obolibrary.org/obo/ICO_0000017 obsolete fully signed informed consent form http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An informed consent form that has been signed by all participants. http://purl.obolibrary.org/obo/ICO_0000018 informed consent form signed by human subject http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that has been signed by a human subject http://purl.obolibrary.org/obo/ICO_0000019 signature section http://purl.obolibrary.org/obo/IAO_0000314 document part A document part that is specified as a place to receive a signature. http://purl.obolibrary.org/obo/ICO_0000020 human subject signature section in informed consent form http://purl.obolibrary.org/obo/ICO_0000019 signature section A signature section in informed consent element that that is specified as a place to receive a signature from a human subject. http://purl.obolibrary.org/obo/ICO_0000021 investigator signature section in informed consent form http://purl.obolibrary.org/obo/ICO_0000019 signature section A signature section in an informed consent form that is specified as a place to receive a signature from an investigator. http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier http://purl.obolibrary.org/obo/IAO_0000030 information content entity A information content entity that designates a temporal region. http://purl.obolibrary.org/obo/ICO_0000025 effective date specification in informed consent form http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A date specification in an informed consent form that specifies an effective date of an investigation. http://purl.obolibrary.org/obo/ICO_0000026 obsolete expiration date specification in informed consent form http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A date specification in an informed consent form that specifies the expiration date of an investigation. http://purl.obolibrary.org/obo/ICO_0000027 starting date specification in informed consent form http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A date specification in an informed consent form that specifies the starting date of an investigation. http://purl.obolibrary.org/obo/ICO_0000028 obsolete human blood sample collection section http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A document part that describes and specifies human blood sample collection procedures. http://purl.obolibrary.org/obo/ICO_0000029 informed consent form for clinical study http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that is used for a clinical study. http://purl.obolibrary.org/obo/ICO_0000030 informed consent form for storage and future use of unused samples http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that is used for a storage and future use of unused samples. http://purl.obolibrary.org/obo/ICO_0000031 informed consent form for qualitative study http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that is used for a qualitative study. http://purl.obolibrary.org/obo/ICO_0000032 informed assent form for child or minor http://purl.obolibrary.org/obo/ICO_0000085 informed assent form An informed consent form that is adapted to the cognitive abilities and reading abilities child or minor. http://purl.obolibrary.org/obo/ICO_0000033 informed consent form for qualitative research involving children http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form for qualitative study that involves children. http://purl.obolibrary.org/obo/ICO_0000034 informed consent form for clinical research involving children http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form for clinical study that involves children. http://purl.obolibrary.org/obo/ICO_0000035 date specification in informed consent form http://purl.obolibrary.org/obo/IAO_0000027 data item A data item that indicates a date that specified on an informed consent form. http://purl.obolibrary.org/obo/ICO_0000036 informed consent form signing date http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A date specification that designates when an informed consent form was signed. http://purl.obolibrary.org/obo/ICO_0000037 project duration specification http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A temporal region identifier that designates a project duration. http://purl.obolibrary.org/obo/ICO_0000038 project starting date specification http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A date specification that designates the date when a project begins. http://purl.obolibrary.org/obo/ICO_0000039 project end date specification http://purl.obolibrary.org/obo/ICO_0000022 temporal region identifier A date specification that designates the date when a project ends. http://purl.obolibrary.org/obo/ICO_0000040 human subject consenter http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A human subject who provides informed consent without a legal guardian. http://purl.obolibrary.org/obo/ICO_0000042 obligation informed consent rule specification http://purl.obolibrary.org/obo/ICO_0000041 informed consent rule specification An informed consent rule specification that specifies a course of action legally required to be taken. http://purl.obolibrary.org/obo/ICO_0000043 permission informed consent rule specification http://purl.obolibrary.org/obo/ICO_0000041 informed consent rule specification An informed consent rule specification that specifies an optional course of action that is an option for a participant to take. http://purl.obolibrary.org/obo/ICO_0000044 informed consent identification code http://purl.obolibrary.org/obo/IAO_0000027 data item A data item consisting of a unique identification code designating an informed consent. http://purl.obolibrary.org/obo/ICO_0000045 investigator role http://purl.obolibrary.org/obo/BFO_0000023 role A role borne by an agent that, if realized, is realized in an investigation. http://purl.obolibrary.org/obo/ICO_0000047 human population http://purl.obolibrary.org/obo/OBI_0000181 population A population of human beings. http://purl.obolibrary.org/obo/ICO_0000048 nonprofit organization http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is operated without the principal goal of making a financial profit. http://purl.obolibrary.org/obo/ICO_0000049 profit organization http://purl.obolibrary.org/obo/OBI_0000245 organization An organization which has the principle goal of earning financial profit. http://purl.obolibrary.org/obo/ICO_0000051 cancer research investigation http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that targets cancer research. http://purl.obolibrary.org/obo/ICO_0000052 obsolete metastatic melanoma research investigation http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A cancer research investigation that specifically targets metastatic melanoma research. http://purl.obolibrary.org/obo/ICO_0000053 drug testing investigation http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that targets drug testing. http://purl.obolibrary.org/obo/ICO_0000054 human research investigation http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that involves human research. http://purl.obolibrary.org/obo/ICO_0000055 obsolete genetic study http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An investigation that has process part some genetic analysis. http://purl.obolibrary.org/obo/ICO_0000056 nonprofit research investigation http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that is conducted with a nonprofit purpose. http://purl.obolibrary.org/obo/ICO_0000057 for-profit research investigation http://purl.obolibrary.org/obo/OBI_0000066 investigation An investigation that is conducted with the purpose of earning a profit. http://purl.obolibrary.org/obo/ICO_0000059 ethics directive http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity prescribes an ethical requirement. http://purl.obolibrary.org/obo/ICO_0000060 act of storing a specimen http://purl.obolibrary.org/obo/ICO_0000227 act of storing A planned process that involves placing a specimen in some location in order to maintain possession of it. http://purl.obolibrary.org/obo/ICO_0000061 informed consent form for genetic study http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that is designed for use in genetic studies. http://purl.obolibrary.org/obo/ICO_0000062 human subject unable to give informed consent http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A human subject who is unable to give informed consent. In this case, another person is generally authorized to give consent on his behalf, e.g., parents or legal guardians of a child, though in this circumstance the child may be required to provide informed assent, and conservators for the mentally ill. http://purl.obolibrary.org/obo/ICO_0000065 clinical trial http://purl.obolibrary.org/obo/OBI_0000066 investigation A study that is a clinical trial that requires an informed consent process. http://purl.obolibrary.org/obo/ICO_0000066 clinical trial title http://purl.obolibrary.org/obo/OBI_0001622 investigation title An investigation title that designates a clinical trial study, briefly identifying the purpose or design of the investigation. http://purl.obolibrary.org/obo/ICO_0000070 contact person for questions about research subject rights http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who is the contact for questions about research subject right. http://purl.obolibrary.org/obo/ICO_0000074 authorization for release of confidential health information http://purl.obolibrary.org/obo/ICO_0000046 act of authorizing An act of authorizing that is signed by a patient, or his legal representative, or clinical study participant for the use or disclosure of oral, written, or electronic form of confidential health information that identifies the individual and relates to the medical history, diagnosis, treatment, or prognosis of his condition. http://purl.obolibrary.org/obo/ICO_0000075 obsolete authorization document http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A document that is the output of an authorization process. http://purl.obolibrary.org/obo/ICO_0000076 obsolete authorization for medical records release http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An authorization process aims to release the medical record. http://purl.obolibrary.org/obo/ICO_0000083 individually identifiable health information entity http://purl.obolibrary.org/obo/ICO_0000103 protected health information entity A protected health information entity which identifies an individual; or with respect to which there is a reasonable basis to believe the information can be used to identify an individual. http://purl.obolibrary.org/obo/ICO_0000084 informed consent process with assent http://purl.obolibrary.org/obo/OBI_0000810 informed consent process An informed consent process that has an act of communicating assent as a process part, where the person who provides the assent does not bear a competency to consent. http://purl.obolibrary.org/obo/ICO_0000085 informed assent form http://purl.obolibrary.org/obo/IAO_0000310 document A document that explains relevant information regarding the expectations and requirements of participation in a research study or clinical procedure, is adapted to the cognitive capacities of that individual so as to assist in that individual's understanding, and is designed to record the assent of that individual. http://purl.obolibrary.org/obo/ICO_0000090 obsolete credential letter http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A document that certifies that 1) a person may perform some action, or 2) which provides authentication for a claim, or 3) which confirms position or status. http://purl.obolibrary.org/obo/ICO_0000097 obsolete mental health care record http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class A medical record that describes a patient's mental health care history. http://purl.obolibrary.org/obo/ICO_0000099 informed consent form for human urine biospecimen collection http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form designed for use in human urine collection. http://purl.obolibrary.org/obo/ICO_0000100 research-related injury http://purl.obolibrary.org/obo/OGMS_0000102 injury A physical injury or illness that is a direct result of the treatment, or procedures required by the protocol, to which the subject would not have been exposed had they not participated in the study. http://purl.obolibrary.org/obo/ICO_0000101 health information entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity which is created or received by a health care provider, health plan, public health authority, employer, life insurer, school or university, or health care clearinghouse; and relates to the past, present, or future physical or mental health or condition of any individual, the provision of health care to an individual, or the past, present, or future payment for the provision of health care to an individual. http://purl.obolibrary.org/obo/ICO_0000102 obsolete information sharing process http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class The process that shares the information under the informed consent context http://purl.obolibrary.org/obo/ICO_0000103 protected health information entity http://purl.obolibrary.org/obo/ICO_0000101 health information entity A health information entity which is created, received, stored, or transmitted by covered entities and their business associates in relation to the provision of healthcare, healthcare operations and payment for healthcare services. http://purl.obolibrary.org/obo/ICO_0000104 informed consent form containing questionnaire http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form that contains a questionnaire section. http://purl.obolibrary.org/obo/ICO_0000106 obsolete legal name http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class Legal name is the person name that identifies a person for legal, administrative and other official purposes. A person's first legal name generally is the name of the person that was given for the purpose of registration of the birth and which then appears on a birth certificate (see birth name), but may change subsequently. http://purl.obolibrary.org/obo/ICO_0000107 study termination http://purl.obolibrary.org/obo/BFO_0000015 process A process that terminates a study. http://purl.obolibrary.org/obo/ICO_0000108 withdrawing participation in study http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which an agent decides to discontinue further participation in a study. http://purl.obolibrary.org/obo/ICO_0000109 act of canceling a permission http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that revokes a permission role inhering in some agent. http://purl.obolibrary.org/obo/ICO_0000111 review board approval number http://purl.obolibrary.org/obo/IAO_0000028 symbol A character string that is assigned by a review board upon approval of a regulatory document. http://purl.obolibrary.org/obo/ICO_0000113 anonymized information content entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that has been processed to prevent the identification of the person with whom the data are associated, thereby enduring in a stasis of anonymization. http://purl.obolibrary.org/obo/ICO_0000114 obsolete anonymized genomic data http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class An anonymized data item that is about a genomic sample. http://purl.obolibrary.org/obo/ICO_0000116 act of using study participant data http://purl.obolibrary.org/obo/ICO_0000421 act of data use A planned process that involves using data which was an output of a human being's participation in a study and which is about that human being. http://purl.obolibrary.org/obo/ICO_0000118 repository of documents http://purl.obolibrary.org/obo/BFO_0000029 site A site where documents are preserved. http://purl.obolibrary.org/obo/ICO_0000123 act of storing signed informed consent form http://purl.obolibrary.org/obo/ICO_0000227 act of storing An act of storing a complete informed consent form. http://purl.obolibrary.org/obo/ICO_0000129 informed consent form for human saliva sample collection http://purl.obolibrary.org/obo/ICO_0000001 informed consent form An informed consent form for human sample collection that is specifically for human saliva sample collection. http://purl.obolibrary.org/obo/ICO_0000136 participant candidate making voluntary decision of acceptance http://purl.obolibrary.org/obo/BFO_0000015 process A process in which a candidate makes a voluntary decision to join a study, following their consideration of adequate information presented to them regarding the study and their participation in it. http://purl.obolibrary.org/obo/ICO_0000140 eligibility questionnaire http://purl.obolibrary.org/obo/OBI_0001000 questionnaire A questionnaire whose purpose is to aid in identifying whether an agent is eligible to participate in a process. http://purl.obolibrary.org/obo/ICO_0000142 legally effective consenting http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that results in a legally effective consent status. http://purl.obolibrary.org/obo/ICO_0000144 legally effective consented participant role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a human being who participates in a consenting process and eventually becomes legally effectively consented. http://purl.obolibrary.org/obo/ICO_0000147 candidate eligible for study role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a participant who meets all eligibility criteria defined within a study protocol. http://purl.obolibrary.org/obo/ICO_0000148 candidate ineligible for study role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a participant who does not meet all eligibility criteria defined within the study protocol. http://purl.obolibrary.org/obo/ICO_0000150 eligibility screening process http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process to screen the eligibility of a candidate for a study or procedure, verifying whether certain sufficient or necessary conditions for eligibility obtain. http://purl.obolibrary.org/obo/ICO_0000151 eligibility screening role http://purl.obolibrary.org/obo/BFO_0000023 role A role that inheres in a person that, if realized, is realized in an eligibility screening process. http://purl.obolibrary.org/obo/ICO_0000172 yes answer text entity http://purl.obolibrary.org/obo/ICO_0000171 filled multiple choice text entity A filled multiple choice text entity that records a response indicating 'yes' to a multiple choice question. http://purl.obolibrary.org/obo/ICO_0000173 no answer text entity http://purl.obolibrary.org/obo/ICO_0000171 filled multiple choice text entity A filled multiple choice text entity that records a response indicating 'no' to a multiple choice question. http://purl.obolibrary.org/obo/ICO_0000174 filling informed consent form http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves the filling of an informed consent form. http://purl.obolibrary.org/obo/ICO_0000175 filling questionnaire http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that involves the filling of a questionnaire form that includes a list of questions. http://purl.obolibrary.org/obo/OBI_0002779 mid-turbinate nasal swab specimen http://purl.obolibrary.org/obo/OBI_0000917 nasal swab specimen A specimen that is collected with a mid-turbinate nasal swab from the turbinate area of the nasal cavity. http://purl.obolibrary.org/obo/OBI_0002783 lower respiratory tract specimen http://purl.obolibrary.org/obo/OBI_2000005 respiratory system specimen A specimen that is derived from the lower respiratory tract. http://purl.obolibrary.org/obo/OBI_0002784 anterior nasal swab specimen http://purl.obolibrary.org/obo/OBI_0000917 nasal swab specimen A specimen that is derived from the anterior nasal wall http://purl.obolibrary.org/obo/OBI_0002971 endotracheal tube specimen http://purl.obolibrary.org/obo/OBI_0002783 lower respiratory tract specimen A specimen that derives from a biofilm that forms on the inner surface of an endotracheal tube while the tube is in the trachea. The specimen is collected upon removal of the tube from the trachea. http://purl.obolibrary.org/obo/OBI_0002972 endotracheal aspirate specimen http://purl.obolibrary.org/obo/OBI_0002781 lower respiratory tract aspirate specimen A specimen that derives from a biofilm that forms on the inner surface of an endotracheal tube while the tube is in the trachea. The specimen is collected by suction without removing the tube. http://purl.obolibrary.org/obo/BFO_0000148 zero-dimensional temporal region http://purl.obolibrary.org/obo/BFO_0000008 temporal region temporal instant. http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens http://purl.obolibrary.org/obo/NCBITaxon_314146 Euarchontoglires human being http://purl.obolibrary.org/obo/NCBITaxon_2 Bacteria http://purl.obolibrary.org/obo/OBI_0100026 organism eubacteria http://purl.obolibrary.org/obo/NCBITaxon_117571 Euteleostomi http://purl.obolibrary.org/obo/NCBITaxon_7742 Vertebrata bony vertebrates http://purl.obolibrary.org/obo/NCBITaxon_2759 Eukaryota http://purl.obolibrary.org/obo/OBI_0100026 organism eukaryotes http://purl.obolibrary.org/obo/NCBITaxon_32523 Tetrapoda http://purl.obolibrary.org/obo/NCBITaxon_117571 Euteleostomi tetrapods http://purl.obolibrary.org/obo/NCBITaxon_32524 Amniota http://purl.obolibrary.org/obo/NCBITaxon_32523 Tetrapoda amniotes http://purl.obolibrary.org/obo/NCBITaxon_33208 Metazoa http://purl.obolibrary.org/obo/NCBITaxon_33154 Opisthokonta multicellular animals http://purl.obolibrary.org/obo/NCBITaxon_40674 Mammalia http://purl.obolibrary.org/obo/NCBITaxon_32524 Amniota mammals http://purl.obolibrary.org/obo/NCBITaxon_7742 Vertebrata http://purl.obolibrary.org/obo/NCBITaxon_33213 Bilateria vertebrates http://purl.obolibrary.org/obo/IAO_8000000 ontology module http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part ontology file http://purl.obolibrary.org/obo/ICO_0000082 obsolete legal guardian http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class legally authorized representative http://purl.obolibrary.org/obo/IAO_8000017 ontology module subsetted by expressivity http://purl.obolibrary.org/obo/IAO_8000006 subset ontology module http://purl.obolibrary.org/obo/ICO_0000253 description of voluntary participation http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity http://purl.obolibrary.org/obo/ICO_0000272 description of expected study participation duration http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity http://purl.obolibrary.org/obo/ICO_0000281 description of breach of confidentiality http://www.ontologyrepository.com/CommonCoreOntologies/DescriptiveInformationContentEntity descriptive information content entity http://purl.obolibrary.org/obo/BFO_0000008 temporal region http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000011 spatiotemporal region http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity http://purl.obolibrary.org/obo/BFO_0000004 independent continuant http://purl.obolibrary.org/obo/BFO_0000009 two-dimensional spatial region http://purl.obolibrary.org/obo/BFO_0000006 spatial region http://purl.obolibrary.org/obo/BFO_0000018 zero-dimensional spatial region http://purl.obolibrary.org/obo/BFO_0000006 spatial region http://purl.obolibrary.org/obo/BFO_0000026 one-dimensional spatial region http://purl.obolibrary.org/obo/BFO_0000006 spatial region http://purl.obolibrary.org/obo/BFO_0000028 three-dimensional spatial region http://purl.obolibrary.org/obo/BFO_0000006 spatial region http://purl.obolibrary.org/obo/BFO_0000038 one-dimensional temporal region http://purl.obolibrary.org/obo/BFO_0000008 temporal region http://purl.obolibrary.org/obo/BFO_0000182 history http://purl.obolibrary.org/obo/BFO_0000015 process http://purl.obolibrary.org/obo/OGMS_0000060 bodily process http://purl.obolibrary.org/obo/BFO_0000015 process http://purl.obolibrary.org/obo/BFO_0000034 function http://purl.obolibrary.org/obo/BFO_0000016 disposition http://purl.obolibrary.org/obo/BFO_0000016 disposition http://purl.obolibrary.org/obo/BFO_0000017 realizable entity http://purl.obolibrary.org/obo/BFO_0000019 quality http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant http://purl.obolibrary.org/obo/BFO_0000024 fiat object part http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/BFO_0000027 object aggregate http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/BFO_0000030 object http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/BFO_0000142 one-dimensional continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000140 continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000146 two-dimensional continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000140 continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000147 zero-dimensional continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000140 continuant fiat boundary http://purl.obolibrary.org/obo/BFO_0000006 spatial region http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity http://purl.obolibrary.org/obo/BFO_0000029 site http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity http://purl.obolibrary.org/obo/IAO_0000034 time trigger http://purl.obolibrary.org/obo/IAO_0000001 conditional specification http://purl.obolibrary.org/obo/IAO_0000429 email address http://purl.obolibrary.org/obo/IAO_0000030 information content entity http://purl.obolibrary.org/obo/IAO_0000057 contour plot http://purl.obolibrary.org/obo/IAO_0000038 graph http://purl.obolibrary.org/obo/IAO_0000582 time stamped measurement datum http://purl.obolibrary.org/obo/IAO_0000109 measurement datum http://purl.obolibrary.org/obo/NCBITaxon_10239 Viruses http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/NCBITaxon_2157 Archaea http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/ico.owl#Belongs_in_CRO obsolete ICO Classes to Move to RUBRIC http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ico.owl#Belongs_in_D-Acts obsolete ICO Classes to Move to D-Acts http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000184 obsolete NEW_CLASSES http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000261 obsolete information about participant http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000270 obsolete benefit http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000271 obsolete risk http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0000008 obsolete_artifact http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0000018 obsolete_material_entity http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0000128 obsolete_identifier http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0000141 obsolete_digital quality http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000153 obsolete consenting to be contacted for tissue research http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000166 obsolete deontic role http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000182 obsolete consenting to the secondary use of EHR http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0021010 obsolete_obligation http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/IAO_0021000 obsolete_claim http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000063 obsolete informed consent form for quantitative study http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000068 obsolete general requirement for informed consent http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000119 obsolete storage duration of signed informed consent form http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/ICO_0000152 obsolete eligibility screening person http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/NCBITaxon_33154 Opisthokonta http://purl.obolibrary.org/obo/NCBITaxon_2759 Eukaryota http://purl.obolibrary.org/obo/NCBITaxon_33213 Bilateria http://purl.obolibrary.org/obo/NCBITaxon_33208 Metazoa http://purl.obolibrary.org/obo/NCBITaxon_314146 Euarchontoglires http://purl.obolibrary.org/obo/NCBITaxon_40674 Mammalia http://purl.obolibrary.org/obo/UBERON_0006911 digestive system secreted substance http://purl.obolibrary.org/obo/UBERON_0000463 organism substance http://purl.obolibrary.org/obo/OMRSE_00000023 collection of humans http://purl.obolibrary.org/obo/OMRSE_00000022 collection of organisms http://purl.obolibrary.org/obo/IAO_8000016 taxonomic bridge ontology module http://purl.obolibrary.org/obo/IAO_8000004 bridge ontology module http://purl.obolibrary.org/obo/IAO_8000019 ontology module subsetted by OWL profile http://purl.obolibrary.org/obo/IAO_8000017 ontology module subsetted by expressivity http://purl.obolibrary.org/obo/IAO_8000020 EL++ ontology module http://purl.obolibrary.org/obo/IAO_8000019 ontology module subsetted by OWL profile http://purl.obolibrary.org/obo/IAO_0020021 identity document A document that denotes some identity and is concretized by the bearer of some credential role. http://purl.obolibrary.org/obo/BFO_0000001 entity http://www.geneontology.org/formats/oboInOwl#ObsoleteClass Obsolete Class http://purl.obolibrary.org/obo/RO_0000079 function of http://purl.obolibrary.org/obo/RO_0000052 characteristic of is function of a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000080 quality of http://purl.obolibrary.org/obo/RO_0000052 characteristic of quality_of a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000085 has function http://purl.obolibrary.org/obo/RO_0000053 has characteristic has_function a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000086 has quality http://purl.obolibrary.org/obo/RO_0000053 has characteristic has_quality a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0002350 member of http://purl.obolibrary.org/obo/BFO_0000050 part of member part of is member of is a mereological relation between a item and a collection. http://purl.obolibrary.org/obo/RO_0002218 has active participant http://purl.obolibrary.org/obo/RO_0000057 has participant has agent x has participant y if and only if x realizes some active role that inheres in y http://purl.obolibrary.org/obo/RO_0000087 has role http://purl.obolibrary.org/obo/RO_0000053 has characteristic has_role a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000081 role of http://purl.obolibrary.org/obo/RO_0000052 characteristic of role_of a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/ICO_0000216 permits http://purl.obolibrary.org/obo/BFO_0000054 realized in A relation holding between an instance of a deontic role and an instance of an intentional action when the deontic role bearer participates in the intentional action and is allowed to do so. http://purl.obolibrary.org/obo/ICO_0000225 agent in http://purl.obolibrary.org/obo/RO_0000056 participates in A relation between a continuant and a process, where the continuant is a causal participant in the process. http://purl.obolibrary.org/obo/IAO_0000142 mentions http://purl.obolibrary.org/obo/IAO_0000136 is about An information artifact IA mentions an entity E exactly when it has a component/part that denotes E http://purl.obolibrary.org/obo/IAO_0000219 denotes http://purl.obolibrary.org/obo/IAO_0000136 is about A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically http://purl.obolibrary.org/obo/IAO_0000221 is quality measurement of http://purl.obolibrary.org/obo/IAO_0000136 is about m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q http://purl.obolibrary.org/obo/IAO_0000413 is duration of http://purl.obolibrary.org/obo/IAO_0000136 is about relates a process to a time-measurement-datum that represents the duration of the process http://purl.obolibrary.org/obo/IAO_0000418 is quality specification of http://purl.obolibrary.org/obo/IAO_0000136 is about A relation between a data item and a quality of a material entity where the material entity is the specified output of a material transformation which achieves an objective specification that indicates the intended value of the specified quality. http://purl.obolibrary.org/obo/IAO_0000581 has time stamp http://purl.obolibrary.org/obo/BFO_0000051 has part relates a time stamped measurement datum to the time measurement datum that denotes the time when the measurement was taken http://purl.obolibrary.org/obo/IAO_0000583 has measurement datum http://purl.obolibrary.org/obo/BFO_0000051 has part relates a time stamped measurement datum to the measurement datum that was measured http://purl.obolibrary.org/obo/OBI_0000293 has specified input http://purl.obolibrary.org/obo/RO_0000057 has participant The inverse property of is specified input of http://purl.obolibrary.org/obo/OBI_0000295 is specified input of http://purl.obolibrary.org/obo/RO_0000056 participates in A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of. http://purl.obolibrary.org/obo/OBI_0000299 has specified output http://purl.obolibrary.org/obo/RO_0000057 has participant The inverse property of is specified output of http://purl.obolibrary.org/obo/OBI_0000312 is specified output of http://purl.obolibrary.org/obo/RO_0000056 participates in A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of. http://purl.obolibrary.org/obo/OBI_0000643 has grain http://purl.obolibrary.org/obo/BFO_0000051 has part the relation of the cells in the finger of the skin to the finger, in which an indeterminate number of grains are parts of the whole by virtue of being grains in a collective that is part of the whole, and in which removing one granular part does not nec- essarily damage or diminish the whole. Ontological Whether there is a fixed, or nearly fixed number of parts - e.g. fingers of the hand, chambers of the heart, or wheels of a car - such that there can be a notion of a single one being missing, or whether, by contrast, the number of parts is indeterminate - e.g., cells in the skin of the hand, red cells in blood, or rubber molecules in the tread of the tire of the wheel of the car. http://purl.obolibrary.org/obo/OBI_0001938 has value specification http://purl.obolibrary.org/obo/BFO_0000051 has part A relation between an information content entity and a value specification that specifies its value. http://purl.obolibrary.org/obo/RO_0002351 has member http://purl.obolibrary.org/obo/BFO_0000051 has part has member is a mereological relation between a collection and an item. http://purl.obolibrary.org/obo/RO_0000091 has disposition http://purl.obolibrary.org/obo/RO_0000053 has characteristic a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/IAO_0021011 legally revokes http://purl.obolibrary.org/obo/RO_0000057 has participant d socio-legally revokes s if s participates in d and at the end of d s no longer exists. It is important to note that this going out of existence of s is complete and unlike the going out of existence for material entities which basically always are transformed into something else. After the declaration nothing is left of the socio-legal generically dependent continuant in question. http://purl.obolibrary.org/obo/RO_0002180 has component http://purl.obolibrary.org/obo/BFO_0000051 has part w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. http://www.ontologyrepository.com/CommonCoreOntologies/prescribes prescribes http://purl.obolibrary.org/obo/IAO_0000136 is about http://purl.obolibrary.org/obo/RO_0000092 disposition of http://purl.obolibrary.org/obo/RO_0000052 characteristic of http://purl.obolibrary.org/obo/ICO_0000224 has agent http://purl.obolibrary.org/obo/RO_0000057 has participant http://purl.obolibrary.org/obo/IAO_0000039 has measurement unit label http://purl.obolibrary.org/obo/BFO_0000051 has part http://purl.obolibrary.org/obo/IAO_0000407 has coordinate unit label http://purl.obolibrary.org/obo/BFO_0000051 has part http://purl.obolibrary.org/obo/RO_0000052 characteristic of inheres_in a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence. http://purl.obolibrary.org/obo/RO_0000053 has characteristic is bearer of Inverse of characteristic_of http://purl.obolibrary.org/obo/RO_0000056 participates in participates_in a relation between a continuant and a process, in which the continuant is somehow involved in the process http://purl.obolibrary.org/obo/RO_0000057 has participant has_participant a relation between a process and a continuant, in which the continuant is somehow involved in the process http://purl.obolibrary.org/obo/RO_0001000 derives from derives_from a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity http://purl.obolibrary.org/obo/RO_0001001 derives into derives_into a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity http://purl.obolibrary.org/obo/RO_0001015 location of location_of a relation between two independent continuants, the location and the target, in which the target is entirely within the location http://purl.obolibrary.org/obo/RO_0002000 2D boundary of is boundary of a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity http://purl.obolibrary.org/obo/RO_0002002 has 2D boundary has_2D_boundary a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity http://purl.obolibrary.org/obo/RO_0001025 located in located_in a relation between two independent continuants, the target and the location, in which the target is entirely within the location http://purl.obolibrary.org/obo/BFO_0000051 has part has_part a core relation that holds between a whole and its part http://purl.obolibrary.org/obo/BFO_0000050 part of part_of a core relation that holds between a part and its whole http://purl.obolibrary.org/obo/BFO_0000066 occurs in unfolds_in b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t http://purl.obolibrary.org/obo/ICO_0000208 has permission has_permission An object property that represents a relation between a research project and its associated permission type under the categery of 'information content entity'. http://www.ontologyrepository.com/CommonCoreOntologies/designated_by designated by The inverse of designates, which relates an Entity to some Information Content Entity. http://www.ontologyrepository.com/CommonCoreOntologies/has_familial_relationship_to has familial relationship to A relationship between persons by virtue of ancestry or legal union. http://www.ontologyrepository.com/CommonCoreOntologies/prescribed_by prescribed by The inverse of presecribes, which relates an Entity to some Directive Information Content Entity. http://purl.obolibrary.org/obo/ICO_0000132 obsolete is assigned by organization An object property that represents a relation between a unique identifier (ID) and an organization that assigns the ID. http://purl.obolibrary.org/obo/BFO_0000067 contains process [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t http://purl.obolibrary.org/obo/IAO_0000135 obsolete_specifically denotes c specifically denotes r =def r is a portion of reality & c is a particular quality & c depends specifically on some independent continuant b & b acquired c as the result of the achievement of an objective to enable pointing to r repeatedly. Marked means there is a changed or additional quality of the bearer - the quality is the information carrier. Case 1 Memory trace as mark created when reading some description of some friend. The trace can denote. Case 2 Pattern of ink arrayed on paper as mark when writing down a friend's name Case 3 Pattern of magnetic domains on scattered pieces of a hard disk platter as mark when saving a file. http://purl.obolibrary.org/obo/IAO_0000136 is about A (currently) primitive relation that relates an information artifact to an entity. http://purl.obolibrary.org/obo/IAO_0000417 is quality measured as inverse of the relation of is quality measurement of http://purl.obolibrary.org/obo/IAO_0000419 quality is specified as inverse of the relation of is quality specification of http://purl.obolibrary.org/obo/OBI_0000124 is_supported_by_data The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process http://purl.obolibrary.org/obo/OBI_0000417 achieves_planned_objective This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process. http://purl.obolibrary.org/obo/OBI_0000833 objective_achieved_by This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process. http://purl.obolibrary.org/obo/RO_0000058 is concretized as A relationship between a generically dependent continuant and a specifically dependent continuant or process, in which the generically dependent continuant depends on some independent continuant or process in virtue of the fact that the specifically dependent continuant or process also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants or processes. http://purl.obolibrary.org/obo/RO_0000059 concretizes A relationship between a specifically dependent continuant or process and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant or process also depends on that same independent continuant. Multiple specifically dependent continuants or processes can concretize the same generically dependent continuant. http://purl.obolibrary.org/obo/IAO_0021012 obsolete_legally transfers d socio-legally transfers l if l participates in d and d has specified input (concretization of l)1 and specified output (concretization of l)2, where (concretization of l)1 and (concretization of l)2 are not identical. http://purl.obolibrary.org/obo/ICO_0000067 obsolete form signed by An object property that represents a relation between a form and the person or organization who acts as a signer and signs the form. http://purl.obolibrary.org/obo/DUO_0000010 is restricted to A is restricted to B iff A is a consent code and B is an investigation and A may only participate in instances of a class C, of which B is an instance. http://purl.obolibrary.org/obo/IAO_0000235 denoted by inverse of the relation 'denotes' http://purl.obolibrary.org/obo/ICO_0000130 obsolete is associated with review board approval number A relation that links an informed consent form to an associated IRB number. http://purl.obolibrary.org/obo/ICO_0000183 has duration Relates a process to a time-measurement-datum that represents the duration of the process http://purl.obolibrary.org/obo/BFO_0000054 realized in realized_in http://purl.obolibrary.org/obo/BFO_0000055 realizes http://purl.obolibrary.org/obo/IAO_0000004 has measurement value http://purl.obolibrary.org/obo/IAO_0000220 obsolete_materially denotes http://purl.obolibrary.org/obo/IAO_0000222 obsolete_describes http://purl.obolibrary.org/obo/IAO_0000223 obsolete_represents http://purl.obolibrary.org/obo/IAO_0000404 has x coordinate value http://purl.obolibrary.org/obo/IAO_0000405 has z coordinate value http://purl.obolibrary.org/obo/IAO_0000406 has y coordinate value http://purl.obolibrary.org/obo/RO_0004096 DEPRECATED inheres in http://purl.obolibrary.org/obo/RO_0004097 DEPRECATED bearer of http://purl.obolibrary.org/obo/OMRSE_00000020 is-aggregate-of http://purl.obolibrary.org/obo/BFO_0000062 preceded_by