assay footprint gel Date from BAE: 6/2/2016 PubChem AID: 449751 Gel electrophoresis is a method for separation and analysis of macromolecules (DNA, RNA and proteins) and their fragments, based on their size and charge. This general method encompasses different types of matrices (gels) with different properties. The most common types are polyacrylamide and agarose, both low-throughput methods.