Individual antibody sequences accompanying publications are oftentimes deposited in public sequence repositories such as GenBank®.
Extracting antibody sequences either by sequence matches or by text search can be cumbersome as GenBank® is all-encompassing* and therefore not customized for antibody sequences specifically.
We extracted the antibody sequences from GenBank and connected these to the documents they were associated with (e.g. publications via PMID) in a service called
We only keep the antibody sequences where we identified all three CDRs and all four framework regions containing only the 20 canonical amino acids.
Antibody sequences in AbGenBank can be identified by either searches of full variable region sequences or individual IMGT-defined** CDRs.
Antibodies associated with specific targets can be identified via text-search (Figure 1).
1 Eric W Sayers, Mark Cavanaugh, Karen Clark, James Ostell, Kim D Pruitt, Ilene Karsch-Mizrachi, GenBank, Nucleic Acids Res. 2019 Jan 8;47(D1):D94-D99. doi: 10.1093/nar/gky9892. Marie-Paule Lefranc. Unique database numbering system for immunogenetic analysis. Immunol Today. 1997 Nov;18(11):509. doi: 10.1016/s0167-5699(97)01163-8.