title: The immune epitope database (IEDB) 3.0.
abstract: The IEDB, www.iedb.org, contains information on immune epitopes--the molecular targets of adaptive immune responses--curated from the published literature and submitted by National Institutes of Health funded epitope discovery efforts. From 2004 to 2012 the IEDB curation of journal articles published since 1960 has caught up to the present day, with >95% of relevant published literature manually curated amounting to more than 15,000 journal articles and more than 704,000 experiments to date. The revised curation target since 2012 has been to make recent research findings quickly available in the IEDB and thereby ensure that it continues to be an up-to-date resource. Having gathered a comprehensive dataset in the IEDB, a complete redesign of the query and reporting interface has been performed in the IEDB 3.0 release to improve how end users can access this information in an intuitive and biologically accurate manner. We here present this most recent release of the IEDB and describe the user testing procedures as well as the use of external ontologies that have enabled it.
authors.affiliation: Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, 9420 Athena Circle, CA 92037, USA rvita@liai.org.
authors.forename: Randi
authors.initials: R
authors.lastname: Vita
authors.affiliation: Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, 9420 Athena Circle, CA 92037, USA.
authors.forename: James A
authors.initials: JA
authors.lastname: Overton
authors.affiliation: Bioinformatics Core, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
authors.forename: Jason A
authors.initials: JA
authors.lastname: Greenbaum
authors.affiliation: San Diego Supercomputer Center, University of California, San Diego, CA 92093, USA.
authors.forename: Julia
authors.initials: J
authors.lastname: Ponomarenko
authors.affiliation: Leidos Health, LLC, San Diego, CA 92121, USA.
authors.forename: Jason D
authors.initials: JD
authors.lastname: Clark
authors.affiliation: Leidos Health, LLC, San Diego, CA 92121, USA.
authors.forename: Jason R
authors.initials: JR
authors.lastname: Cantrell
authors.affiliation: Leidos Health, LLC, San Diego, CA 92121, USA.
authors.forename: Daniel K
authors.initials: DK
authors.lastname: Wheeler
authors.affiliation: Grado Department of Industrial and Systems Engineering, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.
authors.forename: Joseph L
authors.initials: JL
authors.lastname: Gabbard
authors.affiliation: Grado Department of Industrial and Systems Engineering, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.
authors.forename: Deborah
authors.initials: D
authors.lastname: Hix
authors.affiliation: Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, 9420 Athena Circle, CA 92037, USA.
authors.forename: Alessandro
authors.initials: A
authors.lastname: Sette
authors.affiliation: Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, 9420 Athena Circle, CA 92037, USA.
authors.forename: Bjoern
authors.initials: B
authors.lastname: Peters
mesh_terms: D030562:Databases, Protein; D000939:Epitopes / Q000737:chemistry*; D020407:Internet; D011506:Proteins / Q000737:chemistry* / Q000276:immunology*
chemical_list: D000939:Epitopes; D011506:Proteins