title: PEASE: predicting B-cell epitopes utilizing antibody sequence.
abstract: Antibody epitope mapping is a key step in understanding antibody-antigen recognition and is of particular interest for drug development, diagnostics and vaccine design. Most computational methods for epitope prediction are based on properties of the antigen sequence and/or structure, not taking into account the antibody for which the epitope is predicted. Here, we introduce PEASE, a web server predicting antibody-specific epitopes, utilizing the sequence of the antibody. The predictions are provided both at the residue level and as patches on the antigen structure. The tradeoff between recall and precision can be tuned by the user, by changing the default parameters. The results are provided as text and HTML files as well as a graph, and can be viewed on the antigen 3D structure.
  
  
  METHODS
  PEASE is freely available on the web at www.ofranlab.org/PEASE.
  
  
  BACKGROUND
  yanay@ofranlab.org.
authors.affiliation: The Goodman Faculty of Life Sciences, Nanotechnology Building, Bar-Ilan University, Ramat-Gan 52900, Israel and Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
authors.forename: Inbal
authors.initials: I
authors.lastname: Sela-Culang
authors.affiliation: The Goodman Faculty of Life Sciences, Nanotechnology Building, Bar-Ilan University, Ramat-Gan 52900, Israel and Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
authors.forename: Shaul
authors.initials: S
authors.lastname: Ashkenazi
authors.affiliation: The Goodman Faculty of Life Sciences, Nanotechnology Building, Bar-Ilan University, Ramat-Gan 52900, Israel and Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
authors.forename: Bjoern
authors.initials: B
authors.lastname: Peters
authors.affiliation: The Goodman Faculty of Life Sciences, Nanotechnology Building, Bar-Ilan University, Ramat-Gan 52900, Israel and Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
authors.forename: Yanay
authors.initials: Y
authors.lastname: Ofran
mesh_terms: D000465:Algorithms; D000906:Antibodies / Q000737:chemistry* / Q000378:metabolism; D000941:Antigens / Q000737:chemistry*; D001185:Artificial Intelligence; D022801:Complementarity Determining Regions / Q000235:genetics; D018604:Epitope Mapping / Q000379:methods*; D018985:Epitopes, B-Lymphocyte / Q000737:chemistry* / Q000378:metabolism; D006801:Humans; D020407:Internet; D011487:Protein Conformation
chemical_list: D000906:Antibodies; D000941:Antigens; D022801:Complementarity Determining Regions; D018985:Epitopes, B-Lymphocyte