creators_name: Greenbaum, Jason A
creators_name: Andersen, Pernille Haste
creators_name: Blythe, Martin
creators_name: Bui, Huynh-Hoa
creators_name: Cachau, Raul E
creators_name: Crowe, James E
creators_name: Davies, Matthew
creators_name: Kolaskar, A S
creators_name: Lund, Ole
creators_name: Morrison, Sherrie
creators_name: Mumey, Brendan
creators_name: Ofran, Yanay
creators_name: Pellequer, Jean-Luc
creators_name: Pinilla, Clemencia
creators_name: Ponomarenko, Julia V
creators_name: Raghava, G.P.S.
creators_name: van Regenmortel, Marc H V
creators_name: Roggen, Erwin L
creators_name: Sette, Alessandro
creators_name: Schlessinger, Avner
creators_name: Sollner, Johannes
creators_name: Zand, Martin
creators_name: Peters, Bjoern
type: article
datestamp: 2012-01-10 08:05:44
lastmod: 2015-01-07 11:27:00
metadata_visibility: show
title: Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools.
ispublished: pub
subjects: QR
full_text_status: restricted
keywords: B-cell epitopes; epitope prediction; algorithms; immunology databases; data standardization; bioinformatics;
software tools; tool development
note: Copyright of this article belongs to Wiley.

abstract: A B-cell epitope is the three-dimensional structure within an antigen that can be bound to the variable region of an antibody. The prediction of B-cell epitopes is highly desirable for various immunological applications, but has presented a set of unique challenges to the bioinformatics and immunology communities. Improving the accuracy of B-cell epitope prediction methods depends on a community consensus on the data and metrics utilized to develop and evaluate such tools. A workshop, sponsored by the National Institute of Allergy and Infectious Disease (NIAID), was recently held in Washington, DC to discuss the current state of the B-cell epitope prediction field. Many of the currently available tools were surveyed and a set of recommendations was devised to facilitate improvements in the currently existing tools and to expedite future tool development. An underlying theme of the recommendations put forth by the panel is increased collaboration among research groups. By developing common datasets, standardized data formats, and the means with which to consolidate information, we hope to greatly enhance the development of B-cell epitope prediction tools.
date: 2007
publication: Journal of molecular recognition : JMR
volume: 20
number: 2
publisher: Wiley
pagerange: 75-82
refereed: TRUE
issn: 0952-3499
official_url: http://onlinelibrary.wiley.com/doi/10.1002/jmr.815/pdf
citation:   Greenbaum, Jason A and Andersen, Pernille Haste and Blythe, Martin and Bui, Huynh-Hoa and Cachau, Raul E and Crowe, James E and Davies, Matthew and Kolaskar, A S and Lund, Ole and Morrison, Sherrie and Mumey, Brendan and Ofran, Yanay and Pellequer, Jean-Luc and Pinilla, Clemencia and Ponomarenko, Julia V and Raghava, G.P.S. and van Regenmortel, Marc H V and Roggen, Erwin L and Sette, Alessandro and Schlessinger, Avner and Sollner, Johannes and Zand, Martin and Peters, Bjoern  (2007) Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools.  Journal of molecular recognition : JMR, 20 (2).  pp. 75-82.  ISSN 0952-3499     
document_url: http://crdd.osdd.net/open/50/1/raghava2007.2.pdf