PepMapper: a collaborative web tool for mapping epitopes from affinity-selected peptides

Epitope mapping from affinity-selected peptides has become popular in epitope prediction, and correspondingly many Web-based tools have been developed in recent years. However, the performance of these tools varies in different circumstances. To address this problem, we employed an ensemble approach...

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Bibliographic Details
Published in:PloS one 2012-05, Vol.7 (5), p.e37869-e37869
Main Authors: Chen, Wenhan, Guo, William W, Huang, Yanxin, Ma, Zhiqiang
Format: Article
Language:English
Subjects:
Affinity
Algorithms
Amino acids
Antigenic determinants
Antigens
Bioinformatics
Biology
Collaboration
Computer Science
Engineering
Epitope mapping
Epitope Mapping - methods
Informatics
Information technology
Internet
Laboratories
Libraries
Localization
Mapping
Methods
Online information services
Peptide Library
Peptide mapping
Peptides
Peptides - chemistry
Peptides - immunology
Proteins
Servers
Servers (computers)
Software
Web site management software
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Summary:Epitope mapping from affinity-selected peptides has become popular in epitope prediction, and correspondingly many Web-based tools have been developed in recent years. However, the performance of these tools varies in different circumstances. To address this problem, we employed an ensemble approach to incorporate two popular Web tools, MimoPro and Pep-3D-Search, together for taking advantages offered by both methods so as to give users more options for their specific purposes of epitope-peptide mapping. The combined operation of Union finds as many associated peptides as possible from both methods, which increases sensitivity in finding potential epitopic regions on a given antigen surface. The combined operation of Intersection achieves to some extent the mutual verification by the two methods and hence increases the likelihood of locating the genuine epitopic region on a given antigen in relation to the interacting peptides. The Consistency between Intersection and Union is an indirect sufficient condition to assess the likelihood of successful peptide-epitope mapping. On average from 27 tests, the combined operations of PepMapper outperformed either MimoPro or Pep-3D-Search alone. Therefore, PepMapper is another multipurpose mapping tool for epitope prediction from affinity-selected peptides. The Web server can be freely accessed at: http://informatics.nenu.edu.cn/PepMapper/
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0037869