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Bcipep: a database of B-cell epitopes.

Saha S, Bhasin M, Raghava GP - BMC Genomics (2005)

Bottom Line: A comprehensive database of B-cell epitopes called Bcipep has been developed that covers information on epitopes from a wide range of pathogens.The Bcipep will be source of information for investigators involved in peptide-based vaccine design, disease diagnosis and research in allergy.It should also be a promising data source for the development and evaluation of methods for prediction of B-cell epitopes.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institute of Microbial Technology Chandigarh, India. saha@imtech.res.in <saha@imtech.res.in>

ABSTRACT

Background: Bcipep is a database of experimentally determined linear B-cell epitopes of varying immunogenicity collected from literature and other publicly available databases.

Results: The current version of Bcipep database contains 3031 entries that include 763 immunodominant, 1797 immunogenic and 471 -immunogenic epitopes. It covers a wide range of pathogenic organisms like viruses, bacteria, protozoa, and fungi. The database provides a set of tools for the analysis and extraction of data that includes keyword search, peptide mapping and BLAST search. It also provides hyperlinks to various databases such as GenBank, PDB, SWISS-PROT and MHCBN.

Conclusion: A comprehensive database of B-cell epitopes called Bcipep has been developed that covers information on epitopes from a wide range of pathogens. The Bcipep will be source of information for investigators involved in peptide-based vaccine design, disease diagnosis and research in allergy. It should also be a promising data source for the development and evaluation of methods for prediction of B-cell epitopes. The database is available at http://www.imtech.res.in/raghava/bcipep.

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Mapping of B-cell epitopes on antigen sequence, a) submission page of B-cell epitope mapping, and b) mapping results
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Figure 5: Mapping of B-cell epitopes on antigen sequence, a) submission page of B-cell epitope mapping, and b) mapping results

Mentions: The peptides of Bcipep can be mapped on query sequence using this option. The full information about mapped peptide can be obtained by clicking on it. The tool will assist the researchers in gaining knowledge about the known immunogenic or non-immunogenic regions in target protein of interest. The example input and output of peptide mapping is shown in Figures 5a and 5b respectively. The users can specify the pathogen group and/or immunogenicity level of peptides to be mapped on query sequence. As shown in Figure 5b, the graphical mapping of peptides/epitopes on query allows one to easily detect the regions that bind to large number of B-cell peptides.


Bcipep: a database of B-cell epitopes.

Saha S, Bhasin M, Raghava GP - BMC Genomics (2005)

Mapping of B-cell epitopes on antigen sequence, a) submission page of B-cell epitope mapping, and b) mapping results
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC1173103&req=5

Figure 5: Mapping of B-cell epitopes on antigen sequence, a) submission page of B-cell epitope mapping, and b) mapping results
Mentions: The peptides of Bcipep can be mapped on query sequence using this option. The full information about mapped peptide can be obtained by clicking on it. The tool will assist the researchers in gaining knowledge about the known immunogenic or non-immunogenic regions in target protein of interest. The example input and output of peptide mapping is shown in Figures 5a and 5b respectively. The users can specify the pathogen group and/or immunogenicity level of peptides to be mapped on query sequence. As shown in Figure 5b, the graphical mapping of peptides/epitopes on query allows one to easily detect the regions that bind to large number of B-cell peptides.

Bottom Line: A comprehensive database of B-cell epitopes called Bcipep has been developed that covers information on epitopes from a wide range of pathogens.The Bcipep will be source of information for investigators involved in peptide-based vaccine design, disease diagnosis and research in allergy.It should also be a promising data source for the development and evaluation of methods for prediction of B-cell epitopes.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institute of Microbial Technology Chandigarh, India. saha@imtech.res.in <saha@imtech.res.in>

ABSTRACT

Background: Bcipep is a database of experimentally determined linear B-cell epitopes of varying immunogenicity collected from literature and other publicly available databases.

Results: The current version of Bcipep database contains 3031 entries that include 763 immunodominant, 1797 immunogenic and 471 -immunogenic epitopes. It covers a wide range of pathogenic organisms like viruses, bacteria, protozoa, and fungi. The database provides a set of tools for the analysis and extraction of data that includes keyword search, peptide mapping and BLAST search. It also provides hyperlinks to various databases such as GenBank, PDB, SWISS-PROT and MHCBN.

Conclusion: A comprehensive database of B-cell epitopes called Bcipep has been developed that covers information on epitopes from a wide range of pathogens. The Bcipep will be source of information for investigators involved in peptide-based vaccine design, disease diagnosis and research in allergy. It should also be a promising data source for the development and evaluation of methods for prediction of B-cell epitopes. The database is available at http://www.imtech.res.in/raghava/bcipep.

Show MeSH
Related in: MedlinePlus