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Online Journal of Bioinformatics ©
Volume 12(2):371-378, 2011
In silico T cell antigens from proteome of H1N2 swine influenza A virus.
Sitansu Kumar Verma, Shivam Pratap Singh Yadav and Ajay Kumar.
Department of Biotechnology, Institute of Biomedical Education and Research, Mangalayatan University, Aligarh (U.P), India
Verma SK, Singh Yadav SK, Kumar A., In silico T cell antigenic determinants from proteome of H1N2 swine influenza A virus, Online J Bioinformatics, 12(2):371-379, 2011. In silico peptides for development of vaccines against swine influenza H1N2 are described. Propred and Propred I were used to predict T cell epitopes from hemagglutinin, neuraminidase, polymerase, polymerasebasic 1, polymerase 2, matrix protein 1, matrix protein 2, nonstructural protein 1, nonstructural protein 2, and nucleocapsid protein of influenza virus (A/Sw/It/116114/2010) (H1N2). A 4% threshold was used to select high binding affinity peptides. A total of 21 epitopes were predicted for HLA class I and 20 epitopes for HLA class II molecules. These T cell epitopes were top scoring peptides and bound with the maximum number of HLA alleles.
Keywords: T cell epitope, Propred, Influenza A virus (H1N2), Human Leukocyte antigen.