Mat_peptide: comprehensive annotation of mature peptides from polyproteins in five virus families
| Autor: | Xiaomei Li, Sherry He, Guangyu Sun, Liwei Zhou, Christopher N. Larsen, Vincent Desborough, Edward B. Klem, Sanjeev Kumar, Sam Zaremba, Hongtao Zhao |
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| Rok vydání: | 2019 |
| Předmět: |
Statistics and Probability
Polyproteins In silico Picornaviridae Computational biology Biology Biochemistry Virus 03 medical and health sciences Amino Acid Sequence Molecular Biology Peptide sequence Virus classification 030304 developmental biology 0303 health sciences 030302 biochemistry & molecular biology biology.organism_classification Caliciviridae Computer Science Applications Applications Note Computational Mathematics Computational Theory and Mathematics Viruses Togaviridae Peptides Software |
| Zdroj: | Bioinformatics |
| ISSN: | 1460-2059 1367-4803 |
| Popis: | Motivation Sequence repositories have few well-annotated virus mature peptide sequences. Therefore post-translational proteolytic processing of polyproteins into mature peptides (MPs) has been performed in silico, with a new computational method, for over 200 species in 5 pathogenic virus families (Caliciviridae, Coronaviridae, Flaviviridae, Picornaviridae and Togaviridae). Results Using pairwise alignment with reference sequences, MPs have been annotated and their sequences made available for search, analysis and download. At publication the method had produced 156 216 sequences, a large portion of the protein sequences now available in https://www.viprbrc.org. It represents a new and comprehensive mature peptide collection. Availability and implementation The data are available at the Virus Pathogen Resource https://www.viprbrc.org, and the software at https://github.com/VirusBRC/vipr_mat_peptide. |
| Databáze: | OpenAIRE |
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