Virus Pathogen Database and Analysis Resource (ViPR): A Comprehensive Bioinformatics Database and Analysis Resource for the Coronavirus Research Community

Viruses

Brett E. Pickett³  Douglas S. Greer³  Yun Zhang³  Lucy Stewart³  Liwei Zhou²  Guangyu Sun¹  Zhiping Gu²  Sanjeev Kumar²  Sam Zaremba²  Christopher N. Larsen¹  Wei Jen²  Edward B. Klem² 

[1] Vecna Technologies, 6404 Ivy Lane Suite 500, Greenbelt, MD 20770;Northrop Grumman Health Solutions, 2101 Gaither Rd., Rockville, MD 20850;J. Craig Venter Institute, 10355 Science Center Dr., San Diego, CA 92121;

关键词: virus;    database;    bioinformatics;    Coronavirus;    SARS;    SARS-CoV;    Coronaviridae;    comparative genomics;   

DOI  :  10.3390/v4113209

来源: mdpi

【 摘 要 】

Several viruses within the Coronaviridae family have been categorized as either emerging or re-emerging human pathogens, with Severe Acute Respiratory Syndrome Coronavirus (SARS-CoV) being the most well known. The NIAID-sponsored Virus Pathogen Database and Analysis Resource (ViPR, www.viprbrc.org) supports bioinformatics workflows for a broad range of human virus pathogens and other related viruses, including the entire Coronaviridae family. ViPR provides access to sequence records, gene and protein annotations, immune epitopes, 3D structures, host factor data, and other data types through an intuitive web-based search interface. Records returned from these queries can then be subjected to web-based analyses including: multiple sequence alignment, phylogenetic inference, sequence variation determination, BLAST comparison, and metadata-driven comparative genomics statistical analysis. Additional tools exist to display multiple sequence alignments, view phylogenetic trees, visualize 3D protein structures, transfer existing reference genome annotations to new genomes, and store or share results from any search or analysis within personal private ‘Workbench’ spaces for future access. All of the data and integrated analysis and visualization tools in ViPR are made available without charge as a service to the Coronaviridae research community to facilitate the research and development of diagnostics, prophylactics, vaccines and therapeutics against these human pathogens.

【 授权许可】

CC BY   
© 2012 by the authors; licensee MDPI, Basel, Switzerland.