The PATRIC Bioinformatics Resource Center: Expanding data and analysis capabilities

James J. Davis, Alice R. Wattam, Ramy K. Aziz, Thomas Brettin, Ralph Butler, Rory M. Butler, Philippe Chlenski, Neal Conrad, Allan Dickerman, Emily M. Dietrich, Joseph L. Gabbard, Svetlana Gerdes, Andrew Guard, Ronald W. Kenyon, Dustin MacHi, Chunhong Mao, Dan Murphy-Olson, Marcus Nguyen, Eric K. Nordberg, Gary J. OlsenRobert D. Olson, Jamie C. Overbeek, Ross Overbeek, Bruce Parrello, Gordon D. Pusch, Maulik Shukla, Chris Thomas, Margo Vanoeffelen, Veronika Vonstein, Andrew S. Warren, Fangfang Xia, Dawen Xie, Hyunseung Yoo, Rick Stevens

Research output: Contribution to journalArticlepeer-review

Abstract

The PathoSystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center funded by the National Institute of Allergy and Infectious Diseases (https://www.patricbrc.org). PATRIC supports bioinformatic analyses of all bacteria with a special emphasis on pathogens, offering a rich comparative analysis environment that provides users with access to over 250 000 uniformly annotated and publicly available genomes with curated metadata. PATRIC offers web-based visualization and comparative analysis tools, a private workspace in which users can analyze their own data in the context of the public collections, services that streamline complex bioinformatic workflows and command-line tools for bulk data analysis. Over the past several years, as genomic and other omics-related experiments have become more cost-effective and widespread, we have observed considerable growth in the usage of and demand for easy-to-use, publicly available bioinformatic tools and services. Here we report the recent updates to the PATRIC resource, including new web-based comparative analysis tools, eight new services and the release of a command-line interface to access, query and analyze data.

Original languageEnglish (US)
Pages (from-to)D606-D612
JournalNucleic acids research
Volume48
Issue numberD1
DOIs
StatePublished - Jan 1 2020

ASJC Scopus subject areas

  • Genetics

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