@article{cbf33f6bb2a34c61b96fd7e23bb6bab1,
title = "The PATRIC Bioinformatics Resource Center: Expanding data and analysis capabilities",
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.",
author = "Davis, {James J.} and Wattam, {Alice R.} and Aziz, {Ramy K.} and Thomas Brettin and Ralph Butler and Butler, {Rory M.} and Philippe Chlenski and Neal Conrad and Allan Dickerman and Dietrich, {Emily M.} and Gabbard, {Joseph L.} and Svetlana Gerdes and Andrew Guard and Kenyon, {Ronald W.} and Dustin MacHi and Chunhong Mao and Dan Murphy-Olson and Marcus Nguyen and Nordberg, {Eric K.} and Olsen, {Gary J.} and Olson, {Robert D.} and Overbeek, {Jamie C.} and Ross Overbeek and Bruce Parrello and Pusch, {Gordon D.} and Maulik Shukla and Chris Thomas and Margo Vanoeffelen and Veronika Vonstein and Warren, {Andrew S.} and Fangfang Xia and Dawen Xie and Hyunseung Yoo and Rick Stevens",
note = "Funding Information: 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 stream-line 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. Publisher Copyright: {\textcopyright} 2019 Published by Oxford University Press on behalf of Nucleic Acids Research.",
year = "2020",
month = jan,
day = "1",
doi = "10.1093/nar/gkz943",
language = "English (US)",
volume = "48",
pages = "D606--D612",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "D1",
}