The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities

被引：701

作者：

Davis, James J. ^{[1
,2
,6
]}

Wattam, Alice R. ^{[2
,3
]}

Aziz, Ramy K. ^{[4
,5
]}

Brettin, Thomas ^{[1
,6
]}

Butler, Ralph ^{[2
,7
]}

Butler, Rory M. ^{[2
]}

Chlenski, Philippe ^{[8
]}

Conrad, Neal ^{[1
,2
]}

Dickerman, Allan ^{[3
]}

Dietrich, Emily M. ^{[1
,6
]}

Gabbard, Joseph L. ^{[9
]}

Gerdes, Svetlana ^{[8
]}

Guard, Andrew ^{[1
]}

Kenyon, Ronald W. ^{[3
]}

Machi, Dustin ^{[3
]}

Mao, Chunhong ^{[3
]}

Murphy-Olson, Dan ^{[1
,6
]}

Nguyen, Marcus ^{[1
,2
]}

Nordberg, Eric K. ^{[10
]}

Olsen, Gary J. ^{[11
,12
]}

Olson, Robert D. ^{[1
,2
]}

Overbeek, Jamie C. ^{[1
,2
]}

Overbeek, Ross ^{[1
]}

Parrello, Bruce ^{[1
,2
]}

Pusch, Gordon D. ^{[8
]}

Shukla, Maulik ^{[1
,2
]}

Thomas, Chris ^{[1
]}

VanOeffelen, Margo ^{[8
]}

Vonstein, Veronika ^{[8
]}

Warren, Andrew S. ^{[3
]}

Xia, Fangfang ^{[1
,2
]}

Xie, Dawen ^{[3
]}

Yoo, Hyunseung ^{[1
,2
]}

Stevens, Rick ^{[6
,13
]}

机构：

[1] Univ Chicago, Univ Chicago Consortium Adv Sci & Engn, Chicago, IL 60637 USA

[2] Argonne Natl Lab, Div Data Sci & Learning, Argonne, IL 60439 USA

[3] Univ Virginia, Biocomplex Inst & Initiat, Charlottesville, VA 22904 USA

[4] Cairo Univ, Fac Pharm, Dept Microbiol & Immunol, Cairo 11562, Egypt

[5] Cairo Univ, Ctr Genome & Microbiome Res, Cairo 11562, Egypt

[6] Argonne Natl Lab, Comp Environm & Life Sci, 9700 S Cass Ave, Argonne, IL 60439 USA

[7] Middle Tennessee State Univ, Murfreesboro, TN 37132 USA

[8] Fellowship Interpretat Genomes, Burr Ridge, IL 60527 USA

[9] Virginia Tech, Blacksburg, VA 24061 USA

[10] Virginia Tech Univ, Transportat Inst, Blacksburg, VA 24061 USA

[11] Univ Illinois, Dept Microbiol, 131 Burrill Hall, Urbana, IL 61801 USA

[12] Univ Illinois, Carl R Woese Inst Genom Biol, Urbana, IL 61801 USA

[13] Univ Chicago, Dept Comp Sci, Chicago, IL 60637 USA

来源：

NUCLEIC ACIDS RESEARCH | 2020年 / 48卷 / D1期

关键词：

SEQUENCE; ALGORITHM; ALIGNMENT;

D O I：

10.1093/nar/gkz943

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：D606 / D612

页数：7