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While the primary aim of PATRIC is to advance the knowledge underlying the biology of human pathogens, all publicly available genome-scale data for bacteria are compiled and continually updated, thereby enabling comparative analyses to reveal the basis for differences between infectious free-living and commensal species.
Jan 1, 2014 · Every genome available at PATRIC is annotated using Rapid Annotations using Subsystems Technology (RAST) , an end-user genome annotation service that was developed under the NMPDR project and currently annotates more than 4000 genomes per month. With more than 12 000 users, RAST is the most widely used and highly cited automated microbial ...
- Alice R. Wattam, David Abraham, Oral Dalay, Terry Disz, Timothy Driscoll, Joseph L. Gabbard, Joseph ...
- 10.1093/nar/gkt1099
- 2014
- 2014/01/01
Along with the viral genomes, corresponding genes/proteins, protein domains and motifs, and protein structure data have been integrated with the bacterial data. The viral data brings with it two unique data types, not formerly available in PATRIC: surveillance and serology. Information regarding these data types is available from the following ...
Jan 1, 2020 · The Bioinformatics Resource Center (BRC) program was established by the National Institute of Allergy and Infectious Diseases (NIAID) in 2004 with a primary focus on providing access to genome sequence data and analysis tools for studying pathogens. PathoSystems Resource Integration Center (PATRIC) began as one of the original centers tasked ...
- James J. Davis, James J. Davis, Alice R. Wattam, Alice R. Wattam, Ramy K. Aziz, Thomas S. Brettin, T...
- 10.1093/nar/gkz943
- 2019
- 2020/01/01
- Finding Genes of Interest
- Comparative Genomics: Examining The Pan Proteome Using The Protein Family Sorter
- Comparative Metabolomics: Examining Pathways Across Multiple Genomes
All the bacterial genomes available at PATRIC are re-annotated using RAST . In addition, PATRIC also provides original annotations submitted to RefSeq/GenBank by individual researchers, who may have used a variety of annotation methods. Many of the comparative analysis tools at PATRIC, such as Protein Family Sorter and the Comparative Pathway Tool,...
PATRIC’s compilation of all public bacterial genomes and their consistent annotation using RAST provides a powerful platform for comparative genomic analysis. The Protein Family Sorter tool at PATRIC allows users to select a set of genomes of interest, closely related or diverse, and examine distribution of protein families across the genomes, or a...
PATRIC’s Comparative Pathway Tool allows researchers to identify a set of pathways based on taxonomy, EC number, pathway ID, pathway name and/or specific annotation type (Fig. 6). All pathways at PATRIC come from the Kyoto Encyclopedia of Genes and Genomes, commonly known as KEGG [8, 9], and the Comparative Pathway Tool maps the RAST annotations to...
- Alice R. Wattam, Joseph L. Gabbard, Maulik Shukla, Bruno W. Sobral
- 2014
The Pathosystems Resource Integration Center (PATRIC) is a genomics-centric relational database and bioinformatics resource designed to assist scientists in infectious-disease research. This method paper provides detailed instructions on using this resource to finding data specific to genomes, savin ….
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Welcome to the Bacterial and Viral Bioinformatics Resource Center (BV-BRC), an information system designed to support research on bacterial and viral infectious diseases. The BV-BRC combines the data and tools from the Legacy BRC resources: PATRIC, the bacterial BRC, and IRD and ViPR, the viral BRCs. If you are transitioning from PATRIC or IRD ...
