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Resource:PATRIC

Name: Resource:PATRIC
Description: A Bioinformatics Resource Center bacterial bioinformatics database and analysis resource that provides researchers with an online resource that stores and integrates a variety of data types (e.g. genomics, transcriptomics, protein-protein interactions (PPIs), three-dimensional protein structures and sequence typing data) and associated metadata. Datatypes are summarized for individual genomes and across taxonomic levels. All genomes, currently more than 10 000, are consistently annotated using RAST, the Rapid Annotations using Subsystems Technology. Summaries of different data types are also provided for individual genes, where comparisons of different annotations are available, and also include available transcriptomic data. PATRIC provides a variety of ways for researchers to find data of interest and a private workspace where they can store both genomic and gene associations, and their own private data. Both private and public data can be analyzed together using a suite of tools to perform comparative genomic or transcriptomic analysis. PATRIC also includes integrated information related to disease and PPIs.

The PATRIC project includes three primary collaborators: the University of Chicago, the University of Manchester, and New City Media. The University of Chicago is providing genome annotations and a PATRIC end-user genome annotation service using their Rapid Annotation using Subsystem Technology (RAST) system. The National Centre for Text Mining (NaCTeM) at the University of Manchester is providing literature-based text mining capability and service. New City Media is providing assistance in website interface development.

An FTP server and download tool are available.[1]
Other Name(s): PathoSystems Resource Integration Center
Abbreviation: PATRIC
Parent Organization: Virginia Polytechnic Institute and State University; Virginia; USA
Supporting Agency: NIAID
Grant: Contract HHSN272200900040C
Resource Type(s): Database, Data analysis service, Bioinformatics resource center
Resource: Resource
URL: http://www.patricbrc.org/portal/portal/patric/Home
*Id: nlx_17476
PMID: PMID 24225323, 17142235
Related to: Resource:OMICtools
Availability: Free, Public, Acknowledgement requested
Keywords: genomics, genome, transcriptomics, protein-protein interaction, sequence typing, proteobacteria, Brucella, Rickettsia, Coxiella, coronavirus, calicivirus, lyssavirus, virus, Hepatitis A, Hepatitis E, pathway, proteome, metabolic pathway, drug, vaccine, diagnostics
Organism: Bacteria
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Uncurated

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References

  1. Wattam AR et al. (2014) PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Res 42: D581-91 PubMed

Notes

This page uses this default form:Resource

Xref: OMICS_01658

Alt. URL: http://patricbrc.vbi.vt.edu/portal/portal/patric/Home
Old URL: http://patric.vbi.vt.edu/

Contributors

Aarnaud, Ccdbuser, Zaidaziz



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*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.

Facts about Resource:PATRICRDF feed
AbbrevPATRIC  +
AltURLhttp://patricbrc.vbi.vt.edu/portal/portal/patric/Home  +
AvailabilityFree  +, Public  +, and Acknowledgement requested  +
CurationStatuscurated  +
DefiningCitationhttp://www.patricbrc.org/portal/portal/patric/Home  +
DefinitionA Bioinformatics Resource Center bacterial A Bioinformatics Resource Center bacterial bioinformatics database and analysis resource that provides researchers with an online resource that stores and integrates a variety of data types (e.g. genomics, transcriptomics, protein-protein interactions (PPIs), three-dimensional protein structures and sequence typing data) and associated metadata. Datatypes are summarized for individual genomes and across taxonomic levels. All genomes, currently more than 10 000, are consistently annotated using RAST, the Rapid Annotations using Subsystems Technology. Summaries of different data types are also provided for individual genes, where comparisons of different annotations are available, and also include available transcriptomic data. PATRIC provides a variety of ways for researchers to find data of interest and a private workspace where they can store both genomic and gene associations, and their own private data. Both private and public data can be analyzed together using a suite of tools to perform comparative genomic or transcriptomic analysis. PATRIC also includes integrated information related to disease and PPIs.

The PATRIC project includes three primary collaborators: the University of Chicago, the University of Manchester, and New City Media. The University of Chicago is providing genome annotations and a PATRIC end-user genome annotation service using their Rapid Annotation using Subsystem Technology (RAST) system. The National Centre for Text Mining (NaCTeM) at the University of Manchester is providing literature-based text mining capability and service. New City Media is providing assistance in website interface development.

An FTP server and download tool are available.
TP server and download tool are available.
ExampleImagePATRIC.PNG  +
GrantCategory:Contract HHSN272200900040C   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleDatabase  +, Data analysis service  +, and Bioinformatics resource center  +
Idnlx_17476  +
Is part ofVirginia Polytechnic Institute and State University; Virginia; USA  +
KeywordsGenomics  +, Genome  +, Transcriptomics  +, Protein-protein interaction  +, Sequence typing  +, Proteobacteria  +, Brucella  +, Rickettsia  +, Coxiella  +, Coronavirus  +, Calicivirus  +, Lyssavirus  +, Virus  +, Hepatitis A  +, Hepatitis E  +, Pathway  +, Proteome  +, Metabolic pathway  +, Drug  +, Vaccine  +, and Diagnostics  +
LabelResource:PATRIC  +
ModifiedDate29 July 2014  +
OldURLhttp://patric.vbi.vt.edu/  +
PMID24225323, 17142235  +
Page has default formThis property is a special property in this wiki.Resource  +
RelatedToResource:OMICtools  +
SpeciesBacteria  +
SuperCategoryResource  +
Supporting AgencyNational Institute of Allergy and Infectious Diseases  +
SynonymPathoSystems Resource Integration Center  +
XrefResource:PATRIC  +