Biology:PATRIC
PATRIC[1] (Pathosystems Resource Integration Center) was a bacterial bioinformatics website from the Bioinformatics Resource Center, originally created in 2004.[2] It has since been combined with the Influenza Research Database and the Virus Pathogen Database and Analysis Resource Center to create the Bacterial and Viral Bioinformatics Resource Center (BV-BRC).[3] It is an information system that integrates databases and analysis tools. Its focus is on various data (transcriptomic, proteomic, structural, and biochemical) related to bacterial pathogens. PATRIC facilitates integration of various types of pathogen information to support biomedical research on bacterial infectious diseases.
History
PATRIC was started as a project of Virginia Tech's Cyberinfrastructure Division and is funded by the National Institutes of Allergy and Infectious Diseases (NIAID), a component of the National Institutes of Health (NIH). PATRIC centralizes available bacterial phylogenomic data, proteomic data, and other various experiment pieces of data linked to specific pathogens from numerous sources.[4] The PATRIC platform provides an interface for comprehensive comparative genomics. In 2019, the NIAID issued further funding to Dr. Rick Stevens at the University of Chicago for the Bioinformatics Resource Center, the current umbrella under which PATRIC is contained.[5]
Bacterial coverage
Data on the following bacertial species is included in PATRIC:
- Bacillus
- Bartonella
- Borrelia
- Brucella
- Burkholderia
- Campylobacter
- Chlamydophila
- Clostridium
- Coxiella
- Ehrlichia
- Escherichia
- Francisella
- Helicobacter
- Listeria
- Mycobacterium
- Rickettsia
- Salmonella
- Shigella
- Staphylococcus
- Vibrio
- Yersinia
- Other Bacteria
Sponsor
The CyberInfrastructure Division at VBI develops methods, infrastructure, and resources to help enable scientific discoveries in infectious disease research. The group applies the principles of cyberinfrastructure to integrate data, computational infrastructure, and people. CyberInfrastructure Division has developed public resources for curated, diverse molecular and literature data from various infectious disease systems, and implemented the processes, systems, and databases required to support them. It also conducts research by applying its methods and data to make discoveries of its own.
The Virginia Bioinformatics Institute (VBI) at Virginia Tech has a research platform centered on understanding the "disease triangle" of host-pathogen-environment interactions in plants, humans, and other animals.
See also
References
- ↑ "PATRIC: the comprehensive bacterial bioinformatics resource with a focus on human pathogenic species". Infection and Immunity 79 (11): 4286–4298. November 2011. doi:10.1128/IAI.00207-11. PMID 21896772.
- ↑ "The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities". Nucleic Acids Research 48 (D1): D606–D612. January 2020. doi:10.1093/nar/gkz943. PMID 31667520.
- ↑ "Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR". Nucleic Acids Research 51 (D1): D678–D689. January 2023. doi:10.1093/nar/gkac1003. PMID 36350631.
- ↑ "Informatics-Driven Infectious Disease Research" (in en). Biomedical Engineering Systems and Technologies. Springer Berlin. 3 January 2013. pp. 3–11. ISBN 9783642297526. https://books.google.com/books?id=TP66BQAAQBAJ. Retrieved 5 March 2022.
- ↑ "Bioinformatics Resource Centers for Infectious Diseases". RePORTER. U.S. National Institutes of Health. https://reporter.nih.gov/project-details/10217942.
External links
- Bioinformatics Resource Centers The NIAID page describing the goals and activities of the BRCs
- Pathogen Portal Hub site for the five BRCs; provides cross-BRC summary information
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