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:

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

  1. ↑ Gillespie JJ, Wattam AR, Cammer SA, Gabbard JL, Shukla MP, Dalay O, et al. (November 2011). "PATRIC: the comprehensive bacterial bioinformatics resource with a focus on human pathogenic species". Infection and Immunity. 79 (11): 4286–4298. doi:10.1128/IAI.00207-11. PMC 3257917. PMID 21896772.
  2. ↑ Davis JJ, Wattam AR, Aziz RK, Brettin T, Butler R, Butler RM, et al. (January 2020). "The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities". Nucleic Acids Research. 48 (D1): D606–D612. doi:10.1093/nar/gkz943. PMC 7145515. PMID 31667520.
  3. ↑ Olson RD, Assaf R, Brettin T, Conrad N, Cucinell C, Davis JJ, et al. (January 2023). "Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR". Nucleic Acids Research. 51 (D1): D678–D689. doi:10.1093/nar/gkac1003. PMC 9825582. PMID 36350631.
  4. ↑ Sobral B, Mao C, Shukla M, Sullivan D, Zhang C (3 January 2013). "Informatics-Driven Infectious Disease Research". In Fred A, Gamboa H, Filipe J (eds.). Biomedical Engineering Systems and Technologies. Springer Berlin. pp. 3–11. ISBN 9783642297526. Retrieved 5 March 2022.
  5. ↑ "Bioinformatics Resource Centers for Infectious Diseases". RePORTER. U.S. National Institutes of Health. Project Number 75N93019C00076-P00001-9999-1. Retrieved 2023-12-01.
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