Eukaryotic Pathogen Database

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Former EuPathDB logo EuPathDB Logo.jpg
Former EuPathDB logo

The Eukaryotic Pathogen, Vector & Host Informatics Resources, or VEuPathDB, is a database of genomic and other large-scale datasets related to various eukaryotic pathogens, as well as their vectors and hosts. VEuPathDB stores data related to its organisms of interest and provides tools for searching through and analyzing the data. It currently consists of 14 component data platforms, each dedicated to a certain research topic, in addition to the main VEuPathDB portal website. VEuPathDB includes: [1]

Contents

History

VEuPathDB was established under the NIH Bioinformatics Resource Centers program as ApiDB, a resource meant to cover Apicomplexan parasites. [2] ApiDB originally consisted of component sites CryptoDB (for Cryptosporidium ), PlasmoDB (for Plasmodium ), and ToxoDB (for Toxoplasma gondii ). [3] As ApiDB grew to focus on eukaryotic pathogens beyond Apicomplexans, the name was changed to EuPathDB to support its broadened scope. [4] EuPathDB was the result of collaboration between many different parasitologists, including David Roos, Jessica Kissinger and Dyann Wirth. [5] [6]

VEuPathDB provides public access to computational platforms and analysis tools enabling the collection, management, integration, and mining of genomic information and other large-scale datasets relevant to infectious disease pathogens, including their interaction with mammalian hosts and invertebrate vectors of disease.

Functions

It is an integrated database covering the eukaryotic pathogens in several genera as well as hosts and vectors of these organisms. It enables the accessing of detailed genome information associated with these pathogens. VEuPathDB was formerly known as ApiDB and was the integrated resources for the apicomplexans covering the databases of associated pathogens, ToxoDB, PiroplasmDB and CryptoDB. [3]

VEuPathDB is noted for its sophisticated search strategy system and comprehensive gene pages, providing invaluable help to researchers. [4]

Component databases

Currently, VEuPathDB consists of 14 component data platforms, each with a particular focus, and a main portal site: [7]

References

  1. ↑ "VEuPathDB". veupathdb.org. Retrieved 2026-02-17.
  2. ↑ Greene JM, Collins F, Lefkowitz EJ, Roos D, Scheuermann RH, Sobral B, Stevens R, White O, Francsco VD (2007). "National Institute of Allergy and Infectious Diseases Bioinformatics Resource Centers: New Assets for Pathogen Informatics". Infection and Immunity. 75 (7): 3212–3219. doi:10.1128/IAI.00105-07. PMC   1932942 . PMID   17420237.
  3. 1 2 Aurrecoechea C, Heiges M, Wang H, Wang Z, Fischer S, Rhodes P, Miller J, Kraemer E, Stoeckert CJ Jr, Roos DS, Kissinger JC (2007). "ApiDB: integrated resources for the apicomplexan bioinformatics resource center". Nucleic Acids Res. 35 (Database issue): D427-30. doi:10.1093/nar/gkl880. PMC   1669770 . PMID   17098930.
  4. 1 2 Aurrecoechea C, Brestelli J, Brunk BP, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Innamorato F, Iodice J, Kissinger JC, Kraemer ET, Li W, Miller JA, Nayak V, Pennington C, Pinney DF, Roos DS, Ross C, Srinivasamoorthy G, Stoeckert CJ Jr, Thibodeau R, Treatman C, Wang H (2010). "EuPathDB: a portal to eukaryotic pathogen databases". Nucleic Acids Res. 38 (Database issue): D415-9. doi:10.1093/nar/gkp941. PMC   2808945 . PMID   19914931.
  5. ↑ "Parasitologist, Reprogrammed: A Profile of David Roos". The Scientist Magazine®. Retrieved 2019-08-02.
  6. ↑ "EuPathDB : About All". eupathdb.org. Archived from the original on 2019-08-19. Retrieved 2019-08-02.
  7. ↑ "The Eukaryotic Pathogen genome resource". EuPathDB. Retrieved 2013-11-11.
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