PID: The pathway interaction database

Carl F. Schaefer, Kira Anthony, Shiva Krupa, Jeffrey Buchoff, Matthew Day, Timo Hannay, Kenneth Buetow

Research output: Contribution to journalArticle

779 Citations (Scopus)

Abstract

The Pathway Interaction Database (PID, http://pid.nci.nih.gov) is a freely available collection of curated and peer-reviewed pathways composed of human molecular signaling and regulatory events and key cellular processes. Created in a collaboration between the US National Cancer Institute and Nature Publishing Group, the database serves as a research tool for the cancer research community and others interested in cellular pathways, such as neuroscientists, developmental biologists and immunologists. PID offers a range of search features to facilitate pathway exploration. Users can browse the predefined set of pathways or create interaction network maps centered on a single molecule or cellular process of interest. In addition, the batch query tool allows users to upload long list(s) of molecules, such as those derived from microarray experiments, and either overlay these molecules onto predefined pathways or visualize the complete molecular connectivity map. Users can also download molecule lists, citation lists and complete database content in extensible markup language (XML) and Biological Pathways Exchange (BioPAX) Level 2 format. The database is updated with new pathway content every month and supplemented by specially commissioned articles on the practical uses of other relevant online tools.

Original languageEnglish (US)
JournalNucleic Acids Research
Volume37
Issue numberSUPPL. 1
DOIs
StatePublished - 2009
Externally publishedYes

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Databases
National Cancer Institute (U.S.)
Research
Language
Neoplasms

ASJC Scopus subject areas

  • Genetics

Cite this

Schaefer, C. F., Anthony, K., Krupa, S., Buchoff, J., Day, M., Hannay, T., & Buetow, K. (2009). PID: The pathway interaction database. Nucleic Acids Research, 37(SUPPL. 1). https://doi.org/10.1093/nar/gkn653

PID : The pathway interaction database. / Schaefer, Carl F.; Anthony, Kira; Krupa, Shiva; Buchoff, Jeffrey; Day, Matthew; Hannay, Timo; Buetow, Kenneth.

In: Nucleic Acids Research, Vol. 37, No. SUPPL. 1, 2009.

Research output: Contribution to journalArticle

Schaefer, CF, Anthony, K, Krupa, S, Buchoff, J, Day, M, Hannay, T & Buetow, K 2009, 'PID: The pathway interaction database', Nucleic Acids Research, vol. 37, no. SUPPL. 1. https://doi.org/10.1093/nar/gkn653
Schaefer CF, Anthony K, Krupa S, Buchoff J, Day M, Hannay T et al. PID: The pathway interaction database. Nucleic Acids Research. 2009;37(SUPPL. 1). https://doi.org/10.1093/nar/gkn653
Schaefer, Carl F. ; Anthony, Kira ; Krupa, Shiva ; Buchoff, Jeffrey ; Day, Matthew ; Hannay, Timo ; Buetow, Kenneth. / PID : The pathway interaction database. In: Nucleic Acids Research. 2009 ; Vol. 37, No. SUPPL. 1.
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