About us
The Pathway Interaction Database is a highly-structured, curated collection of information about known biomolecular interactions and key cellular processes assembled into signaling pathways. It is a collaborative project between the US National Cancer Institute (NCI) and Nature Publishing Group (NPG), and is an open access online resource.
- Carl F. Schaefer Project Co-Leader (NCI Center for Bioinformatics)
- Jeffrey Buchoff Software Developer (NCI Center for Bioinformatics)
- Timo Hannay Project Co-Leader (NPG)
- Matthew Day Publisher (NPG)
- Kira Anthony Editor (NPG)
- Mhairi Skinner Consulting Editor
About the National Cancer Institute
The National Cancer Institute is a component of the U.S. National Institutes of Health and is the Federal Government's principal agency for cancer research and training. Specifically, the NCI:
- Supports and coordinates research projects conducted by universities, hospitals, research foundations, and businesses throughout the U.S.A and abroad through research grants and cooperative agreements.
- Conducts research in its own laboratories and clinics.
- Supports education and training in fundamental sciences and clinical disciplines for participation in basic and clinical research programs and treatment programs relating to cancer through career awards, training grants, and fellowships.
- Supports research projects in cancer control.
- Supports a national network of cancer centers.
- Collaborates with voluntary organizations and other national and foreign institutions engaged in cancer research and training activities.
- Encourages and coordinates cancer research by industrial concerns where such concerns evidence a particular capability for programmatic research.
- Collects and disseminates information on cancer.
- Supports construction of laboratories, clinics, and related facilities necessary for cancer research through the award of construction grants.
For more information, please visit www.cancer.gov.
About the Nature Publishing Group
Nature Publishing Group is the publisher of Nature, the international weekly journal of science, as well as over 60 other prestigious scientific journals.
In recent years, NPG's presence in the scientific community has been further enhanced by the launch of many new online resources that provide the scientific and medical communities with easy access to research results, news, events, and jobs information, together with features that facilitate communications and social interactions between scientists.
For more information, please visit npg.nature.com.
Citing the Pathway Interaction Database
To cite the NCI-Nature Pathway Interaction Database please use the following format:
Carl F. Schaefer, Kira Anthony, Shiva Krupa, Jeffrey Buchoff, Matthew Day, Timo Hannay & Kenneth H. Buetow. PID: The Pathway Interaction Database. Nucleic Acids Res. 37, D674-9 (2009)
Citing and linking to pathways:
All predefined pathways have stable URLs that can be used for citation and linking purposes.
Pathway citation should include the title of the pathway, the name of the publication ("NCI-Nature Pathway Interaction Database"), and the stable URL for the pathway. The following is an illustrative example:
Class I PI3K signaling events. NCI-Nature Pathway Interaction Database.
http://pid.nci.nih.gov/search/pathway_landing.shtml?what=graphic&jpg=on&pathway_id=pi3kcipathway
Thus, the URL for linking to PID pathways is:
http://pid.nci.nih.gov/search/pathway_landing.shtml?what=graphic&jpg=on&pathway_id=xxxxxx where xxxxxx is the Pathway ID found on each of the predefined pathway pages.
Linking to proteins:
In order to link to proteins found in the Pathway Interaction Database please use the following URL:
http://pid.nci.nih.gov/search/intermediate_landing.shtml?molecule=xxxxx&Submit=Go
and populate xxxxx with the UniProt accession number. UniProt accession numbers found in the Pathway Interaction Database are available by downloading the file "NCI-Nature Curated Pathway-UniProt mapping (tab delimited file)" on the Download data page. UniProt accession numbers in the PID can also be found by entering the protein name or identifier in the search box on the homepage and clicking on the hyperlinked protein name in the Search results summary page. A list of permissible protein search terms can be found here.
Citing Bioinformatics primers:
Bioinformatics primer citation should include the names of all authors, the title of the article, the name of the publication ("NCI-Nature Pathway Interaction Database"), the digital object identifier (DOI) and the year of publication in parentheses. The following is an illustrative example:
Matthews L, D'Eustachio P, Gillespie G, Croft D, de Bono B, Gopinath G, Jassal B, Lewis S, Schmidt E, Vastrik I, Wu G, Birney E & Stein L. An Introduction to the Reactome Knowledgebase of Human Biological Pathways and Processes. NCI-Nature Pathway Interaction Database. doi:10.1038/pid.2007.3 (2007).
