| URL: | http://www.ncbi.nlm.nih.gov/biosystems/ |
| Full name: | NCBI BioSystems database |
| Description: | The NCBI BioSystems Database provides integrated access to biological systems and their component genes, proteins, and small molecules, as well as literature describing those biosystems and other related data throughout Entrez. |
| Year founded: | 2010 |
| Last update: | 2015-02-01 |
| Version: | v4.0 |
| Accessibility: | |
| Country/Region: | United States |
| Data type: | |
| Data object: | |
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| Major species: |
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| University/Institution: | National Center for Biotechnology Information |
| Address: | Bldg. 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA |
| City: | Bethesda |
| Province/State: | MD |
| Country/Region: | United States |
| Contact name (PI/Team): | BioSystems team |
| Contact email (PI/Helpdesk): | biosystems.help@ncbi.nlm.nih.gov |
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Pathway analysis for drug repositioning based on public database mining. [PMID: 24460210]
Sixteen FDA-approved drugs were investigated to elucidate their mechanisms of action (MOAs) and clinical functions by pathway analysis based on retrieved drug targets interacting with or affected by the investigated drugs. Protein and gene targets and associated pathways were obtained by data-mining of public databases including the MMDB, PubChem BioAssay, GEO DataSets, and the BioSystems databases. Entrez E-Utilities were applied, and in-house Ruby scripts were developed for data retrieval and pathway analysis to identify and evaluate relevant pathways common to the retrieved drug targets. Pathways pertinent to clinical uses or MOAs were obtained for most drugs. Interestingly, some drugs identified pathways responsible for other diseases than their current therapeutic uses, and these pathways were verified retrospectively by in vitro tests, in vivo tests, or clinical trials. The pathway enrichment analysis based on drug target information from public databases could provide a novel approach for elucidating drug MOAs and repositioning, therefore benefiting the discovery of new therapeutic treatments for diseases. |
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The NCBI BioSystems database. [PMID: 19854944]
The NCBI BioSystems database, found at http://www.ncbi.nlm.nih.gov/biosystems/, centralizes and cross-links existing biological systems databases, increasing their utility and target audience by integrating their pathways and systems into NCBI resources. This integration allows users of NCBI's Entrez databases to quickly categorize proteins, genes and small molecules by metabolic pathway, disease state or other BioSystem type, without requiring time-consuming inference of biological relationships from the literature or multiple experimental datasets. |