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- The_Small_Molecule_Pathway_Database abstract "The Small Molecule Pathway Database (SMPDB) is a comprehensive, high-quality, freely accessible, online database containing more than 600 small molecule (i.e. metabolic) pathways found in humans. SMPDB is designed specifically to support pathway elucidation and pathway discovery in metabolomics, transcriptomics, proteomics and systems biology. It is able to do so, in part, by providing colorful, detailed, fully searchable, hyperlinked diagrams of five types of small molecule pathways: 1) general human metabolic pathways; 2) human metabolic disease pathways; 3) human metabolite signaling pathways; 4) drug-action pathways and 5) drug metabolism pathways. SMPDB pathways may be navigated, viewed and zoomed interactively using a Google Maps-like interface. All SMPDB pathways include information on the relevant organs, subcellular compartments, protein cofactors, protein locations, metabolite locations, chemical structures and protein quaternary structures (Fig. 1). Each small molecule in SMPDB is hyperlinked to detailed descriptions contained in the HMDB or DrugBank and each protein or enzyme complex is hyperlinked to UniProt. Additionally, all SMPDB pathways are accompanied with detailed descriptions and references, providing an overview of the pathway, condition or processes depicted in each diagram. Users can browse the SMPDB (Fig. 2) or search its contents by text searching (Fig. 3), sequence searching, or chemical structure searching. More powerful queries are also possible including searching with lists of gene or protein names, drug names, metabolite names, GenBank IDs, Swiss-Prot IDs, Agilent or Affymetrix microarray IDs. These queries will produce lists of matching pathways and highlight the matching molecules on each of the pathway diagrams. Gene, metabolite and protein concentration data can also be visualized through SMPDB's mapping interface.SMPDB is part of a suite of metabolomics databases that also includes Human Metabolome Database, DrugBank, and the Toxin and Toxin-Target Database (T3DB). While DrugBank includes information on 7000 drugs and >4200 non-redundant drug targets, enzymes, transporters, and carriers, HMDB houses over 40,000 small molecule metabolites found in the human body. The suite is complemented by T3DB with its over 3100 common toxic substances and over 1300 corresponding toxin targets.".
- The_Small_Molecule_Pathway_Database thumbnail SMPDB_SMP00457_Lactose_degradation.png?width=300.
- The_Small_Molecule_Pathway_Database title "SMPDB".
- The_Small_Molecule_Pathway_Database wikiPageExternalLink drugbank.ca.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink hmdb.ca.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink stitch.embl.de.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink t3db.org.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink www.panamp.ca.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink www.smpdb.ca.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink www.smpdb.ca.
- The_Small_Molecule_Pathway_Database wikiPageExternalLink downloads.
- The_Small_Molecule_Pathway_Database wikiPageID "34344325".
- The_Small_Molecule_Pathway_Database wikiPageRevisionID "598025265".
- The_Small_Molecule_Pathway_Database center "University of Alberta and The Metabolomics Innovation Centre".
- The_Small_Molecule_Pathway_Database curation "Manually curated".
- The_Small_Molecule_Pathway_Database description "Pathway database".
- The_Small_Molecule_Pathway_Database download downloads.
- The_Small_Molecule_Pathway_Database frequency "-9.46728E7".
- The_Small_Molecule_Pathway_Database hasPhotoCollection The_Small_Molecule_Pathway_Database.
- The_Small_Molecule_Pathway_Database laboratory "Dr. David Wishart".
- The_Small_Molecule_Pathway_Database pmid "SMPDB: The Small Molecule Pathway Database.".
- The_Small_Molecule_Pathway_Database scope "Small molecule pathways, metabolic pathways, metabolic disease pathways, metabolite signaling pathways, drug action pathways, drug metabolism pathways".
- The_Small_Molecule_Pathway_Database title "SMPDB".
- The_Small_Molecule_Pathway_Database url www.smpdb.ca.
- The_Small_Molecule_Pathway_Database description "Pathway database".
- The_Small_Molecule_Pathway_Database subject Category:Biological_databases.
- The_Small_Molecule_Pathway_Database subject Category:Medical_databases.
- The_Small_Molecule_Pathway_Database subject Category:Metabolomic_databases.
- The_Small_Molecule_Pathway_Database type BiologicalDatabase.
- The_Small_Molecule_Pathway_Database type Database.
- The_Small_Molecule_Pathway_Database type Work.
- The_Small_Molecule_Pathway_Database type CreativeWork.
- The_Small_Molecule_Pathway_Database type InformationEntity.
- The_Small_Molecule_Pathway_Database type InformationObject.
- The_Small_Molecule_Pathway_Database comment "The Small Molecule Pathway Database (SMPDB) is a comprehensive, high-quality, freely accessible, online database containing more than 600 small molecule (i.e. metabolic) pathways found in humans. SMPDB is designed specifically to support pathway elucidation and pathway discovery in metabolomics, transcriptomics, proteomics and systems biology.".
- The_Small_Molecule_Pathway_Database label "The Small Molecule Pathway Database".
- The_Small_Molecule_Pathway_Database sameAs m.0h_c23p.
- The_Small_Molecule_Pathway_Database sameAs Q7764871.
- The_Small_Molecule_Pathway_Database sameAs Q7764871.
- The_Small_Molecule_Pathway_Database wasDerivedFrom The_Small_Molecule_Pathway_Database?oldid=598025265.
- The_Small_Molecule_Pathway_Database depiction SMPDB_SMP00457_Lactose_degradation.png.
- The_Small_Molecule_Pathway_Database homepage www.smpdb.ca.
- The_Small_Molecule_Pathway_Database isPrimaryTopicOf The_Small_Molecule_Pathway_Database.