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TOTAL EntitiesRelationshipsNotesNotes
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Human GenesDiseasesDrugsGene - DiseaseGene - DrugDisease - DrugLink to data files
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Current Wikipedia1064656235400250743790827839relationships are untyped, based on wikilinks
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OMIM142897445---3815------gene ftp://grcf.jhmi.edu/OMIM/
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OrphaNet28995954***5153---***
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DrugBank------6805---9894---restricting to human genes; compound properties include MW, MP, logP, synonyms, pathways, pharmacology summary, pKa, drug target, CAS http://www.drugbank.ca/downloads
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PubChem------11690---------(1)Only counting compounds with annotated pharmacological action -- count through the web siteftp://ftp.ncbi.nlm.nih.gov/pubchem/Compound/CURRENT-Full/XML/
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Neurocarta61981853---26379------no download link but statistics can be found at http://www.chibi.ubc.ca/Gemma/neurocartaStatistics.html
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NDF-RT---469821071------55879Relation types include "induces", "may_diagnose", "may_prevent", "may_treat"; also 15626 MoA annotations to 333 MoA classeshttp://evs.nci.nih.gov/ftp1/NDF-RT/ and http://download.nlm.nih.gov/umls/kss/rxnorm/RxNorm_full_06032013.zip
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DO8683
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CTD35319120561494742183480010(2)includes pubmed IDs! appears to be very promiscuous though; will need filtering; 'DirectEvidence' onlyhttp://ctdbase.org/downloads/ stats:http://ctdbase.org/about/dataStatus.go
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STITCH------262083---251320---(2)data from Michael Kuhn via Twitter; high-confidence links only; "chemicals" and not drugshttp://stitch.embl.de/cgi/show_download_page.pl
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HuGEnavigator
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KEGG
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DGI-DB------------16391---has interaction_type; top: inhibitor, agonist, antagonist, potentiatorhttp://dgidb.genome.wustl.edu/downloads
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PharmGKB2693434213091(3)relationships require licensehttp://www.pharmgkb.org/downloads.jsp
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MeSH?
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UMLS?
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dbSNP
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Reactome
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COPaKBcontains functional image and MS spectral data
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Drug2Genehttp://www.biomedcentral.com/1471-2105/15/68/abstracthttp://drug2gene.com/downloads.aspx
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(1) only counting compounds with annotated pharmacological action
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(2) will require signfiicant filtering to identify highest-confidence interactions
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(3) The license on PharmGKB relationships is incompatible with Wikipedia’s CC-BY-SA license.
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