This page provides an overview about the characteristics of datasets that could be relevant for the HCLSIG LODD effort.
| Project Home Page
| Topic
| Short Description
| Size
| License
| Data dumps
| Status/ Activity
| Possible Linking to Other Datasets
| Example Instances
|
| chEBI
| Chemical Compounds
| dictionary of molecular entities focused on small chemical compounds
| 15,548 annotated entities
| free
| structured text files
| updated monthly
| CAS, KEGG
|
|
| DailyMed
| Drugs
| information about approved prescription drugs, includes FDA approved labels (package inserts)
| 96,000 triples; 4,039 drugs
|
| XML, SPL
| updated regularly (RSS)
| RX Norm, NDC
| "Sterile Water (Irrigant)" via Marbles, via OpenLink Data Explorer
|
| DBpedia
| Drugs/ Diseases/ Proteins
| RDF data about 2.49 million things that has been extracted from Wikipedia
| 218 million RDF triples; 2,300 drugs, 2,200 proteins
| free
| RDF
| updated every 3 months
| ATC, CAS, DrugBank, EntrezGene, HGNCid, OMIM, PubChem, ChemSpider
| Aspirin, HIV
|
| Diseasome
| Diseases / Genes
| characteristics of disorders and disease genes linked by known disorder–gene associations
| 87,000 triples; 2,600 genes
| free
| structured text files
| updated 2006
| OMIM, Entrez Gene
| Alzheimer's via Marbles, via OpenLink Data Explorer
|
| Drug Bank
| Drugs
| drug (i.e., chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e., sequence, structure, and pathway) information
| 1.1 million triples; 4,800 drugs, 2,500 protein sequences
| permission of authors needed
| structured text files (FASTA, SDF, DrugCard)
| updated August 2008, irregular
| PubChem, FDA/NDA, ChEBI, IUPAC, INCHI, CAS, KEGG
| Varenicline via Marbles, via OpenLink Data Explorer
|
| LinkedCT
| Clinical Trials
| Linked data source of trials from ClinicalTrials.gov
| 7 million triples, 62000 trials
| free - with Terms and Conditions
| Available upon request
| preview release
| DBpedia, GeoNames, Bio2RDF
| Influenza (Intervention), A Trial, AIDS (condition), A reference, A location
|
| OMIM
| Genes
| compendium of human genes and genetic phenotypes
| 12,000 genes
| license from the Johns Hopkins University needed
| structured text files
| updated daily
|
| CHONDROSARCOMA via Marbles, via OpenLink Data Explorer; TUMOR PROTEIN p53 via Marbles, via OpenLink Data Explorer
|
| Project Home Page
| Topic
| Short Description
| Size
| License
| Data dumps
| Status/Activity
| Possible Linking to Other Datasets
| Example Instances
|
| Adis R&D Insight
| Drugs
| comprehensively reports on the latest developments of drugs in active research and development internationally
| 19,000 drugs
| written permission of Adis Data Information BV needed
|
| updated weekly
| CAS
|
|
| ChemBlast
| Atoms
| information on all the ligands (HIV-related) and their scaffolds
|
|
| Molecule pictures, (MDL, Excel)?
| updated April 2008
| IUPAC, PubChem
|
|
| ChemSpider
| Chemical Compounds
| database of organic molecules containing more than 20 million compounds from many different providers
| >20,000,000 chemical compounds
|
| HTML, no downloads
| updated regularly
| ChEBI, DailyMed, KEGG, PubChem, Wikipedia, DrugBank, InChI, MESH
|
|
| ClinicalTrials.gov
| Trials
| federally and privately supported clinical trials conducted worldwide; information about a trial's purpose, who may participate, locations, and phone numbers for more details
| 62,693 trials
| accompanied by origin and date of data, and modifications made
| HTML
|
| ChemIDplus
|
|
| Citeline TrialTrove
| Trials
| information about ongoing clinical trials
|
| proprietary
|
|
|
|
|
| DrugDB
| Drugs
| (offline)
|
|
|
|
|
|
|
| Drug Ontology
| Drugs
| ontology including concepts such as indications, interactions, formulary, etc.
|
|
| OWL schema only
| updated 2005
|
|
|
| DrugDigest
| Drugs
| usage advise for drugs, vitamins, and herbs
| 1,500 drugs
| permission needed
| HTML
| updated daily
|
|
|
| DrugInfo
| Drugs
| covers drugs in clinical trials, approval processes and on the market; information collected from other NLM services mostly
| 15,000 drugs
| permission needed
| HTML
| updated daily
| CAS, CT.gov, DailyMed, Medline, PubChem
|
|
| Investigational Drug Database
| Drugs
| investigational drug development, from first patent to eventual launch or discontinuation
| 107,000 therapeutic patents; 23,000 drugs; 80.000 chemical structures
| proprietary
|
|
|
|
|
| IMS
| Drugs
| information about development, efficacy, and status of pharmaceuticals from early clinical testing through to launch
| 16,800 drug summaries
| proprietary
|
| updated weekly
|
|
|
| KEGG Drug
| Drugs
| chemical structure based information resource for all approved drugs in Japan and the U.S.A; each is identified by the D number, and is associated with generic names, trade names, efficacy, target information, etc.
|
| academic usage
| structured text files
| updated July 2008
| DailyMed, PubChem
|
|
| LillyTrials
| Trials
| clinical trials sponsored by Eli Lilly and Company
|
|
| HTML, PDF
| updated regulary
| NDA
|
|
| MedMaster
| Drugs
| information on drugs and their interactions, herbs and supplements
| >1000 drugs
| permission needed
| HTML
| updated daily
| NDA
|
|
| National Drug Code
| Drugs
| prescription drugs and insulin products that have been manufactured, prepared, propagated, compounded, or processed by registered establishments for commercial distribution
|
| free
| structured text files
| updated regularly
| NDA
|
|
| Orange Book
| Drugs
| Generic product ANDA (Abbreviated New Drug Approval) approvals
|
| free
| structured text files
| updated daily
| NDA, FDA
|
|
| Pharmaprojects
| Drugs
| drugs and their bindings to proteins
|
| proprietary
|
|
| Entrez Gene
|
|
| PubChem
| Chemical Compounds
| chemical structures of small organic molecules and information on their biological activities
|
| free
| ASN.1, XML, SDF
| updated daily
| IUPAC, InChI
|
|
| RxNorm
| Drugs
| standard names for clinical drugs
|
| login required
|
|
| National Drug Code
|
|
