Sources
Repository overview
| ID: | LLD 0.9.2 |
|---|---|
| Description: | Linked Life Data is a semantic data integration platform for the biomedical domain. |
| Number of statements: | 5,120,886,447 |
| Number of expl. statements: | 4,650,877,794 |
| Number of entities: | 1,027,475,269 |
| Data source | Named graph | Load date | Statements | Instances type |
|---|---|---|---|---|
| BioGRID ReferenceLicense | http://linkedlifedata.com/resource/biogrid | 10.12.10 | 12,660,756 | biopax-2:entity |
| CellMap ReferenceLicense | http://linkedlifedata.com/resource/cell-map | 24.09.10 | 149,175 | biopax-2:entity |
| ChEBI ReferenceLicense | http://linkedlifedata.com/resource/chebi | 04.10.10 | 323,212 | owl:Thing |
| DailyMed ReferenceLicense | http://linkedlifedata.com/resource/dailymed | 13.10.10 | 162,972 | dailymed:drugs |
| Disease Ontology ReferenceLicense | http://linkedlifedata.com/resource/diseaseontology | 21.10.10 | 144,812 | diseaseontology:DiseaseOntologyConcept |
| Diseasome ReferenceLicense | http://linkedlifedata.com/resource/diseasome | 14.10.10 | 72,445 | diseasome:diseases |
| DrugBank ReferenceLicense | http://linkedlifedata.com/resource/drugbank | 14.10.10 | 517,023 | drugbank:drugs |
| Freebase ReferenceLicense | http://linkedlifedata.com/resource/freebase | 15.04.10 | 395,958,356 | |
| Gene Ontology (GO) ReferenceLicense | http://linkedlifedata.com/resource/geneontology | 01.03.2011 | 320,182 | geneontology:id |
| HapMap ReferenceLicense | http://linkedlifedata.com/resource/hapmap | 15.12.10 | 22,462,178 | |
| HPRD ReferenceLicense | http://linkedlifedata.com/resource/hprd | 24.09.10 | 1,961,200 | biopax-2:entity |
| Human Phenotype Ontology ReferenceLicense | http://linkedlifedata.com/resource/phenotype | 13.10.10 | 84,378 | skos:Concept |
| HumanCYC ReferenceLicense | http://linkedlifedata.com/resource/humancyc | 07.10.10 | 327,218 | biopax-2:entity |
| IMID ReferenceLicense | http://linkedlifedata.com/resource/imid | 24.09.10 | 83,091 | biopax-2:entity |
| IntAct ReferenceLicense | http://linkedlifedata.com/resource/intact | 03.02.11 | 16,669,066 | biopax-2:entity |
| LHGDN ReferenceLicense | http://linkedlifedata.com/resource/lhgdn | 08.03.10 | 316,020 | |
| LinkedCT ReferenceLicense | http://linkedlifedata.com/resource/linkedct | 14.10.10 | 7,031,859 | linkedct:condition |
| MetaCyc ReferenceLicense | http://linkedlifedata.com/resource/metacyc | 07.10.10 | 1,709,326 | biopax-2:entity |
| MINT ReferenceLicense | http://linkedlifedata.com/resource/mint | 21.12.10 | 21,353,848 | biopax-2:entity |
| NCBI Entrez-Gene ReferenceLicense | http://linkedlifedata.com/resource/entrezgene | 09.03.11 | 161,563,100 | entrezgene:Gene |
| NCI Nature ReferenceLicense | http://linkedlifedata.com/resource/nci-nature | 24.09.10 | 610,689 | biopax-2:entity |
| PubMed ReferenceLicense | http://linkedlifedata.com/resource/pubmed | 20.03.11 | 1,371,818,500 | pubmed:Citation |
| Reactome ReferenceLicense | http://linkedlifedata.com/resource/reactome | 15.03.11 | 814,807 | biopax-2:entity |
| SIDER ReferenceLicense | http://linkedlifedata.com/resource/sider | 13.10.10 | 101,542 | sider:drugs |
| Symptom Ontology ReferenceLicense | http://linkedlifedata.com/resource/symptom | 15.10.10 | 4,163 | skos:Concept |
| UMLS ReferenceLicense | http://linkedlifedata.com/resource/umls | 01.11.10 | 121,438,271 | skos:Concept |
| UniProt ReferenceLicense | http://linkedlifedata.com/resource/uniprot | 01.03.11 | 2,354,085,964 | uniprot:Protein |
Instance mappings
| Source dataset | Destination dataset | Linked Data Mapping Rule | Number of connections | Semantic relationship |
|---|---|---|---|---|
| BioPax Citations | PubMed | Reference Node | 1,219,394 | skos:exactMatch |
| BioPax Proteins | UniProt | Reference Node (Unification) | 124,706 | skos:exactMatch |
| BioPax Proteins | UniProt | Reference Node (Reference) | 37,824 | skos:relatedMatch |
| BioPax Proteins | EntrezGene | Reference Node (Unification) | 17 | skos:closeMatch |
| BioPax Proteins | EntrezGene | Reference Node (Reference) | 37,824 | skos:relatedMatch |
| DrugBank targets | UniProt | Namespace Mapping | 4,660 | skos:exactMatch |
| DrugBank targets (via HGNC references) | EntrezGene (via HGNC references) | Namespace Mapping | 1,617 | skos:relatedMatch |
| Freebase concept | UMLS concept | Value Dereference | 3,110 | skos:closeMatch |
| MeSH term code | UMLS concept | UMLS code | 63,148 | lhgdn:umls_code |
| Pubmed | UniProt citations | Namespace Mapping | 922,406 | skos:exactMatch |
| SIDER Side Effects | UMLS concepts | Namespace Mapping | 1,685 | skos:exactMatch |
| UMLS concepts | PubMed Abstract and Tilte | Semantic Annotation | 559,096,581 | lifeskim:mentions |
| UMLS concepts (MeSH) | PubMed MeSH terms | Value Dereference | 25,813 | skos:exactMatch |
| UMLS concepts (NCBI Taxonomy) | UniProt organisms | Value Dereference | 487,085 | skos:exactMatch |
| UMLS concepts (NCBI Taxonomy) | EntrezGene organisms | Mismatched Identifiers | 5,891 | skos:exactMatch |
| UniProt GO terms | Gene Ontology term | Mismatched Identifiers | 17,778 | skos:exactMatch |
Predicate mappings
| Source dataset | Destination dataset | Linked Data Mapping Rule | Number of connections | Semantic relationship |
|---|---|---|---|---|
| Disease from UMLS | Symptom from UMLS | Causal Relation Extraction | 35,505 | relationontology:hasSymptom |
| Drug from DrugBank | Disease from DISEASOME | Causal Relation Extraction | 8,201 | relationontology:treat |
| Drug from DrugBank | UniProt Protein | Causal Relation Extraction | 15,309 | relationontology:hasTarget |
| Drug from DrugBank or DailyMed | UMLS concepts | Causal Relation Extraction | 450,082 | relationontology:hasSideEffect |
| EntrezGene | UniProt | Causal Relation Extraction | 6,033,749 | relationontology:encodeProtein |
| LinkedCT criteria | UMLS concepts | Semantic Annotation | 844,390 | relationontology:hasExclusionCriteria |
| LinkedCT criteria | UMLS concepts | Semantic Annotation | 420,797 | relationontology:hasInclusionCriteria |
| UniProt and EntrezGene | UMLS concepts | Causal Relation Extraction | 22,652,496 | relationontology:expressedInOrganism |
| UniProt proteins | UniProt keywords | Causal Relation Extraction | 275,824 | relationontology:expressedInAnatomicalSystem |
| UniProt proteins | GO terms | Causal Relation Extraction | 5,878,896 | relationontology:hasLocalization |
| UniProt proteins | GO terms | Causal Relation Extraction | 7,885,200 | relationontology:participateInBiologicalProcess |
| UniProt proteins | UniProt keywords | Causal Relation Extraction | 16,912 | relationontology:expressedInCellLine |
| UniProt proteins | UniProt keywords | Causal Relation Extraction | 12,728 | relationontology:expressedInCellType |
| UniProt proteins | GO terms | Causal Relation Extraction | 13,981,106 | relationontology:hasMolecularFunction |
| UniProt proteins | UniProt proteins | Causal Relation Extraction | 68,150,720 | relationontology:binding |