datasets.md

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page	true	Datasets

Lists from past versions

List of datasets in Open PHACTS version 2.0 (from wiki).

Does not include "SureChEMBL", which was added in version 2.1.

• What datasets are in the system (v2.0)?

Table of the datasets included in Open PHACTS, apparently as of March, 2015. Refers to 12 datasets. Missing BAO, Caloha, Disease Ontology, ncats, ocrs, Sure ChEMBL

• What data is included?

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List of Datasets for version 2.2

aers

FDA Adverse Events data

bao

BioAssay Ontology

caloha

An ontology of human anatomy and human cell types.

chebi

Chemistry ontology

chembl

Chemical compounds and Assays.

Schema diagrams (from version 18, 2013(?)):

• Summary
• Full
• RDF version

conceptwiki

Biomedical terminology. From UMLS(?).

List of semantic types used to tag Open PHACTS entities.

ConceptWiki semantic types

disgenet

Disease-Gene associations

doid

Disease Ontology

drugbank

Drugs

enzyme

UniProt enzyme data

go

Gene Ontology

goa

Gene Ontology Annotations of other data entities

ncats

Phenotypic Assays. The Lilly OIDD data.

nextprot

Proteins

ocrs

Chemistry data from Valery / RSC

surechembl

Chemical data from patents.

uniprot

Proteins & Genes. Plus pathways, diseases, subcellular locations.

void

Not really a dataset. Contains meta-data about the Open PHACTS Datasets

wikipathways

Biological Pathways

Papers

• Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources
• Reactome from a WikiPathways Perspective