ReproToxTables

Resource Name	Description	STRIDES Access URL	Key Entities	Contributor
The Human Phenotype Ontology	The Human Phenotype Ontology (HPO) provides a standardized vocabulary of phenotypic abnormalities encountered in human disease, mapping HPO to gene assocations	http://purl.obolibrary.org/obo/hp/hpoa/phenotype_to_genes.txt	HPO, genes	SPARC/KF/IDG
Comparative Toxicogenomics Database	manually curated information about chemical–gene/protein interactions, chemical–disease and gene–disease relationships.	https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/CTD.zip	diseases, genes, chemicals	Eryk Kropiwnicki, LINCS
L1000FWD	significant gene-drug associations from drug-induced L1000 gene expression signatures.	https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/LINCS.zip	genes, chemicals	Eryk Kropiwnicki, LINCS
Orphanet	a database dedicated to providing information on rare diseases and orphan drugs.	https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/Orpha.zip	diseases, chemicals	Eryk Kropiwnicki, LINCS
LINCS	Tanimoto similarity matrices and signature similarity matrix computed for all LINCS small molecules.	https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/LINCS_chemicals_ECFP4_similarity_matrix.h5 https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/LINCS_chemicals_ECFP6_similarity_matrix.h5 https://kmc-idg.s3.us-east-2.amazonaws.com/reprotox/LINCS_chemicals_signature_similarity.h5	genes, chemicals	Eryk Kropiwnicki, LINCS
Large Vessel Birth Defect Genes	gene lists that have been annotated to HPO terms relevant to large vessel birth defects.	https://github.com/nih-cfde/ReproToxTables/blob/main/Great_Vessel_Associated_Diseases_v1.xlsx	genes	KidsFirst
Great Vessel Disease-Gene Associations	triple datasets that describe relationships between great vessel diseases and genes	https://github.com/nih-cfde/ReproToxTables/blob/main/Great_vessel_disease_gene_associations/	diseases, genes	KidsFirst
LINCS Chemical-Disease Associations	triple datasets that describe relationships between LINCS chemicals (teratogens) and disease area associations	https://github.com/nih-cfde/ReproToxTables/blob/main/LINCS_chemical_disease_area_associations/	chemicals, diseases	IDG/Leadscope
LINCS Chemical-Gene Associations	triple datasets that describe relationships between LINCS chemicals (teratogens) and up/downregulated genes	https://github.com/nih-cfde/ReproToxTables/blob/main/LINCS_chemical_gene_associations/	chemicals, genes	LINCS
DrugCentral	DrugCentral provides information on active ingredients chemical entities, pharmaceutical products, drug mode of action, indications, pharmacologic action	https://drugcentral.org/download	genes, chemicals	IDG