sources.ini

[default]
checkmd5 = yes

[uniprot]
swissprot_entries = ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.dat.gz
interpro_list = https://ftp.ebi.ac.uk/pub/databases/interpro/current_release/entry.list
pkinfam = https://www.uniprot.org/docs/pkinfam.txt

[mint]
human_ppi = http://www.ebi.ac.uk/tools/webservices/psicquic/mint/webservices/current/search/query/species:human

[go]
go_ec_mapping = http://geneontology.org/external2go/ec2go
go_ontology = http://snapshot.geneontology.org/ontology/go-basic.obo

[biogrid]
biogrid_organism_ppi = https://downloads.thebiogrid.org/download/biogrid/release-archive/biogrid-3.4.162/biogrid-organism-3.4.162.tab2.zip

[reactome]
reactome_ppi = https://reactome.org/download/current/interactors/reactome.homo_sapiens.interactions.tab-delimited.txt
reactome_pathway_rels = https://reactome.org/download/current/ReactomePathwaysRelation.txt
reactome_protein_complex_rels = https://reactome.org/download/current/ComplexParticipantsPubMedIdentifiers_human.txt
reactome_complex_pathway_rels = https://reactome.org/download/current/Complex_2_Pathway_human.txt
reactome_go_mapping = https://reactome.org/download/current/gene_association.reactome.gz
reactome_omim_mapping = https://reactome.org/download/current/Reactome2OMIM.txt
reactome_pathway_list = https://reactome.org/download/current/ReactomePathways.txt

[interpro]
interpro_entry_list = ftp://ftp.ebi.ac.uk/pub/databases/interpro/69.0/entry.list
interpro_go_mapping = ftp://ftp.ebi.ac.uk/pub/databases/interpro/interpro2go
interpro_hierarchy = ftp://ftp.ebi.ac.uk/pub/databases/interpro/parentchildtreefile.txt

[cellosaurus]
cellosaurus_txt = ftp://ftp.expasy.org/databases/cellosaurus/cellosaurus.txt

[hpa]
xml_database = https://www.proteinatlas.org/download/proteinatlas.xml.gz
normal_tissues = https://www.proteinatlas.org/download/normal_tissue.tsv.zip
pathology = https://www.proteinatlas.org/download/pathology.tsv.zip
rna_cellines = https://www.proteinatlas.org/download/rna_celline.tsv.zip
subcellular_locations = https://www.proteinatlas.org/download/subcellular_location.tsv.zip

[ctd]
chemical_id_mapping = http://ctdbase.org/reports/CTD_chemicals.tsv.gz
gene_id_mapping = http://ctdbase.org/reports/CTD_genes.tsv.gz
chemical_gene_interactions = http://ctdbase.org/reports/CTD_chem_gene_ixns.tsv.gz
chemical_disase_association = http://ctdbase.org/reports/CTD_chemicals_diseases.tsv.gz
chemical_pathway_association = http://ctdbase.org/reports/CTD_chem_pathways_enriched.tsv.gz
gene_disease_association = http://ctdbase.org/reports/CTD_genes_diseases.tsv.gz
gene_pathway_association = http://ctdbase.org/reports/CTD_genes_pathways.tsv.gz
disease_pathway_assiciation = http://ctdbase.org/reports/CTD_diseases_pathways.tsv.gz
disease_molecular_function = http://ctdbase.org/reports/CTD_Phenotype-Disease_molecular_function_associations.tsv.gz
disease_cellular_component = http://ctdbase.org/reports/CTD_Phenotype-Disease_cellular_component_associations.tsv.gz
disease_biological_process = http://ctdbase.org/reports/CTD_Phenotype-Disease_biological_process_associations.tsv.gz
chemical_phenotype = http://ctdbase.org/reports/CTD_pheno_term_ixns.tsv.gz

[phosphositeplus]
phosphorylation_site = https://www.phosphosite.org/downloads/Phosphorylation_site_dataset.gz
kinase_substrate = https://www.phosphosite.org/downloads/Kinase_Substrate_Dataset.gz

[intact]
intact_zip = ftp://ftp.ebi.ac.uk/pub/databases/intact/current/psimitab/intact.zip

[sider]
indications = http://sideeffects.embl.de/media/download/meddra_all_indications.tsv.gz
side_effects = http://sideeffects.embl.de/media/download/meddra_all_se.tsv.gz

[drugbank]
drugbank_all_full_database = https://www.drugbank.ca/releases/latest/downloads/all-full-database

[kegg]
diseases = ftp://ftp.genome.jp/pub/kegg/medicus/disease/disease

[mesh]
mesh_diseases = ftp://nlmpubs.nlm.nih.gov/online/mesh/MESH_FILES/asciimesh/d2024.bin
mesh_supp_concepts = ftp://nlmpubs.nlm.nih.gov/online/mesh/MESH_FILES/xmlmesh/supp2024.xml

[medgen]
medgen_omim_mappings = https://ftp.ncbi.nlm.nih.gov/pub/medgen/MedGen_HPO_OMIM_Mapping.txt.gz

[hijazi20]
hijazi20_pdt = https://static-content.springer.com/esm/art%3A10.1038%2Fs41587-019-0391-9/MediaObjects/41587_2019_391_MOESM5_ESM.xlsm

[smpdb]
smpdb_pathways = https://smpdb.ca/downloads/smpdb_pathways.csv.zip