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SympGAN: a integrated symptom-gene associations database
Description: SympGAN collected a mass of symptom terminologies
   and the associations among symptom, genes, disease and clinial drugs.
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symptoms.tsv
Description: the basic information of all symptom terminologies in SympGAN
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Alias                -> Symptom alias
Definition           -> Symptom definition
External_Ids         -> External ids that link to other databases
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diseases.tsv
Description: the basic information of all disease terminologies in SympGAN
The columns in the files are:
Disease_CUI          -> Disease identifier in UMLS
Disease_name         -> Disease name
Alias                -> Disease alias
Definition           -> Disease definition
External_Ids         -> External ids that link to other databases
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drugs.tsv
Description: the basic information of all drug terminologies in SympGAN
The columns in the files are:
Drug_id              -> Drug identifier in Drugbank
Drug_name            -> Drug name
Description          -> Drug background
State                -> Drug state
Cas_number           -> CAS registry number
Synonyms             -> Drug synonyms
Sequences            -> Molecular sequence
Indication           -> Drug indication
Pharmacodynamics     -> Drug pharmacodynamics
Mechanism_of_action  -> Drug action mechanism
Metabolism           -> Drug metabolism
Toxicity             -> Drug toxicity
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genes.tsv
Description: the basic information of all gene terminologies in SympGAN
The columns in the files are:
Gene_id              -> Gene identifier in SympGAN
Gene_symbol          -> Official gene symbol
Chromosome           -> The chromosome number in which each target located
Gene_name            -> Official gene name
Protein_name         -> Protein name
Ensembl_id           -> The identifier in the Ensembl database
Ncbi_id              -> The identifier in the NCBI database
Hgnc_id              -> The identifier in the HGNC database
Vega_id              -> The identifier in the VEGA database
Genbank_gene_id      -> The gene identifier in the GenBank database
Genbank_protein_id   -> The protein identifier in the Ensembl database
Uniprot_id           -> The identifier in the Uniprot database
Pdb_id               -> The identifier in the PDB database
Mim_id               -> The identifier in the OMIM database
Mirbase_id           -> The identifier in the miRBase database
Imgt_gene_db_id      -> The identifier in the IMGT/GENE-DB database
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curated_symptom_gene_associations.tsv
Description: Symptom-gene associations that are extracted
             from phenotype-genotype associations.
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Gene_Symbol          -> Official Gene Symbol
Source               -> Data source
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literature_symptom_gene_associations.tsv
Description: Symptom-gene associations derived from the literature
             databases (i.e., PubMed and SemMed).
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Gene_Symbol          -> Official Gene Symbol
No. of PMID          -> Co-occurrence amount of symptom-gene associations in PubMed
P-value              -> P-value of symptom-gene associations using Fisher exact test
Source               -> Data source
PubMed_IDs           -> Co-occurrence PubMed Ids of symptom-gene associations 
                        (maximum of PubMed Ids is 1000 for each association)
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inferred_symptom_gene_associations.tsv
Description: Symptom-gene associations predicted by prediction algorithm (i.e., LSGER).
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Gene_Symbol          -> Official Gene Symbol
P_value              -> P-value of symptom-gene associations using Fisher exact test
Score                -> Confidence score of inferred associations
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all_symptom_gene_associations.tsv
Description: all the symptom-gene associations that integrated curated, literature-derived 
             and inferred associations.
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Gene_Symbol          -> Official Gene Symbol
Source               -> Data source
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symptom_disease_associations.tsv
Description: integrative symptom-disease associations from multiplex databases 
             (DO, HPO, MalaCards, HSDN, Orphanet, UMLS).
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Disease_CUI          -> Disease identifier in UMLS
Disease_Name         -> Disease name
Source               -> Data source
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symptom_drug_associations.tsv
Description: integrative symptom-drug associations from Sider database.
The columns in the files are:
Symptom_CUI          -> Symptom identifier in UMLS
Symptom_name         -> Symptom name
Drug_ID              -> Drug identifier in DrugBank
Drug_Name            -> Drug name in DrugBank
Type                 -> Symptom type (side effect or indiction) related to clinical drugs.
Source               -> Data source
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drug_target_associations.tsv
Description: integrative drug-target associations from Drugbank database.
The columns in the files are:
drug_id              -> Drug identifier in Drugbank
gene_symbol          -> Official Gene Symbol
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If you have any further questions, please email us at xzzhou@bjtu.edu.cn