GeneBe API Showcase

This page demonstrates how to use the GeneBe API to query variant information. The API provides programmatic access to genomic annotations and variant data.

API presented here should be used for checking single variants. If you want to check many variants at once, please use other API endpoints that you will find in the documentation.

Documentation & Advanced Usage

• Complete API documentation:docs.genebe.net/docs/api/overview/

• Interactive endpoint tester:api.genebe.net/cloud/gb-api-doc/swagger-ui/

• Python client for pandas:pypi.org/project/genebe/

• Java CLI for VCF files:github.com/pstawinski/genebe-cli

• All tools documented at:docs.genebe.net

API Request Examples for Variant: 16-31096368-C-T (hg38)

Bash / cURL Example

bash

curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=31096368&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

JSON Response (pretty-printed):

json

{
  "variants": [
    {
      "chr": "16",
      "pos": 31096368,
      "ref": "C",
      "alt": "T",
      "effect": "",
      "transcript": null,
      "consequences": [],
      "gene_symbol": null,
      "gene_hgnc_id": null,
      "dbsnp": "rs9923231",
      "frequency_reference_population": 0.31901744,
      "hom_count_reference_population": 10015,
      "allele_count_reference_population": 48520,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": 0.319017,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": 48520,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": 10015,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.9100000262260437,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": null,
      "splice_prediction_selected": null,
      "splice_source_selected": null,
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.91,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.417,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": null,
      "spliceai_max_prediction": null,
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -12,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BA1",
      "acmg_by_gene": [
        {
          "score": -12,
          "benign_score": 12,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BA1"
          ],
          "verdict": "Benign",
          "transcript": "",
          "gene_symbol": null,
          "hgnc_id": null,
          "effects": null,
          "inheritance_mode": "",
          "hgvs_c": null,
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "See cases,Thrombus,VKORC1-related disorder,Venous thromboembolism,Warfarin response,acenocoumarol response - Dosage,not provided,not specified,phenprocoumon response - Dosage,phenprocoumon response - Toxicity,warfarin response - Dosage,warfarin response - Efficacy,warfarin response - Toxicity",
      "clinvar_classification": "drug response",
      "clinvar_review_status": "reviewed by expert panel",
      "clinvar_submissions_summary": "LB:1 B:1 O:7",
      "phenotype_combined": "Warfarin response|not provided|not specified|Venous thromboembolism|acenocoumarol response - Dosage|warfarin response - Efficacy|See cases|Thrombus|phenprocoumon response - Toxicity|phenprocoumon response - Dosage|warfarin response - Toxicity|warfarin response - Dosage|VKORC1-related disorder",
      "pathogenicity_classification_combined": "drug response",
      "custom_annotations": null
    }
  ],
  "message": null
}