Search any clinical/genomics dataset

One generic lookup over every registered NLM Clinical Tables dataset — clinical codes (ICD, HCPCS, LOINC, conditions, NPI, UCUM, HPO) AND genomics (ClinVar, COSMIC, dbVar, genes, dbSNP, PharmVar, …). Returns uniform {code, name} rows.

How to use

Pass a `table` id (or a friendly alias like "icd10", "snp", "pharmvar") and a search `query`. For the most common datasets, prefer the dedicated tools (they return richer fields). Unknown table → a helpful error listing valid ids.

Parameters

Name	Type		Description
table	string	required	Dataset id or alias (see the catalog below).
query	string	required	Code fragment or term to search.
limit	number	optional	Max results (default 20).

Example input

{
  "table": "cosmic",
  "query": "BRAF",
  "limit": 3
}

Example output

{
  "table": "COSMIC somatic mutations (Sanger)",
  "total": 828,
  "rows": [
    {
      "code": "COSM6904785",
      "name": "BRAF — c.? — p.A598V"
    },
    {
      "code": "COSM476",
      "name": "BRAF — c.1799T>A — p.V600E"
    }
  ]
}

Call it (MCP tools/call)

{
  "method": "tools/call",
  "params": {
    "name": "search_clinical_codes",
    "arguments": {
      "table": "cosmic",
      "query": "BRAF",
      "limit": 3
    }
  }
}

Endpoint: POST https://clinical-mcp.mcharge.in/mcp (Streamable HTTP).

Available datasets (the `table` parameter)

icd10cm	ICD-10-CM diagnoses
icd11_codes	ICD-11 (WHO)
hpo	Human Phenotype Ontology
icd9cm_dx	ICD-9-CM diagnoses
icd9cm_sg	ICD-9-CM procedures
hcpcs	HCPCS Level II
conditions	Medical conditions
procedures	Surgeries & implants
rxterms	RxTerms drug names
drug_ingredients	Prescribable drug ingredients (RxTerms)
loinc	LOINC questions & forms
npi_idv	NPI individuals
npi_org	NPI organizations
ucum	UCUM units of measure
cosmic	COSMIC somatic mutations (Sanger)
cosmic_struct	COSMIC structural rearrangements (Sanger)
dbvar	dbVar structural variations, germline GRCh37 (NCBI)
genetic_diseases	Genetic diseases (ClinVar disease names → MedGen ConceptID)
genes	Genes (HGNC — symbol, name, location, RefSeq)
ncbi_genes	NCBI genes (Entrez GeneID, type, description)
snps	dbSNP variants (rs → gene, GRCh38 chr/pos/alleles)
cytogenetic_locs	Cytogenetic locations (NCBI ideogram, GRCh37)
refseqs	RefSeq accessions (NCBI, GRCh37)
star_alleles	PharmVar CYP star alleles (pharmacogenomics)

Friendly aliases also work, e.g. icd10, snp, pharmvar, genes.