Cortexa research tool·genomics·Genomics & Transcriptomics

CellMarker Search By Gene

Search the CellMarker 2.0 database for cell types that express a given marker gene. Returns curated cell type annotations from single-cell RNA-seq studies and experimental literature. CellMarker 2.0 covers >500 cell types across >400 tissue types in human and mouse. Use this to identify which cell types a gene marks, enabling cell type annotation in scRNA-seq analysis. Example: CD3D marks T cells, CD68 marks macrophages, EPCAM marks epithelial cells.

Livelast probed 2026-04-30 23:07Z· 108msCortexa

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed: 1d ago
Last success: 1d ago
Last latency: 108ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "gene_symbol": {
      "description": "Gene symbol to search for (e.g., 'CD3D', 'CD68', 'EPCAM', 'MS4A1')",
      "type": "string"
    },
    "operation": {
      "description": "Operation type",
      "enum": [
        "search_by_gene"
      ],
      "type": "string"
    },
    "species": {
      "description": "Species filter: 'Human' or 'Mouse'. If omitted, searches both species.",
      "enum": [
        "Human",
        "Mouse"
      ],
      "type": "string"
    },
    "tissue_type": {
      "description": "Filter results by tissue type (e.g., 'Blood', 'Lung', 'Brain'). Case-insensitive partial match.",
      "type": "string"
    }
  },
  "required": [
    "operation",
    "gene_symbol"
  ],
  "type": "object"
}

Examples (1)

Default CellMarker Search By Gene call

public-safeinput

{
  "gene_symbol": "BRCA1",
  "operation": ""
}

Expected response keys: success

Anonymous-safe example. Rate-limited; no sign-in required.

Identifiers

Catalog ID: tu_CellMarker_search_by_gene
Tool name: CellMarker_search_by_gene
Added: 2026-04-30 22:47Z
Tags: tooluniverse

CellMarker Search By Gene

Livelast probed 2026-04-30 23:07Z· 108msCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "properties": { "gene_symbol": { "description": "Gene symbol to search for (e.g., 'CD3D', 'CD68', 'EPCAM', 'MS4A1')", "type": "string" }, "operation": { "description": "Operation type", "enum": [ "search_by_gene" ], "type": "string" }, "species": { "description": "Species filter: 'Human' or 'Mouse'. If omitted, searches both species.", "enum": [ "Human", "Mouse" ], "type": "string" }, "tissue_type": { "description": "Filter results by tissue type (e.g., 'Blood', 'Lung', 'Brain'). Case-insensitive partial match.", "type": "string" } }, "required": [ "operation", "gene_symbol" ], "type": "object" }