BioSamples Search: Find Biological Samples by Free-Text Match

biosamples/sample-search

Searches public BioSamples records by free text (tissue, organism, cell line, disease, accession) and returns up to 20 samples per call with accession, name, taxon id, release and update dates, and the full characteristics map. Results are ranked by BioSamples; the response carries `_links.next` to continue. A text with no match returns a body with no `_embedded` key. EMBL-EBI BioSamples data, served by Eden Engine; not an official EMBL-EBI product.

activeper callv1

Price

$0.0026 per call

You pay the price shown. If a call turns out to cost more than its quote, you pay the actual price, capped at twice the quote. No monthly minimum. Top-ups start at $0.50.

Data source

EMBL-EBI

Data from BioSamples, EMBL-EBI (ebi.ac.uk). EMBL-EBI places no additional restrictions on use or redistribution of its data beyond those set by the original data owners and expects attribution (ebi.ac.uk/about/terms-of-use). Served by Eden Engine; not an official EMBL-EBI product.

Use it

Five steps: search, inspect, learn, run, settle. No per-tool setup; your agent reaches this tool through the meta-tools it already has.

Connect once and your AI can find and run this tool, and any other it needs.

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agent

// 1. search: find the tool
omnial_search({ query: "what you need" })

// 2. inspect: price and input schema
omnial_inspect({ tool: "biosamples/sample-search" })

// 3. learn: read the usage guide at runtime
omnial_learn({ tool: "biosamples/sample-search" })

// 4. run: price the exact call first, then run it
omnial_execute({ tool: "biosamples/sample-search", input: { /* see input_schema */ }, dry_run: true })
omnial_execute({ tool: "biosamples/sample-search", input: { /* ... */ } })

// 5. settle: the call is charged when it finishes, nothing to do

Not connected yet? Point your MCP client at https://mcp.eden-engine.com/mcp, then copy a config for your client.

Pricing

Every charge this tool can incur.

Charge	Price
Per call	$0.0026

Updated: Oct 25, 2026

Input and output schemas

Input schema

input_schema.json

{
  "type": "object",
  "required": [
    "text"
  ],
  "properties": {
    "page": {
      "type": "integer",
      "default": 0,
      "maximum": 500,
      "minimum": 0,
      "description": "Zero-based page number, 0 to 500. Pages past 500 are refused by BioSamples; follow `_links.next` (a cursor) to go deeper."
    },
    "size": {
      "type": "integer",
      "default": 10,
      "maximum": 20,
      "minimum": 1,
      "description": "Samples per page, 1 to 20 (default 10)."
    },
    "text": {
      "type": "string",
      "maxLength": 200,
      "minLength": 1,
      "description": "Free text to match against sample names and characteristics, for example liver, Mus musculus, or an accession such as SAMN45155849."
    }
  },
  "additionalProperties": false
}

Output schema

output_schema.json

{
  "type": "object",
  "properties": {
    "page": {
      "type": "object",
      "additionalProperties": true
    },
    "_links": {
      "type": "object",
      "description": "Includes `next` (cursor link) when more samples match.",
      "additionalProperties": true
    },
    "_embedded": {
      "type": "object",
      "properties": {
        "samples": {
          "type": "array",
          "items": {
            "type": "object",
            "required": [
              "accession"
            ],
            "properties": {
              "name": {
                "type": "string"
              },
              "taxId": {
                "type": [
                  "integer",
                  "null"
                ]
              },
              "status": {
                "type": "string"
              },
              "update": {
                "type": "string"
              },
              "release": {
                "type": "string"
              },
              "accession": {
                "type": "string"
              },
              "submitted": {
                "type": [
                  "string",
                  "null"
                ]
              },
              "characteristics": {
                "type": "object",
                "description": "Attribute name to a list of {text, ontologyTerms?, tag?, unit?}.",
                "additionalProperties": {
                  "type": "array"
                }
              },
              "externalReferences": {
                "type": "array"
              }
            },
            "additionalProperties": true
          }
        }
      },
      "additionalProperties": true
    }
  },
  "description": "HAL page. `_embedded.samples` is absent when nothing matches.",
  "additionalProperties": true
}