Ontology SPARQL SELECT over OBO Foundry Ontologies (Ontobee)

ontobeesparql/sparql-select

Runs one read-only SPARQL SELECT over the Ontobee triple store (OBO Foundry and related ontologies such as the Disease Ontology, Gene Ontology, ChEBI, NCBI Taxonomy, DrOn and EFO) and returns the SPARQL JSON results. The outer query is capped at `limit` rows (default 100, at most 500); write no PREFIX lines and no # comments, the common prefixes (rdf, rdfs, owl, xsd, skos, dc, foaf) are predefined, and full-text search is available as ?label bif:contains '"phrase"'. Each ontology carries its own licence. Ontobee ontology data, passed through unmodified and served by Eden Engine; not an official Ontobee 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

Ontobee (He Group, University of Michigan)

Ontology data from the Ontobee SPARQL endpoint (He Group, University of Michigan; ontobee.org). Each ontology carries its own licence; the data is passed through unmodified. Served by Eden Engine; not an official Ontobee 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: "ontobeesparql/sparql-select" })

// 3. learn: read the usage guide at runtime
omnial_learn({ tool: "ontobeesparql/sparql-select" })

// 4. run: price the exact call first, then run it
omnial_execute({ tool: "ontobeesparql/sparql-select", input: { /* see input_schema */ }, dry_run: true })
omnial_execute({ tool: "ontobeesparql/sparql-select", 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 21, 2026

Input and output schemas

Input schema

input_schema.json

{
  "type": "object",
  "required": [
    "query"
  ],
  "properties": {
    "limit": {
      "type": "integer",
      "default": 100,
      "maximum": 500,
      "minimum": 1,
      "description": "Most rows to return, 1 to 500. Default 100."
    },
    "query": {
      "type": "string",
      "pattern": "^\\s*[Ss][Ee][Ll][Ee][Cc][Tt]\\b[^#]*$",
      "maxLength": 3000,
      "minLength": 8,
      "description": "One SPARQL SELECT query over the Ontobee triple store, for example SELECT ?term ?label WHERE { ?term rdfs:label ?label . ?label bif:contains '\"insulin\"' }. Write no PREFIX lines (the prefixes rdf, rdfs, owl, xsd, skos, dc and foaf; write OBO terms as full IRIs in angle brackets are predefined) and no # comments. Put no LIMIT on the outer query: the tool adds one from `limit`."
    }
  },
  "additionalProperties": false
}

Output schema

output_schema.json

{
  "type": "object",
  "required": [
    "head",
    "results"
  ],
  "properties": {
    "head": {
      "type": "object",
      "properties": {
        "vars": {
          "type": "array",
          "items": {
            "type": "string"
          },
          "description": "The names of the result columns."
        }
      },
      "additionalProperties": true
    },
    "results": {
      "type": "object",
      "required": [
        "bindings"
      ],
      "properties": {
        "bindings": {
          "type": "array",
          "items": {
            "type": "object",
            "additionalProperties": {
              "type": "object",
              "properties": {
                "type": {
                  "type": "string",
                  "description": "uri, literal, typed-literal or bnode."
                },
                "value": {
                  "type": "string"
                },
                "datatype": {
                  "type": "string"
                },
                "xml:lang": {
                  "type": "string"
                }
              },
              "additionalProperties": true
            }
          },
          "description": "One object per result row, keyed by column name; each cell has `type` and `value` (plus `datatype` or `xml:lang` where they apply)."
        }
      },
      "additionalProperties": true
    }
  },
  "additionalProperties": true
}