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Reactome curated human biological pathways matching a term

health_reactome_biological_paths
Read-only

Reactome curated human biological pathways matching a term (Reactome ContentService, CC BY 4.0): stable ID, pathway name, whether it is a disease pathway and a short summary. Human pathways only. Up to 20 per call. Price: $0.002 in USDC per successful call, paid with x402 (Base, Solana or Arc); failed calls are not charged.

Tool call template

Replace each placeholder with a value matching the input schema. Only required parameters are included; add optional parameters as needed.

{
  "id": 1,
  "jsonrpc": "2.0",
  "method": "tools/call",
  "params": {
    "arguments": {
      "q": "<q>"
    },
    "name": "health_reactome_biological_paths"
  }
}

Input Schema

NameRequiredDescriptionDefault
qYesSearch words, letters, digits and spaces, 2 to 60 characters
maxNoHow many pathways, 1 to 20 (default 5)

Output Schema

NameRequiredDescriptionDefault
queryNo
totalNo
sourceNo
pathwaysNo
checkedAtNo

Schema Changelog

Changes observed during successful MCP inspections.

  1. First observed

TDQS

A3.7/5.0
Behavior4/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Annotations already declare readOnlyHint and openWorldHint, so safety is covered; the description adds genuinely useful operational context: human-pathways-only scoping, a hard cap of 20 results per call, and a paid x402 model ($0.002 USDC per successful call on Base/Solana/Arc, failures uncharged). Cost and failure-billing behavior are exactly the kind of thing an agent must know before invoking and are not in the annotations. It stops short of 5 only because it omits anything about result ordering or empty-result behavior.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness4/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The core purpose and scope lead, with the licensing/pricing note trailing where it belongs; both sentences carry information. The parenthetical '(Reactome ContentService, CC BY 4.0)' is slightly dense but is provenance an agent may need to cite.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a two-parameter read tool with full annotations and an output schema, the definition covers purpose, scope, result cap, and billing model, so nothing essential is missing. The only residual gap is selection guidance relative to the many other health-science lookup siblings.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema description coverage is 100%, so both q and max are already documented with constraints (2-60 characters; 1-20, default 5). The description's 'Up to 20 per call' merely restates the schema's max upper bound and adds no new meaning, so the baseline of 3 applies.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description gives a specific verb+resource (curated human biological pathways matched to a term) and enumerates the returned fields (stable ID, name, disease-pathway flag, summary), which clearly separates it from genomics/protein siblings like health_kegg_pathway_genes or health_string_protein_networks. It does not explicitly name a sibling or state the contrast, so it stops short of a 5.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines3/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

Usage is only implied: an agent infers it should call this when it has a free-text term about a biological process or disease mechanism. There is no explicit when-not guidance, no mention of when to prefer health_kegg_pathway_genes or health_pubmed_abstracts instead, and no note on what kinds of terms work best.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

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