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Reactome

by io.github.pipeworx-io
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Reactome biological pathway database

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Status
Unhealthy
Last Tested
Transport
Streamable HTTP
URL
Repository
pipeworx-io/mcp-reactome
GitHub Stars
0
Server Listing
mcp-reactome

TDQS

B3.2/5.0

Scored across 36 tools

Disambiguation3/5

The three ask_pipeworx variants (base, _beta, _grounded) plus deep_research all route a natural-language question to the same 5,957-tool catalog, and the description explicitly admits ask_pipeworx_beta 'currently matches ask_pipeworx exactly,' creating real selection ambiguity. Other clusters (resolve_entity/entity_profile/recent_changes/compare_entities) are distinguishable with effort, but the gateway/router overlap is significant.

Naming Consistency4/5

Names are overwhelmingly snake_case verb_noun (resolve_entity, compare_entities, generate_llms_txt, list_subscriptions), which is predictable and readable. A handful are bare nouns (pathway, participants, search, recall, remember), a minor deviation rather than a convention clash.

Tool Count2/5

36 tools is far above the comfortable 3-15 range and heavy even for a broad gateway, and several are near-duplicates (ask_pipeworx/_beta/_grounded). The Reactome server identity is also drowned out by dozens of unrelated Pipeworx/market/memory tools.

Completeness3/5

The Reactome surface (search, pathway, participants, orthologous_events, pathways_for_entity, search_within) covers lookup and traversal but omits reaction/complex detail, disease/analysis, and enrichment operations that the pathway domain expects. The gateway side is broad but has lifecycle gaps (no update for subscriptions, no memory listing beyond recall).

Tool Schema Changelog

Recent tool additions, removals, and schema changes observed during successful MCP inspections.

  1. 1 tool update
    • Changedbet_research2 fields changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "market": "when-will-bitcoin-hit-150k"
-  },
-  {
-    "market": "https://polymarket.com/event/when-will-bitcoin-hit-150k"
-  }
-]New value: +[
+  {
+    "market": "will-kristi-noem-win-the-2028-republican-presidential-nomination"
+  },
+  {
+    "market": "https://polymarket.com/event/will-kristi-noem-win-the-2028-republican-presidential-nomination"
+  }
+]
      • changedInput schema / properties / market / description
        Previous value: -"Polymarket slug (\"when-will-bitcoin-hit-150k\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."New value: +"Polymarket slug (\"will-kristi-noem-win-the-2028-republican-presidential-nomination\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."
  2. 2 tool updates
    • Changedbet_research2 fields changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "market": "will-bitcoin-reach-100k-in-july-2026"
-  },
-  {
-    "market": "https://polymarket.com/event/will-bitcoin-hit-150k-by-june-30-2026"
-  }
-]New value: +[
+  {
+    "market": "when-will-bitcoin-hit-150k"
+  },
+  {
+    "market": "https://polymarket.com/event/when-will-bitcoin-hit-150k"
+  }
+]
      • changedInput schema / properties / market / description
        Previous value: -"Polymarket slug (\"will-bitcoin-hit-150k-by-june-30-2026\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k by June 30?\")"New value: +"Polymarket slug (\"when-will-bitcoin-hit-150k\"), full URL (\"https://polymarket.com/event/...\"), or question text (\"Will Bitcoin hit $150k?\"). Dated slugs stop resolving once they settle — Polymarket de-indexes resolved markets — so prefer an undated one."
    • Changedpolymarket_kalshi_spread2 fields changed
      • changedInput schema / examples
        Previous value: -[
-  {
-    "topic": "fed"
-  },
-  {
-    "topic": "btc"
-  }
-]New value: +[
+  {
+    "topic": "fed"
+  },
+  {
+    "topic": "btc"
+  },
+  {
+    "topic": "bitcoin"
+  },
+  {
+    "topic": "fed rate decision"
+  }
+]
      • changedInput schema / properties / topic / description
        Previous value: -"Pre-mapped: fed | btc | cpi | gdp | sp500 | recession | next_pope | next_uk_pm | next_israel_pm | 2028_president"New value: +"Subject to compare. Canonical keys: fed | btc | eth | cpi | gdp | sp500 | recession | next_pope | next_uk_pm | next_israel_pm | 2028_president — but aliases and keywords resolve too (\"bitcoin\", \"fed rate decision\", \"ethereum\", \"inflation\", \"s&p 500\", \"us recession\", \"next pope\", \"2028 election\"). Check resolution.topic_matched_by in the response: \"exact\"/\"alias\" is a curated pairing, \"phrase\"/\"token\" is a keyword guess."
  3. 1 tool update
    • Changedentity_profile3 fields changed
      • changedInput schema / properties / type / description
        Previous value: -"Entity type. Only \"company\" supported today; person/place coming soon."New value: +"\"company\" or \"ticker\" — both are accepted and behave identically; `value` can be a ticker, CIK, or company name either way. person/place coming soon."
      • changedInput schema / properties / type / enum
        Previous value: -[
-  "company"
-]New value: +[
+  "company",
+  "ticker"
+]
      • changedInput schema / properties / value / description
        Previous value: -"Ticker (e.g., \"AAPL\") or zero-padded CIK (e.g., \"0000320193\"). Names not supported — use resolve_entity first if you only have a name."New value: +"Ticker (e.g., \"AAPL\"), zero-padded CIK (e.g., \"0000320193\"), or company name (e.g., \"Moderna\") — names resolve via SEC EDGAR company-name match."

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