STITCH Query Skill

SkillDatabases & data

Query the STITCH chemical-protein interaction database. Use whenever the user asks about chemical-protein interactions, drug-target binding, compound action modes, or wants to look up any entity (chemical name, STITCH CID, STRING protein ID) in STITCH.

Instructions available. Your AI can read the instructions. Execution depends on the setup they require.

Account requirements not reviewed. Check the skill instructions before use; ahel provides instructions and does not run this skill.

Add ahel to your AI once: Claude, ChatGPT, Cursor, Claude Code or Codex. Then ask it to use this.

Then ask your AI: use the STITCH Query Skill skill

What this skill tells your AI

The instructions your AI receives, as published by qsong-github/drugclaw in skills/dti/stitch/SKILL.md and read by ahel’s review.

Search STITCH for chemical–protein interactions via REST API. Auto-detects input type:

Input Pattern	Detected As	Example
`CIDm00002244` / `CIDs00002244`	STITCH chemical ID	direct lookup
`9606.ENSP00000352121`	STRING protein ID	direct lookup
anything else	free text	resolved via `/resolve` first

API

Function	Input	Returns
`resolve(name, species)`	chemical / protein name	`list[dict]` with stringId, preferredName
`resolve_batch(names, species)`	list of names	`list[dict]` (via `/resolveList`)
`get_interactors(id, species, limit, required_score)`	single ID	`list[dict]` with partner IDs + scores
`get_actions(id, species, limit, required_score)`	single ID	`list[dict]` with mode (activation/inhibition/binding…)
`get_interactions(ids, species, required_score)`	list of IDs	`list[dict]` pairwise interactions among inputs
`search(entity, species, limit, required_score)`	single entity (any type)	`dict` with resolved_id, interactors, actions
`search_batch(entities, species, limit, required_score)`	list or comma-separated string	`dict[str, dict]`
`summarize(result, entity)`	search() result + label	compact text
`to_json(result)`	any result	JSON string

Key Fields

Interactors — stringId_A, stringId_B, preferredName_A, preferredName_B, score, nscore, fscore, pscore, ascore, escore, dscore, tscore

Actions — stringId_A, stringId_B, preferredName_A, preferredName_B, mode (activation / inhibition / binding / catalysis / reaction / expression / ptmod), action, is_directional, a_is_acting, score

Score Channels

Abbrev	Meaning
nscore	neighborhood (genomic context)
fscore	gene fusion
pscore	phylogenetic co-occurrence
ascore	co-expression
escore	experimental evidence
dscore	curated database evidence
tscore	text mining
score	combined score (0–1000; 400=medium, 700=high, 900=highest)

Usage

See if __name__ == "__main__" block in 45_STITCH.py for runnable examples covering: free-text name, STITCH CID, batch search, and JSON output.

Data Source

Provider: STITCH / STRING Consortium (EMBL, CPR, SIB, KU)
Primary URL: http://stitch.embl.de/api
Fallback URL: https://string-db.org/api (STITCH data merged into STRING 12+)
Auth: None (public API; rate-limited — avoid parallel bulk requests)
Species: Default 9606 (Homo sapiens); pass NCBI taxonomy ID for other organisms

Signals

GitHub stars: 116
Forks: 3
Last commit: Aug 2026

Advanced

Item type: skill
Key: stitch-query
Source: github.com/qsong-github/drugclaw

github.com/qsong-github/drugclaw