open_targets

Name: open_targets
Author: QSong-github

132stars4forks

How to install open_targets?

qsong-github/drugclaw/open_targets

$npx -y skills add QSong-github/DrugClaw --skill open_targets

Installs into the current project.

Summary

Query the Open Targets Platform for drug-target-disease associations. Use whenever the user asks about drug targets, gene-disease associations, drug indications, clinical trial phases, or wants to look up any entity (Ensembl gene ID, ChEMBL drug ID, or free-text gene/drug name) i

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SKILL.md

1	# Open Targets Platform Query Skill
2
3	Query the Open Targets GraphQL API for drug, target, and disease association data. No API key required.
4
5	## Entity Auto-Detection
6
7	\| Input Pattern \| Detected As \| Example \|
8	\|---\|---\|---\|
9	\| `ENSG00000...` \| Target (Ensembl gene ID) \| `ENSG00000146648` (EGFR) \|
10	\| `CHEMBL...` \| Drug (ChEMBL ID) \| `CHEMBL941` (Imatinib) \|
11	\| anything else \| Free-text search \| `BRCA1`, `aspirin` \|
12
13	## API
14
15	\| Function \| Input \| Returns \|
16	\|---\|---\|---\|
17	\| `query(entity)` \| single entity string \| dict with type, name, associations \|
18	\| `query_batch(entities)` \| list of entity strings \| list[dict] \|
19	\| `summarize(result)` \| query result dict \| compact one-line text \|
20	\| `get_target_info(ensembl_id)` \| Ensembl ID string \| raw GraphQL response \|
21	\| `get_drug_info(chembl_id)` \| ChEMBL ID string \| raw GraphQL response \|
22	\| `search_entities(term)` \| free-text string \| raw GraphQL response \|
23
24	## Return Format
25
26	Target result:
27	```json
28	{"entity": "ENSG00000146648", "type": "target", "found": true,
29	"symbol": "EGFR", "name": "epidermal growth factor receptor",
30	"biotype": "protein_coding",
31	"top_diseases": [{"disease": "lung carcinoma", "score": 0.78}]}
32	```
33
34	Drug result:
35	```json
36	{"entity": "CHEMBL941", "type": "drug", "found": true,
37	"name": "IMATINIB", "drug_type": "Small molecule",
38	"max_phase": 4,
39	"indications": [{"disease": "chronic myeloid leukemia", "phase": 4}]}
40	```
41
42	Search result:
43	```json
44	{"entity": "BRCA1", "type": "search", "found": true,
45	"hits": [{"id": "ENSG00000012048", "name": "BRCA1", "entity_type": "target"}]}
46	```
47
48	## Usage
49
50	See `if __name__ == "__main__"` block in `12_Open_Targets_Platform.py` for runnable examples covering: single target/drug/search query, batch query, and JSON output.
51
52	## Source
53
54	- Endpoint: `https://api.platform.opentargets.org/api/v4/graphql`
55	- Docs: https://platform.opentargets.org/
56	- Paper: https://doi.org/10.1093/nar/gkac1046

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open_targets

132stars4forks

View on GitHub

How to install open_targets?

qsong-github/drugclaw/open_targets

$npx -y skills add QSong-github/DrugClaw --skill open_targets

Installs into the current project.

Summary

Files · 1

View on GitHub

SKILL.md

1	# Open Targets Platform Query Skill
2
3	Query the Open Targets GraphQL API for drug, target, and disease association data. No API key required.
4
5	## Entity Auto-Detection
6
7	\| Input Pattern \| Detected As \| Example \|
8	\|---\|---\|---\|
9	\| `ENSG00000...` \| Target (Ensembl gene ID) \| `ENSG00000146648` (EGFR) \|
10	\| `CHEMBL...` \| Drug (ChEMBL ID) \| `CHEMBL941` (Imatinib) \|
11	\| anything else \| Free-text search \| `BRCA1`, `aspirin` \|
12
13	## API
14
15	\| Function \| Input \| Returns \|
16	\|---\|---\|---\|
17	\| `query(entity)` \| single entity string \| dict with type, name, associations \|
18	\| `query_batch(entities)` \| list of entity strings \| list[dict] \|
19	\| `summarize(result)` \| query result dict \| compact one-line text \|
20	\| `get_target_info(ensembl_id)` \| Ensembl ID string \| raw GraphQL response \|
21	\| `get_drug_info(chembl_id)` \| ChEMBL ID string \| raw GraphQL response \|
22	\| `search_entities(term)` \| free-text string \| raw GraphQL response \|
23
24	## Return Format
25
26	Target result:
27	```json
28	{"entity": "ENSG00000146648", "type": "target", "found": true,
29	"symbol": "EGFR", "name": "epidermal growth factor receptor",
30	"biotype": "protein_coding",
31	"top_diseases": [{"disease": "lung carcinoma", "score": 0.78}]}
32	```
33
34	Drug result:
35	```json
36	{"entity": "CHEMBL941", "type": "drug", "found": true,
37	"name": "IMATINIB", "drug_type": "Small molecule",
38	"max_phase": 4,
39	"indications": [{"disease": "chronic myeloid leukemia", "phase": 4}]}
40	```
41
42	Search result:
43	```json
44	{"entity": "BRCA1", "type": "search", "found": true,
45	"hits": [{"id": "ENSG00000012048", "name": "BRCA1", "entity_type": "target"}]}
46	```
47
48	## Usage
49
50	See `if __name__ == "__main__"` block in `12_Open_Targets_Platform.py` for runnable examples covering: single target/drug/search query, batch query, and JSON output.
51
52	## Source
53
54	- Endpoint: `https://api.platform.opentargets.org/api/v4/graphql`
55	- Docs: https://platform.opentargets.org/
56	- Paper: https://doi.org/10.1093/nar/gkac1046

People who liked this also viewed

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