A way to search ChEMBL, a scientific database containing measurements of how drug-like molecules interact with biological targets such as proteins.

Use it to find biological targets, retrieve activity data such as IC50 or Ki values, and look up molecules by ChEMBL ID or SMILES chemical notation.

It removes the need to manually search and interpret separate records when comparing molecules, targets, and laboratory activity measurements.

How omar-A-hassan/medsci-agent configures OpenCode

Reuse

Borrowing it

Nothing to install: this file belongs to omar-A-hassan/medsci-agent. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file

curl -O https://raw.githubusercontent.com/omar-A-hassan/medsci-agent/main/.opencode/skills/chembl/SKILL.md

Clone the repo

git clone --depth 1 https://github.com/omar-A-hassan/medsci-agent

Made for: OpenCode.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

README.md

[![agentmods](https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/chembl/github.svg)](https://agentmods.dev/skills/omar-a-hassan/medsci-agent/chembl)

Your own site

<a href="https://agentmods.dev/skills/omar-a-hassan/medsci-agent/chembl"><img src="https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/chembl/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

Your own site · 80×15

<a href="https://agentmods.dev/skills/omar-a-hassan/medsci-agent/chembl"><img src="https://agentmods.dev/badge/skills/omar-a-hassan/medsci-agent/chembl.svg" alt="Reviewed on agentmods" width="80" height="20"></a>

Per session 15 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.

When invoked 448 The whole file, excluding the scripts and references it only reads on demand.

Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.

Origin original No closer match found in the catalogue.

Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

Model	Per session	Once invoked
Fable 5.1	$0.00015	$0.00448
Opus 5	$0.00008	$0.00224
Sonnet 5	$0.00003	$0.00090
Haiku 4.5	$0.00002	$0.00045

Measured 11d ago against content hash 6c0ca3720309, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-10, from the pricing page.

Security

Grade A, and why

chembl scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 11d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

.opencode/skills/chembl/SKILL.md · 50 lines

What it actually says

ChEMBL Database

Overview

ChEMBL is a large-scale bioactivity database maintained by EMBL-EBI. It contains binding, functional, and ADMET data for drug-like molecules against biological targets.

Python Client

from chembl_webresource_client.new_client import new_client

molecule = new_client.molecule
activity = new_client.activity
target = new_client.target

Search target by name

results = target.search("cyclooxygenase-2")
for t in results:
    print(t["target_chembl_id"], t["pref_name"], t["organism"])

Get bioactivity data for a target

acts = activity.filter(target_chembl_id="CHEMBL220", standard_type="IC50", pchembl_value__isnull=False)
for a in acts:
    print(a["molecule_chembl_id"], a["pchembl_value"], a["canonical_smiles"])

Retrieve molecule by SMILES or ChEMBL ID

mol = molecule.get("CHEMBL25")  # aspirin
mol = molecule.filter(molecule_structures__canonical_smiles="CC(=O)Oc1ccccc1C(=O)O")

Key Fields

pchembl_value: Standardized -log10(IC50/Ki/EC50) in molar. Use this for comparisons.
standard_type: IC50, Ki, EC50, Kd, etc.
assay_type: B (binding), F (functional), A (ADMET).
target_type: SINGLE PROTEIN, PROTEIN COMPLEX, ORGANISM, etc.

Key Details

Always filter on pchembl_value__isnull=False for comparable potency data.
ChEMBL IDs: molecules (CHEMBL25), targets (CHEMBL220), assays (CHEMBL123456).
Install: pip install chembl-webresource-client.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

11d ago First seen · 50 lines · 15 tokens per session scan A 6c0ca3720309

Subscribe to this mod's changes

chembl is a skill published in the GitHub repository omar-A-hassan/medsci-agent (18 stars, last pushed 4d ago), licensed MIT. It adds 15 tokens to every session and 448 once invoked, about $0.0001 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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medsci-agent: Skill for OpenCode