public-db-lookup SKILL.md skillA
public-db-lookup from fmschulz/omics-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fmschulz/omics-skills/public-db-lookup@git:20261002.3faa684Pins git:20261002.3faa684 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fmschulz/omics-skills
- Path
skills/public-db-lookup/SKILL.md- Versions recorded
- 5
- Latest version
- git:20261002.3faa684, committed Oct 2, 2026
- First version recorded
- Aug 25, 2026
- Size
- 5,394 bytes
- Repository stars
- 11
- License
- MIT
Fetch compact JSON records from UniProt, NCBI, MGnify, InterPro, AlphaFold DB, STRING, or ENA. Use when looking up an accession, taxon, entry, or structure in a public database.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# Public Database Lookup One bounded GET against a public life-science REST API. The bundled script picks the base URL, adds a User-Agent, retries on 429 and 5xx, and prints a compact JSON envelope instead of the full payload. ## Instructions 1. Pick the service that owns the record: `uniprot`, `ncbi-entrez`, `ncbi-datasets`, `mgnify`, `interpro`, `alphafold`, `string`, or `ena`. 2. Read the card for that service in [references/services.md](references/services.md) for the path, parameters, and the right `--record-path`. 3. Run the wrapper, `scripts/lookup` in this skill's directory (installed at `~/.agents/skills/public-db-lookup/scripts/lookup`). 4. Keep `--max-items` small (default 5). Raise it only when the user needs more rows. 5. When the full payload matters, add `--save-raw PATH` and work from the file; the envelope still carries the compacted view. 6. For the two NCBI services, the script reads `NCBI_API_KEY`, `NCBI_EMAIL` and `NCBI_TOOL` from the environment, adds them as request parameters, and redacts the key from its output. Use only values the user exported; never set `NCBI_EMAIL` to an address from the conversation or system context. …
Read the whole file at its exact version.
How to install
mdr add fmschulz/omics-skills/public-db-lookup@sha256:f8fefc1f44b627c0The line at the top of this page pins the label git:20261002.3faa684, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_2byuspgl3mz4w56j)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 5 versions of this file, between Aug 25, 2026 and Oct 2, 2026, about one every 9 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20261002.3faa684 latest | 2026-10-02 | 3faa684 | 5,394 B | A | view · diff |
| git:20261001.bf5afd6 | 2026-10-01 | bf5afd6 | 5,265 B | A | view · diff |
| git:20260905.ecda92b | 2026-09-05 | ecda92b | 5,363 B | A | view · diff |
| git:20260905.3e49039 | 2026-09-05 | 3e49039 | 4,971 B | A | view · diff |
| git:20260825.978bb0a | 2026-08-25 | 978bb0a | 4,958 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (5394 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
fmschulz/omics-skills · 11 stars · license MIT · pushed 2026-10-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_2byuspgl3mz4w56j GET https://markdownregistry.com/api/v1/resolve?ref=fmschulz/omics-skills/public-db-lookup GET https://markdownregistry.com/api/v1/blob/f8fefc1f44b627c0d45f5c008e3c488ba65b38c8990dcf9d0af62fce2d08c0b8
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.