jaspar-database SKILL.md skillA
jaspar-database from jaechang-hits/sciagent-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add jaechang-hits/sciagent-skills/jaspar-database@git:20260528.3e3f998Pins git:20260528.3e3f998 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- jaechang-hits/sciagent-skills
- Path
skills/genomics-bioinformatics/databases/jaspar-database/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260528.3e3f998, committed May 28, 2026
- Size
- 28,361 bytes
- Repository stars
- 381
- License
- a license file GitHub does not identify
JASPAR 2024 TF binding profiles via REST API and pyJASPAR. Retrieve PFMs/PWMs by TF name, JASPAR ID, species, or structural class. Scan DNA for TFBS; browse by taxon (human, mouse) or TF family (bHLH, zinc finger). Use for motif enrichment input, TFBS scanning, and regulatory sequence analysis. For ChIP-seq peak motif discovery use homer-motif-analysis; for regulatory variant scoring use regulomedb-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
# JASPAR Database ## Overview JASPAR is a curated, open-access database of transcription factor (TF) binding profiles represented as position frequency matrices (PFMs). The 2024 release contains 1,209 profiles in the CORE vertebrate collection, covering 783 TFs with experimentally validated binding data from SELEX, ChIP-seq, and PBM experiments. Access is free via the JASPAR REST API at `https://jaspar.elixir.no/api/v1/` — no authentication required — and through the `pyJASPAR` Python library for matrix retrieval and manipulation. ## When to Use - Looking up the PWM or PFM for a specific TF by name (e.g., CTCF, SP1, GATA1) to use as motif input for a scanning tool - Retrieving all JASPAR profiles for a species (e.g., Homo sapiens, Mus musculus) to build a motif library for enrichment analysis - Scanning a DNA promoter sequence for predicted TF binding sites using a known PWM - Finding all TFs of a given structural class (bHLH, zinc finger, homeodomain) to build a TF family binding profile set - Getting metadata for a JASPAR matrix: number of binding sites, information content, GC content, experiment type …
Read the whole file at its exact version.
How to install
mdr add jaechang-hits/sciagent-skills/jaspar-database@sha256:4ad7bb276f535250The line at the top of this page pins the label git:20260528.3e3f998, 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_t3h6wghn2kewylor)
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Versions
The registry has recorded 1 version of this file, committed on May 28, 2026.
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 (28361 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
jaechang-hits/sciagent-skills · 381 stars · license a license file GitHub does not identify · pushed 2026-10-16 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_t3h6wghn2kewylor GET https://markdownregistry.com/api/v1/resolve?ref=jaechang-hits/sciagent-skills/jaspar-database GET https://markdownregistry.com/api/v1/blob/4ad7bb276f53525053fb64cf8deb2b9a2cfd98baf1fa1685116ca96081653c28
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.