JASPAR Database

Overview

JASPAR (https://jaspar.elixir.no/) is the gold-standard open-access database of curated, non-redundant transcription factor (TF) binding profiles stored as position frequency matrices (PFMs). The JASPAR 2024 release added 329 new profiles to the CORE collection (~20% growth over the prior release); the live API currently serves ~2,600 latest-version CORE profiles across taxa. Each profile is experimentally derived (ChIP-seq, SELEX, HT-SELEX, protein binding microarray, etc.) and curated.

Key resources:

• JASPAR portal: https://jaspar.elixir.no/
• REST API: https://jaspar.elixir.no/api/v1/
• API docs: https://jaspar.elixir.no/api/v1/docs/
• Python access: direct REST (see scripts/query_jaspar.py) or Biopython's Bio.motifs.jaspar module (there is no standalone jaspar PyPI package)

Scripts

scripts/query_jaspar.py — query the JASPAR REST API (stdlib only, JSON to stdout):