Genomics · Database
ReMap 2022
A catalogue of regulatory regions derived from integrated public ChIP-seq data across four model organisms.
What ReMap 2022 is
ReMap 2022 is a genomics database that compiles regulatory regions by integrating public chromatin immunoprecipitation sequencing (ChIP-seq) experiments across four model species: Homo sapiens, Mus musculus, Drosophila melanogaster, and Arabidopsis thaliana.
The resource addresses the dispersion of public regulatory genomics data by systematically consolidating binding profiles across transcriptional regulators. For human systems alone, the repository incorporates 8.1 thousand public ChIP-seq datasets covering hundreds of transcriptional targets across diverse cell and tissue types.
How it is organised
ReMap 2022 gathers public ChIP-seq datasets and organises them per transcriptional regulator across human, mouse, fruit fly, and Arabidopsis genomes. The resulting regulatory regions are indexed by target identity, biological sample, and accession identifier.
Users can query and retrieve binding data via an online search engine, explore datasets through genome track hubs, annotate genomic coordinates using a web server, or export data programmatically through an R package, a REST API, and bulk file downloads.
Key facts
- Category
- Genomics
- Human dataset volume
- 8.1k ChIP-seq datasets
- Species covered
- Homo sapiens, Mus musculus, Drosophila melanogaster, Arabidopsis thaliana
- Primary data type
- ChIP-seq regulatory regions per transcriptional regulator
- Software interfaces
- Web search, trackhubs, annotation web server, R package, REST API, downloads
What you can use it for
- Transcriptional regulator binding analysis
- Examining genomic binding profiles for specific transcription factors or chromatin-associated regulators across human, mouse, fly, and plant genomes.
- Sample- and tissue-specific query
- Finding regulatory datasets matching specific biological contexts, such as MCF-7 cell lines, limb tissue, or seedling samples.
- Genomic region annotation
- Submitting genomic coordinates to the database web server to identify overlapping transcriptional regulatory regions.
- Programmatic analysis and integration
- Accessing and downloading regulatory regions directly through an R package or REST API for computational pipelines.
Query it here
The research agent queries ReMap 2022 directly — no account, no API key — and every answer links back to the record it came from. Ask in plain language and it writes the query.
Strengths and limits
Good at
- Consolidates 8.1 thousand human ChIP-seq datasets into a single structured resource.
- Spans four major model organisms across mammals, insects, and plants.
- Offers programmatic access via a dedicated R package and REST API alongside visual trackhubs.
Watch out for
- Species coverage is limited to human, mouse, fruit fly, and Arabidopsis.
- Data collection is restricted to public ChIP-seq experiments and targets present in external repositories.
Questions
Can I search ReMap 2022 without writing code?
Yes. The research agent queries ReMap 2022 directly, with no account or API key, and cites the record behind every answer. Ask in plain language — for a gene, a protein, a compound or a study — and it builds the query for you.
Can I reuse data from ReMap 2022?
CC BY-NC 4.0. Terms: https://zenodo.org/records/10527088
Which species are included in ReMap 2022?
ReMap 2022 includes ChIP-seq data for Homo sapiens, Mus musculus, Drosophila melanogaster, and Arabidopsis thaliana.
What query parameters can be used in the search tool?
Users can search by target regulator name, biological source such as tissue or cell line, and dataset accession codes such as ENCODE or GEO identifiers.
How can datasets be integrated into computational workflows?
The resource provides an R package, a REST API, and bulk download files to facilitate programmatic retrieval and local analysis.
Are genome browser tracks available?
Yes, ReMap 2022 provides genome trackhubs for each of the four supported organisms.
Written from ReMap 2022's own website and reference material. Statements citing a figure that does not appear there are removed before publication. Licence and running details come from our registry.