Compendium of Disease-Linked Regulatory DNA Variants and Homeostatic Transcription Factors in Epidermis
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 422 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 422 samples: 110 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Disease-linked regulatory DNA variants and homeostatic transcription factors in epidermisNature communications · 2025
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE255326_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1074676 and SRA study SRP600089. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 337 samples.
How we read this: 110 replicated groups read from the first 400 of 422 sample titles; they account for 337 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8069158 control Day4 siRNA 13 control Day4 siRNA
- GSM8069159 control Day4 siRNA 19 control Day4 siRNA
- GSM8069160 control Day4 siRNA 35 control Day4 siRNA
- GSM8069161 control Day4 siRNA 36 control Day4 siRNA
- GSM8069162 control Day4 siRNA 41 control Day4 siRNA
- GSM8069163 control Day4 siRNA 56 control Day4 siRNA
- GSM8069164 control Prog siRNA 21 control Prog siRNA
- GSM8069165 control Prog siRNA 27 control Prog siRNA
- GSM8069166 control Prog siRNA 29 control Prog siRNA
- GSM8069167 control Prog siRNA 30 control Prog siRNA
- GSM8069168 control Prog siRNA 46 control Prog siRNA
- GSM8069169 control Prog siRNA 51 control Prog siRNA
- GSM8069170 CXXC1 Day4 siRNA 16 CXXC1 Day4 siRNA
- GSM8069171 CXXC1 Day4 siRNA 37 CXXC1 Day4 siRNA
- GSM8069172 CXXC1 Day4 siRNA 43 CXXC1 Day4 siRNA
- GSM8069173 CXXC1 Prog siRNA 24 CXXC1 Prog siRNA
- GSM8069174 CXXC1 Prog siRNA 31 CXXC1 Prog siRNA
- GSM8069175 CXXC1 Prog siRNA 47 CXXC1 Prog siRNA
- GSM8069176 Day4 control rs63
- GSM8069177 Day4 NRF1 rs64
- GSM8069178 ETV3 Day4 siRNA 15 ETV3 Day4 siRNA
- GSM8069179 ETV3 Day4 siRNA 59 ETV3 Day4 siRNA
- GSM8069180 ETV3 Prog siRNA 23 ETV3 Prog siRNA
- GSM8069181 ETV3 Prog siRNA 54 ETV3 Prog siRNA
- GSM8069182 FOXJ2 Day4 siRNA 14 FOXJ2 Day4 siRNA
- GSM8069183 FOXJ2 Day4 siRNA 58 FOXJ2 Day4 siRNA
- GSM8069184 FOXJ2 Prog siRNA 22 FOXJ2 Prog siRNA
- GSM8069185 FOXJ2 Prog siRNA 53 FOXJ2 Prog siRNA
- GSM8069186 IRX2 Day4 siRNA 18 IRX2 Day4 siRNA
- GSM8069187 IRX2 Day4 siRNA 38 IRX2 Day4 siRNA
- GSM8069188 IRX2 Day4 siRNA 42 IRX2 Day4 siRNA
- GSM8069189 IRX2 Prog siRNA 26 IRX2 Prog siRNA
- GSM8069190 IRX2 Prog siRNA 32 IRX2 Prog siRNA
- GSM8069191 IRX2 Prog siRNA 48 IRX2 Prog siRNA
- GSM8069192 NRF1 Day4 siRNA 57
- GSM8069193 NRF1 Prog siRNA 52
- GSM8069194 otherControl Day4 siRNA 60
- GSM8069195 otherControl Prog siRNA 55
- GSM8069196 Prog control rs61
- GSM8069197 Prog NRF1 rs62
+ 382 more — browse all 422 samples with per-sample file links →
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares transcription, regulatory, factors
- GSE301298 Functional redundancy between UTY and UTX in regulating the localization of transcription factors involved in pluripotency 88 samples shares transcription, factors
- GSE275721 Lineage master regulator and cancer-selective partner transcription factors rewire 3D genome topology for tumor-specific gene control 72 samples shares transcription, factors
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares transcription, factors
- GSE182605 Integrative gene regulatory analysis reveals transcriptional mechanisms required in mature human hepatocytes and during in vitro hepatocyte differentiation 35 samples shares transcription, regulatory
- GSE341599 CTCFL(BORIS) contributes to the transcriptional program of ovarian cancer by relaxing CTCF-mediated three-dimensional genome organization 32 samples shares transcription
- GSE314310 Cardiopedia-Ligand: a Ligand Stimulation Atlas for Cardiac Function and Transcriptional Response 468 samples shares transcription
- GSE303576 Rb-driven transcription limits its tumour suppressive effects in breast cancer 279 samples shares transcription
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.