Regulation of somatic hypermutation by higher-order chromatin structure [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 11 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
- 11 samples: 2 × RAD21-AID c9 4h IAA vs 2 × RAD21-AID c9 8h IAA vs 2 × CTCF vs 2 × RAD21Groups 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
- Regulation of somatic hypermutation by higher-order chromatin structureMolecular cell · 2025
Read the full summary ↓
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 GSE271542_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 PRJNA1132194 and SRA study SRP518162. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 4 replicated groups read from 11 sample titles; they account for 8 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.
- GSM8379035 RAD21-AID c9 noIAA rep1
- GSM8379036 RAD21-AID c9 4h IAA rep1 RAD21-AID c9 4h IAA
- GSM8379037 RAD21-AID c9 4h IAA rep2 RAD21-AID c9 4h IAA
- GSM8379038 RAD21-AID c9 8h IAA rep1 RAD21-AID c9 8h IAA
- GSM8379039 RAD21-AID c9 8h IAA rep2 RAD21-AID c9 8h IAA
- GSM8379040 RAD21-AID c9 IgG
- GSM8379041 RAD21-AID c9 Input
- GSM8379042 CTCF rep2 CTCF
- GSM8379043 CTCF rep1 CTCF
- GSM8379044 RAD21 rep1 RAD21
- GSM8379045 RAD21 rep2 RAD21
- GSE296190 Hypoxic regulation of chromatin and gene transcription [ChIP-seq] 84 samples shares chromatin, chip-seq
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples shares chromatin, chip-seq
- GSE282760 Epigenomic manipulation reveals the relationship between locus specific chromatin dynamics and gene expression [ChIP-seq] 36 samples shares chromatin, chip-seq
- GSE337829 Integrated single-cell profiling of RNA and DNA interactomes reveals targetable chromatin architectures in cancer [ChIP-Seq] 32 samples shares chromatin, chip-seq
- GSE268035 STAG2 Mutations Reshape the Cohesin-Structured Spatial Chromatin Architecture to Drive Gene Regulation in Acute myeloid Leukemia 541 samples shares chromatin, structure
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples shares chromatin
- GSE327821 Single-molecule, single-cell profiling of linked chromatin states [Single_cell_CoCUT&Tag] 200 samples shares chromatin
- GSE215328 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [hESC_H9_d049_ChIP_Seq] 135 samples shares chromatin
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.