CTCF/RAD21 organize the ground state of chromatin-nuclear speckle association
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 135 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
- 135 samples
- 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
- CTCF/RAD21 organize the ground state of chromatin-nuclear speckle associationNature structural & molecular biology · 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 GSE248103_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 PRJNA1041777 and SRA study SRP510683. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 135 more — browse all 135 samples with per-sample file links →
- GSE273618 CTCF/cohesin organize the ground state of chromatin-nuclear speckle association [hela rad21-aid RNA-seq] 12 samples shares rad21, ctcf, chromatin-nuclear, organize, speckle, ground, state
- GSE248102 CTCF/cohesin organize the ground state of chromatin-nuclear speckle association [RNA-Seq] 59 samples shares ctcf, chromatin-nuclear, organize, speckle, ground, state
- GSE248043 CTCF/cohesin organize the ground state of chromatin-nuclear speckle association [CUT&RUN] 40 samples shares ctcf, chromatin-nuclear, organize, speckle, ground, state
- GSE268622 CTCF/cohesin organize the ground state of chromatin-nuclear speckle association [CUT&RUN, CUT&Tag and RNA-seq] 24 samples shares ctcf, chromatin-nuclear, organize, speckle, ground, state
- GSE217760 DNA methylation insulates exons from CTCF loops with nuclear speckles 99 samples shares ctcf, speckle
- GSE217752 DNA methylation insulates exons from CTCF loops with nuclear speckles (ChiP-Seq) 39 samples shares ctcf, speckle
- GSE284194 Senescent cells cluster CTCF on nuclear speckles to sustain their splicing program 34 samples shares ctcf, speckle
- GSE217759 DNA methylation insulates exons from CTCF loops with nuclear speckles (RNA-Seq) 30 samples shares ctcf, speckle
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.