The cohesin release factor WAPL restricts chromatin loop extension.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 63 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
- 63 samples: 55 distinct titles, 7 of them repeatedGroups 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.
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 GSE95015_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 PRJNA375736 and SRA study SRP100152. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 63 sample titles: 55 distinct titles with little repetition. 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.
- GSM2493874 Hap1 IgG ChIPseq
- GSM2493875 WaplKO_3.3 IgG ChIPseq
- GSM2493876 SCC4KO IgG ChIPseq
- GSM2493877 DKO_3.3 IgG ChIPseq
- GSM2493878 Hap1 CTCF ChIPseq
- GSM2493879 WaplKO_3.3 CTCF ChIPseq
- GSM2493880 SCC4KO CTCF ChIPseq
- GSM2493881 DKO_3.3 CTCF ChIPseq
- GSM2493882 Hap1 SMC1 ChIPseq
- GSM2493883 WaplKO_3.3 SMC1 ChIPseq
- GSM2493884 SCC4KO SMC1 ChIPseq
- GSM2493885 DKO_3.3 SMC1 ChIPseq
- GSM2493886 Hap1 rep A1 RNAseq
- GSM2493887 Hap1 rep A2 RNAseq
- GSM2493888 Hap1 rep A3 RNAseq
- GSM2493889 WaplKO_3.3 rep 1 RNAseq
- GSM2493890 WaplKO_3.3 rep 2 RNAseq
- GSM2493891 WaplKO_3.3 rep 3 RNAseq
- GSM2493892 SCC4KO rep 1 RNAseq
- GSM2493893 SCC4KO rep 2 RNAseq
- GSM2493894 SCC4KO rep 3 RNAseq
- GSM2493895 DKO_3.3 rep 1 RNAseq
- GSM2493896 DKO_3.3 rep 2 RNAseq
- GSM2493897 DKO_3.3 rep 3 RNAseq
- GSM2493898 Hap1 rep B1 RNAseq
- GSM2493899 Hap1 rep B2 RNAseq
- GSM2493900 Hap1 rep B3 RNAseq
- GSM2493901 WaplKO_1.14 rep 1 RNAseq
- GSM2493902 WaplKO_1.14 rep 2 RNAseq
- GSM2493903 WaplKO_1.14 rep 3 RNAseq
- GSM2494290 Hap1-A Hi-C
- GSM2494291 WaplKO_3.3-A Hi-C
- GSM2494292 SCC4KO-A Hi-C
- GSM2494293 DKO_3.3-A Hi-C
- GSM2494294 Hap1-B Hi-C
- GSM2494295 WaplKO_3.3-B Hi-C
- GSM2494296 SCC4KO-B Hi-C
- GSM2494297 DKO_3.3-B Hi-C
- GSM2494298 Hap1-C Hi-C
- GSM2494299 WaplKO_3.3-C Hi-C
+ 23 more — browse all 63 samples with per-sample file links →
- GSE268035 STAG2 Mutations Reshape the Cohesin-Structured Spatial Chromatin Architecture to Drive Gene Regulation in Acute myeloid Leukemia 541 samples shares chromatin, cohesin
- GSE196619 Synthetic transcription factor overrides persistent repressive chromatin marks 120 samples shares chromatin, factor
- GSE251898 Decoding the Epigenetics and Chromatin Loop Dynamics of Androgen Receptor-Mediated Transcription 75 samples shares chromatin, loop
- GSE310998 Peripheral blood transcriptomics identifies cohesin–chromatin and immune dysregulation in tics and Tourette syndrome 48 samples shares chromatin, cohesin
- GSE171817 SUMOylation Regulates Super-Enhancers Through Transcription Factor TFAP2C Binding on Chromatin 30 samples shares chromatin, factor
- GSE240343 STAG2 mutations and 3D genome organization, chromatin loops, and polycomb signaling in glioblastoma multiforme 20 samples shares chromatin, loop
- GSE301370 Acute hormonal signaling-induced 3D chromatin loop reorganization controls adipocyte thermogenesis [Micro-C human] 12 samples shares chromatin, loop
- GSE203640 Mesoscale chromatin confinement facilitates target search of pioneer transcription factors in live cells [RNA-seq] 11 samples shares chromatin, factor
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.