Super-silencer perturbation by EZH2 and REST inhibition leads to large loss of chromatin interactions and reduction in cancer growth [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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
- 18 samples: 9 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
- Super-silencer perturbation by EZH2 and REST inhibition leads to large loss of chromatin interactions and reduction in cancer growthNature 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 GSE193481_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 PRJNA796335 and SRA study SRP354552. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 18 sample titles; they account for 18 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.
- GSM5808349 S1KO H3K27ac rep1 S1KO H3K27ac
- GSM5808350 S1KO input DNA rep1 S1KO input DNA
- GSM5808351 S1KO H3K27me3 rep1 S1KO H3K27me3
- GSM5808352 S1KO H3K27ac rep2 S1KO H3K27ac
- GSM5808353 S1KO input DNA rep2 S1KO input DNA
- GSM5808354 S1KO H3K27me3 rep2 S1KO H3K27me3
- GSM5808355 EV H3K27ac rep1 EV H3K27ac
- GSM5808356 EV input DNA rep1 EV input DNA
- GSM5808357 EV H3K27me3 rep1 EV H3K27me3
- GSM5808358 EV H3K27ac rep2 EV H3K27ac
- GSM5808359 EV input DNA rep2 EV input DNA
- GSM5808360 EV H3K27me3 rep2 EV H3K27me3
- GSM5808367 DKO H3K27ac rep1 DKO H3K27ac
- GSM5808368 DKO input DNA rep1 DKO input DNA
- GSM5808369 DKO H3K27me3 rep1 DKO H3K27me3
- GSM5808370 DKO H3K27ac rep2 DKO H3K27ac
- GSM5808371 DKO input DNA rep2 DKO input DNA
- GSM5808372 DKO H3K27me3 rep2 DKO H3K27me3
- GSE193413 Super-silencer perturbation by EZH2 and REST inhibition leads to large loss of chromatin interactions and reduction in cancer growth [Hi-C] 28 samples shares ezh2, rest, super-silencer, perturbation, interactions, inhibition, chromatin, reduction
- GSE237951 Inhibition of EZH2 restores normal expression of genes associated with cysteine metabolism and ferroptosis in hepatocellular carcinoma [RNA-seq] 8 samples shares ezh2, rest, inhibition
- GSE290342 Caloric restriction mimetic 2-deoxyglucose alters metabolic and transcriptomic phenotype in association with changes in chromatin accessibility in human astrocytes [ATAC-Seq] 12 samples shares rest, chromatin
- GSE278549 PBAF associates with repressed chromatin to enable REST occupancy 61 samples shares rest, chromatin
- GSE235534 BRG1 establishes the neuroectodermal chromatin landscape to restrict dorsal cell fates 41 samples shares rest, chromatin
- GSE297335 ABHD18 is essential for cardiolipin remodeling and its inhibition restores mitochondrial function in Barth Syndrome [RNA-Seq] 18 samples shares rest, inhibition
- GSE252382 ATACseq of TNBC cell lines treated with EZH2i (tazemetostat) and/or AKTi (ipatasertib) 84 samples shares ezh2
- GSE260852 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [ChIP-seq] 68 samples shares rest
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.