Reduction of ZFX levels decreases histone H4 acetylation and increases Pol2 pausing at target promoters
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 74 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
- 74 samples: 54 distinct titles, 12 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.
- Paper
- Reduction of ZFX levels decreases histone H4 acetylation and increases Pol2 pausing at target promotersNucleic acids research · 2024
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 GSE241284_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 PRJNA1007628 and SRA study SRP456120. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 74 sample titles: 54 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.
- GSM7720328 LN-229, siControl, input, Rep1 (USC1503)
- GSM7720329 LN-229, siZNF593, input, Rep1 (USC1505)
- GSM7720330 LN-229, siControl, ZFX, Rep1 (USC1506)
- GSM7720331 LN-229, siZNF593, ZFX, Rep1 (USC1508)
- GSM7720340 LN-229, siControl, input, Rep1 (USC1545)
- GSM7720341 LN-229, siZNF593, input, Rep1 (USC1547)
- GSM7720342 LN-229, siControl, ZFX, Rep1 (USC1548)
- GSM7720343 LN-229, siZNF593, ZFX, Rep1 (USC1550)
- GSM7720344 LN-229, siControl, H3K4me3, Rep1 (USC1553)
- GSM7720345 LN-229, siZFX, H3K4me3, Rep1 (USC1554)
- GSM7720346 LN-229, siControl, input, Rep1 (USC1555)
- GSM7720347 LN-229, siControl, H3K4me3, Rep2 (USC1556)
- GSM7720348 LN-229, siControl, ZNF593, Rep1 (USC1558)
- GSM7720349 LN-229, siControl, input, Rep1 (USC1559)
- GSM7720350 LN-229, siZFX, H3K4me3, Rep2 (USC1560)
- GSM7720351 LN-229, siZFX, ZNF593, Rep1 (USC1562)
- GSM7720352 HEK293T, ZFX, Rep1 (reanalysis)
- GSM7720353 HEK293T, ZFX, Rep2 (reanalysis)
- GSM7720354 HEK293T, DKO, wtZFX (USC1481)
- GSM7720356 HEK293T, DKO, ZFX12_13 (USC1528)
- GSM7720357 HEK293T, DKO, input (USC1563)
- GSM7720370 LN-229, siControl_rep1
- GSM7720371 LN-229, siControl_rep2
- GSM7720372 LN-229, siControl_rep3
- GSM7720373 LN-229, siZFX_rep1
- GSM7720374 LN-229, siZFX_rep2
- GSM7720375 LN-229, siZFX_rep3
- GSM7720376 LN-229, siZNF593_rep1
- GSM7720377 LN-229, siZNF593_rep2
- GSM7720378 LN-229, siZNF593_rep3
- GSM7720379 LN-229, siControl_2_rep1
- GSM7720380 LN-229, siControl_2_rep2
- GSM7720381 LN-229, siControl_2_rep3
- GSM7720382 LN-229, siZFX siZNF593_rep1
- GSM7720383 LN-229, siZFX siZNF593_rep2
- GSM7720384 LN-229, siZFX siZNF593_rep3
- GSM7720385 293T, DKO, wtZFX_rep1
- GSM7720386 293T, DKO, wtZFX_rep2
- GSM7720387 293T, DKO, wtZFX_rep3
- GSM7720388 293T, DKO, pCMV6_rep1
+ 34 more — browse all 74 samples with per-sample file links →
- GSE241273 Reduction of ZFX levels decreases histone H4 acetylation and increases Pol2 pausing at target promoters [ChIP-Seq] 42 samples shares pol2, zfx, acetylation, reduction, decreases, increases, promoters, histone
- GSE241276 Reduction of ZFX levels decreases histone H4 acetylation and increases Pol2 pausing at target promoters [RNA-Seq] 24 samples shares pol2, zfx, acetylation, reduction, decreases, increases, promoters, histone
- GSE277183 RNA Polymerase II coordinates histone deacetylation at active promoters 158 samples shares acetylation, promoters, histone
- GSE6715 DNA methylation, RNA Pol2 binding and H3-K4me2 of human promoters in WI38 primary fibroblasts and sperm cells 11 samples shares pol2, promoters
- GSE326102 Genome-wide histone acetylation underscores tumor intrinsic immune signaling induced by photothermal therapy in ovarian cancer 56 samples shares acetylation, histone
- GSE307716 Small interfering RNA-mediated silencing of mutant NPM1 suppresses acute myeloid leukemia via reversing KAT7 and p300-mediated histone acetylation [CUT&Tag] 52 samples shares acetylation, histone
- GSE287728 BRD2 bridging TFIID and histone acetylation in transcriptional initiation [ChIP-Seq] 50 samples shares acetylation, histone
- GSE220870 METTL3 Promotes Histone H3K9 Acetylation through Recruitment of Histone Acetyltransferase 1 to Chromatin 43 samples shares acetylation, histone
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.