Nuclear actin structure regulates chromatin accessibility.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 48 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
- Mus musculus (mouse)
- Samples
- 48 samples: 48 samples, each with a distinct title — no replicated groupsGroups 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
- Nuclear actin structure regulates chromatin accessibilityNature communications · 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 GSE242945_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 PRJNA1015586 and SRA study SRP459904. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 48 sample titles: 48 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.
- GSM7775376 MSC, CK666, replicate1, RNA-seq
- GSM7775377 MSC, CK666, replicate2, RNA-seq
- GSM7775378 MSC, CK666, replicate3, RNA-seq
- GSM7775379 MSC, CytoD, replicate1, RNA-seq
- GSM7775380 MSC, CytoD, replicate2, RNA-seq
- GSM7775381 MSC, CytoD, replicate3, RNA-seq
- GSM7775382 MSC, control, replicate1, RNA-seq
- GSM7775383 MSC, control, replicate2, RNA-seq
- GSM7775384 MSC, control, replicate3, RNA-seq
- GSM7775385 MSC, siRNA Arp4, replicate1, RNA-seq
- GSM7775386 MSC, siRNA Arp4, replicate2, RNA-seq
- GSM7775387 MSC, siRNA Arp4, replicate3, RNA-seq
- GSM7775388 MSC, siRNA Arp4 plus CK666, replicate1, RNA-seq
- GSM7775389 MSC, siRNA Arp4 plus CK666, replicate2, RNA-seq
- GSM7775390 MSC, siRNA Arp4 plus CK666, replicate3, RNA-seq
- GSM7775391 MSC, siRNA control, replicate1, RNA-seq
- GSM7775392 MSC, siRNA control, replicate2, RNA-seq
- GSM7775393 MSC, siRNA control, replicate3, RNA-seq
- GSM7775394 MSC, CK666, replicate1, ATAC-seq
- GSM7775395 MSC, CK666, replicate2, ATAC-seq
- GSM7775396 MSC, CK666, replicate3, ATAC-seq
- GSM7775397 MSC, CytoD, replicate1, ATAC-seq
- GSM7775398 MSC, CytoD, replicate2, ATAC-seq
- GSM7775399 MSC, CytoD, replicate3, ATAC-seq
- GSM7775400 MSC, control, replicate1, ATAC-seq
- GSM7775401 MSC, control, replicate2, ATAC-seq
- GSM7775402 MSC, control, replicate3, ATAC-seq
- GSM7775403 MSC, siRNA Arp4, replicate1, ATAC-seq
- GSM7775404 MSC, siRNA Arp4, replicate2, ATAC-seq
- GSM7775405 MSC, siRNA Arp4, replicate3, ATAC-seq
- GSM7775406 MSC, siRNA Arp4 plus CK666, replicate1, ATAC-seq
- GSM7775407 MSC, siRNA Arp4 plus CK666, replicate2, ATAC-seq
- GSM7775408 MSC, siRNA Arp4 plus CK666, replicate3, ATAC-seq
- GSM7775409 MSC, siRNA control, replicate1, ATAC-seq
- GSM7775410 MSC, siRNA control, replicate2, ATAC-seq
- GSM7775411 MSC, siRNA control, replicate3, ATAC-seq
- GSM8195914 MSC, CK666, 4hrs, replicate1, ATAC-seq
- GSM8195915 MSC, CK666, 4hrs, replicate2, ATAC-seq
- GSM8195916 MSC, CK666, 4hrs, replicate3, ATAC-seq
- GSM8195917 NIH3T3, CK666, 4hrs, replicate1, ATAC-seq
+ 8 more — browse all 48 samples with per-sample file links →
- GSE279796 Setdb1 regulates proper differentiation of adult intestinal stem cells via restraining permissive chromatin structure and transcriptional variability 18 samples shares structure, chromatin
- GSE283483 Novel environment exposure drives temporally defined and region-specific chromatin accessibility and gene expression programs in the hippocampus 160 samples shares accessibility, chromatin
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 samples shares accessibility, chromatin
- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares accessibility, chromatin
- GSE309545 Inflammatory signaling differentially changes chromatin accessibility and gene expression of the PD-associated kinase LRRK2 between human and mice [multiome mouse] 64 samples shares accessibility, chromatin
- GSE240860 Hmgb2 improves astrocyte to neuron conversion by increasing the chromatin accessibility of genes associated with neuronal maturation in a proneuronal factor-dependent manner 54 samples shares accessibility, chromatin
- GSE327304 Transcriptomic characterization of Wild type mouse Embryonic Stem Cells (mESCs), β-actin Knock out mESC and upon rescue with a nuclear localization signal β-actin 45 samples shares nuclear, actin
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares accessibility, 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.