Changes in sites of open chromatin in muscle stem cells that occur upon knockout of TRF2
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 7 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
- 7 samples: 2 × TRF2 vs 2 × Control-ATAC-seq-MuSCs_0h vs 2 × TRF2KO-ATAC-seq-MuSCs_0hGroups 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
- TRF2 couples muscle stem cell identity to regenerative repairScience advances · 2026
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 GSE264045_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 PRJNA1100596 and SRA study SRP501921. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 3 replicated groups read from 7 sample titles; they account for 6 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.
- GSM8209139 IgG
- GSM8209140 TRF2 Rep 1 TRF2
- GSM8209141 TRF2 Rep 2 TRF2
- GSM9609646 Control-ATAC-seq-MuSCs_0hr_1 Control-ATAC-seq-MuSCs_…
- GSM9609647 Control-ATAC-seq-MuSCs_0hr_2 Control-ATAC-seq-MuSCs_…
- GSM9609648 TRF2KO-ATAC-seq-MuSCs_0hr_1 TRF2KO-ATAC-seq-MuSCs_0h
- GSM9609649 TRF2KO-ATAC-seq-MuSCs_0hr_2 TRF2KO-ATAC-seq-MuSCs_0h
- GSE292285 Depletion of lamin-associated polypeptide 2 alpha leads to chromatin reorganization and redistribution of A-type lamins to open genomic regions [ChIP-seq] 22 samples shares chromatin, open
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 samples shares chromatin, muscle
- GSE266882 Analysis of gastrocnemius muscle transcriptome from chow fed control and skeletal muscle HuR knockout mice with and without voluntary wheel running 56 samples shares knockout, muscle
- GSE315829 Investigate changes in gene expression and enriched pathways in endothelial cells following Liver endothelial Heg1 knockout. 13 samples shares knockout, changes
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares chromatin
- GSE272524 Chromatin-dependent motif syntax defines differentiation trajectories [ChIP-seq] 76 samples shares chromatin
- GSE294085 SIRT6 Overexpression Counteracts Chromatin Aging [ChIP-Seq] 74 samples shares chromatin
- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares 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.