A comparative encyclopedia of DNA elements in the mouse genome
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 588 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
- 588 samples
- 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.
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 GSE49847_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 PRJNA215099. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 588 more — browse all 588 samples with per-sample file links →
- GSE262157 Comparative analysis of mouse strains for in vivo induction of reprogramming factors 96 samples shares comparative
- GSE294558 Derepression of transposable elements in mouse prefrontal cortex disrupts social behavior 74 samples shares elements
- GSE272152 Optimizing murine sample sizes for RNA-seq studies revealed from large-scale comparative analysis 479 samples shares comparative
- GSE284053 Comparative transcriptomic rhythms in the mouse and human prefrontal cortex 59 samples shares comparative
- GSE223050 The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1–linked chromatin opening 336 samples shares elements
- GSE255089 Nucleosomal and subnucleosomal organization of transcription cis-regulatory elements in mouse embryonic stem cells (chip-seq gradient) 42 samples shares elements
- GSE205592 Obesity-instructed TREM2-high macrophages identified by comparative analysis of diabetic mouse and human kidney at single-cell resolution [scRNA-seq: DKD_mouse] 41 samples shares comparative
- GSE300519 Neurotoxicity, α-Synuclein Pathology, and Mitochondrial Dysfunction: A Comparative Study of Three Parkinson’s Disease Mouse Models 35 samples shares comparative
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.