Mapping the female mouse chromatin accessibility landscape by UUATAC-seq
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 23 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
- 23 samples: 23 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
- Modeling the vertebrate regulatory sequence landscape by UUATAC-seq and deep learningCell · 2025
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 GSE249077_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 PRJNA1047138 and SRA study SRP475158. 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 23 sample titles: 23 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.
- GSM7926047 UUATAC-seq datasets of MouseFemale_Cerebellum
- GSM7926048 UUATAC-seq datasets of MouseFemale_Kidney
- GSM7926049 UUATAC-seq datasets of MouseFemale_Lung
- GSM7926050 UUATAC-seq datasets of MouseFemale_Spleen
- GSM7926051 UUATAC-seq datasets of MouseFemale_Thymus
- GSM8012867 UUATAC-seq datasets of MouseFemale_AdrenalGland
- GSM8012868 UUATAC-seq datasets of MouseFemale_Bladder
- GSM8012869 UUATAC-seq datasets of MouseFemale_BoneMarrow
- GSM8012870 UUATAC-seq datasets of MouseFemale_BrainStem
- GSM8012871 UUATAC-seq datasets of MouseFemale_Heart
- GSM8012872 UUATAC-seq datasets of MouseFemale_Hypothalamus
- GSM8012873 UUATAC-seq datasets of MouseFemale_LargeIntestine
- GSM8012874 UUATAC-seq datasets of MouseFemale_Liver
- GSM8012875 UUATAC-seq datasets of MouseFemale_LymphNode
- GSM8012876 UUATAC-seq datasets of MouseFemale_Muscle
- GSM8012877 UUATAC-seq datasets of MouseFemale_Ovary
- GSM8012878 UUATAC-seq datasets of MouseFemale_Pancreas
- GSM8012879 UUATAC-seq datasets of MouseFemale_Pituitary
- GSM8012880 UUATAC-seq datasets of MouseFemale_SmallIntestine
- GSM8012881 UUATAC-seq datasets of MouseFemale_SpinalCord
- GSM8012882 UUATAC-seq datasets of MouseFemale_Stomach
- GSM8012883 UUATAC-seq datasets of MouseFemale_Telencephalon
- GSM8012884 UUATAC-seq datasets of MouseFemale_Uterus
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares accessibility, uuatac-seq, chromatin, mapping
- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares accessibility, chromatin
- GSE310322 Mapping self-associating chromatin hubs identifies Id proteins as key determinants of exhausted T cell fate 37 samples shares chromatin, mapping
- GSE246986 Ki67-mediated chromatin accessibility impedes B-cell antigen-receptor gene rearrangement 24 samples shares accessibility, chromatin
- GSE342565 Chromatin accessibility profiling of high endothelial cells (HECs) from mouse peripheral lymph node and Peyer's patch by ATAC-seq 2 samples shares accessibility, chromatin
- GSE274040 Transcriptional and chromatin accessibility landscapes of hematopoiesis in a mouse model of breast cancer 16 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
- GSE283483 Novel environment exposure drives temporally defined and region-specific chromatin accessibility and gene expression programs in the hippocampus 160 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.