Epigenome and transcriptome of naive pluripotent mouse embryonic stem (ES) cells cultured in 2i serum-free medium
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 41 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
- 41 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.
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 GSE23943_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 PRJNA130405 and SRA study SRP003412. 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.
+ 41 more — browse all 41 samples with per-sample file links →
- GSE262193 TASOR expression in naive embryonic stem cells safeguards their developmental potential [ATAC-seq] 14 samples shares embryonic, naive, stem
- GSE333520 The flame retardant triphenyl phosphate induces varying responses in genetically diverse mouse induced pluripotent stem cells 436 samples shares pluripotent, stem
- GSE202079 Short term perturbation of mouse embryonic stem cells with morphogens and small molecule compounds 208 samples shares embryonic, stem
- GSE272452 Generation of germinal-vesicle oocytes from mouse embryonic stem cells under an ovarian soma-free condition 202 samples shares embryonic, stem
- GSE285231 Systems genetics reveals the influence of eQTLs in mouse embryonic stem cells on transcriptional variation later in differentiated neural progenitor cells 186 samples shares embryonic, stem
- GSE271800 Diploid embryo complementation of embryonic stem cells efficiently generates a homozygous Gjb2 mutant deaf mouse model 131 samples shares embryonic, stem
- GSE252199 Quantification of subcellular mRNA kinetics in mouse embryonic stem cells 100 samples shares embryonic, stem
- GSE292289 H3K79 methylation and H3K36 trimethylation synergistically regulate gene expression in pluripotent stem cells 94 samples shares pluripotent, stem
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.