Architectural protein subclasses shape 3-D organization of genomes during lineage commitment
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
- 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 GSE36203_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 PRJNA152875 and SRA study SRP011234. 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.
+ 7 more — browse all 7 samples with per-sample file links →
- GSE215181 Selective requirement of 3D genomic organization for the Mdm1-Il22-Ifng locus regulation in initial Th1 cell lineage specification and differentiation 135 samples shares organization, lineage
- GSE215177 Selective requirement of 3D genomic organization for the Mdm1-Il22-Ifng locus regulation in initial Th1 cell lineage specification and differentiation 69 samples shares organization, lineage
- GSE215179 Selective requirement of 3D genomic organization for the Mdm1-Il22-Ifng locus regulation in initial Th1 cell lineage specification and differentiation 30 samples shares organization, lineage
- GSE325140 Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [RNA-Seq] 26 samples shares organization, protein
- GSE325142 Phase Separation of DUX Family Proteins Drives Totipotent-like State via 3D Genome Reorganization and Retrotransposon Activation [CUT&Tag] 22 samples shares organization, protein
- GSE215178 Selective requirement of 3D genomic organization for the Mdm1-Il22-Ifng locus regulation in initial Th1 cell lineage specification and differentiation 10 samples shares organization, lineage
- GSE280487 A histone hyperacetylation pulse induces cellular memory of gene expression and 3-dimensional genome folding 116 samples shares 3-d
- GSE280488 A histone hyperacetylation pulse induces cellular memory of gene expression and 3-dimensional genome folding [RNA-seq] 114 samples shares 3-d
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.