3D structures of individual mammalian genomes reveal principles of nuclear organization
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 42 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
- 42 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 GSE80280_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 PRJNA318485 and SRA study SRP073306. 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.
+ 42 more — browse all 42 samples with per-sample file links →
- GSE330298 Lamins gate nuclear and chromatin structures for cardiomyocyte maturation genes. 35 samples shares structures, nuclear
- GSE278721 Low-input genomics screening reveals epigenetic pathways that orchestrate nuclear organization in early mouse embryos. 288 samples shares organization, nuclear
- GSE244496 Establishment of nuclear organization in mouse embryos is regulated by multiple and redundant epigenetic pathways. 183 samples shares organization, nuclear
- GSE262343 Principles of chromosome organization for meiotic recombination 65 samples shares organization, principles
- GSE244952 3D genome organization during TGFB-induced transcription requires nuclear microRNA and G-quadruplexes 25 samples shares organization, nuclear
- GSE330102 Lamins gate nuclear and chromatin structures for cardiomyocyte maturation genes. (CUT&RUN) 18 samples shares structures, nuclear
- GSE273972 3D genome organization during TGFB-induced transcription requires nuclear microRNA and G-quadruplexes [Cut&Tag] 12 samples shares organization, nuclear
- GSE230442 Isogenic comparison of Airn and Xist reveals core principles of Polycomb recruitment by lncRNAs 129 samples shares principles
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.