Distinct chromatin accessibility landscape of IgA, IgG, and IgM ASC [ASC.ATACseq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 9 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
- 9 samples: 9 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.
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 GSE314193_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 PRJNA1390249 and SRA study SRP656088. 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 9 sample titles: 9 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.
- GSM9384279 IgA_1 (ATAC-seq)
- GSM9384280 IgM_1 (ATAC-seq)
- GSM9384282 IgG_1 (ATAC-seq)
- GSM9384284 IgA_2 (ATAC-seq)
- GSM9384286 IgM_2 (ATAC-seq)
- GSM9384288 IgG_2 (ATAC-seq)
- GSM9384290 IgA_3 (ATAC-seq)
- GSM9384292 IgM_3 (ATAC-seq)
- GSM9384294 IgG_3 (ATAC-seq)
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares accessibility, chromatin
- GSE249077 Mapping the female mouse chromatin accessibility landscape by UUATAC-seq 23 samples shares accessibility, chromatin
- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares accessibility, chromatin
- 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
- GSE283483 Novel environment exposure drives temporally defined and region-specific chromatin accessibility and gene expression programs in the hippocampus 160 samples shares accessibility, chromatin
- GSE274040 Transcriptional and chromatin accessibility landscapes of hematopoiesis in a mouse model of breast cancer 16 samples shares accessibility, chromatin
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 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.