The spectrum and regulatory landscapes of intestinal innate lymphoid cells are shaped by the microbiome
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 106 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
- 106 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 GSE85157_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 PRJNA336350 and SRA study SRP080956. 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.
+ 106 more — browse all 106 samples with per-sample file links →
- GSE328363 Developmental dynamics of the cortical cellular and molecular landscapes in autism spectrum disorder models 135 samples shares landscapes, spectrum
- GSE262065 A small intestinal bile acid modulates the gut microbiome to improve host metabolic phenotypes following bariatric surgery 10 samples shares intestinal, microbiome
- GSE274081 A distinct cis-regulatory element is required for ILC3s to maintain intestinal tolerance through amplifying RORγt expression [scRNA-seq] 2 samples shares regulatory, intestinal
- GSE217664 Decoding Trp53 regulatory program in various tissues and organs 404 samples shares regulatory
- GSE223050 The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1–linked chromatin opening 336 samples shares regulatory
- GSE318069 eIF4G2-mediated Translation Initiation of Histone Modifiers is Essential for Intestinal Stem Cell Maintenance and Differentiation 145 samples shares intestinal
- GSE254090 A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders 87 samples shares regulatory
- GSE252463 Interpreting regulatory mechanisms of Hippo signaling through a deep learning sequence model 59 samples shares regulatory
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.