← BioTransfer GEO Dataset Finder
GEO series

Inflammatory Memory in Epidermal Stem Cells Accelerates Tissue Damage Responses

GSE92967 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 28 samples Submitted 2017/08/28 Platform GPL17021Platform GPL21103
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 28 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
28 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.
Summary (written by the submitters)
The body’s first line of defense against environmental assaults, the skin’s barrier, is maintained by epidermal stem cells (EpdSCs). Despite EpdSC’s vulnerability to inflammatory pressures, neither their primary response nor its enduring consequences are understood. Here, we unearth a prolonged memory to acute inflammation that enables EpdSCs to hasten barrier restoration following subsequent tissue damage.
Read the full summary ↓
This functional adaptation does not require resident skin T cells. Rather, EpdSCs maintain chromosomal accessibility at key regions activated by the primary stimulus. Upon secondary challenge, genes regulated by these domains are rapidly transcribed. Aim2, encoding an activator of the inflammasome, is at the crux of this memory as blocking the AIM2 effector Caspase-1 erases inflammation-exposed EpdSC’s recollection. The inflammatory tuning of EpdSCs has significant therapeutic implications: while enabling EpdSCs to cope with recurrent stress by enhancing their barrier repair capabilities, it may also render them more susceptible to autoimmune and hyperproliferative disorders, including cancer.
This dataset
Open GSE92967 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE92967_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA359188 and SRA study SRP095734. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 29045388) ↗
Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 28 more — browse all 28 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

Share this dataset

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.