ATAC-Seq based chromatin accessibilty profile of GMP from mice treated with DSS, HK-EF or its excipient.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 18 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
- 18 samples: 18 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.
- Paper
- Microbiota translocation following intestinal barrier disruption promotes Mincle-mediated training of myeloid progenitors in the bone marrowImmunity · 2025
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 GSE230337_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 PRJNA960626 and SRA study SRP433899. 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 18 sample titles: 18 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.
- GSM7217046 s1_CT1
- GSM7217047 s2_CT2
- GSM7217048 s3_CT3
- GSM7217049 s4_iv1
- GSM7217050 s5_iv2
- GSM7217051 s6_iv3
- GSM7217052 s11_CT4
- GSM7217053 s12_CT5
- GSM7217054 s13_CT6
- GSM7217055 s14_DSS1
- GSM7217056 s15_DSS2
- GSM7217057 s16_DSS3
- GSM7217058 s17_MO1
- GSM7217059 s18_MO2
- GSM7217060 s19_MO3
- GSM7217061 s20_MIN1
- GSM7217062 s21_MIN2
- GSM7217063 s22_MIN3
- GSE281375 Cut&Tag of GMP from mice treated with DSS, HK-EF or its excipient. 18 samples shares hk-ef, gmp, dss, excipient, treated
- GSE281376 RNAseq of GMP from mice treated with DSS, HK-EF or its excipient. 18 samples shares hk-ef, gmp, dss, excipient, treated
- GSE333943 The effect of Intestinal epithelial GSK3B loss on chromatin accessibility in the AOM/DSS-induced colon cancer model 4 samples shares dss, chromatin
- GSE233491 Bulk TCR-sequencing of various tissues in mice treated with 2% DSS or H2O control. 45 samples shares dss, treated
- GSE312324 RNA-sequencing analysis of wild-type, Lao1 knockout and Lao1/Il4i1 double knockout mice under normal and DSS-treated conditions 18 samples shares dss, treated
- GSE327232 Transcriptomic profiling of splenic CD4+ T cells in DSS-induced colitis mice treated with Akkermansia muciniphila 6 samples shares dss, treated
- GSE310970 Fetal brain RNA-seq of DSS treated or DSS+ Gsdmd-cko 6 samples shares dss, treated
- GSE278437 Gene expression profile at single cell level of intraepithelial neutrophils (IENs) and lamina propria neutrophils (LPNs) of the colon from dextran sulfate sodium (DSS)-treated mice 4 samples shares dss, treated
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.