Cut&Tag 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 GSE281375_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 PRJNA1183753 and SRA study SRP544029. 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.
- GSM8619461 s11_MK_IP1
- GSM8619462 s12_MK_IP2
- GSM8619463 s13_MK_IP3
- GSM8619464 s15_MK_DSS_IP1
- GSM8619465 s16_MK_DSS_IP2
- GSM8619466 s17_MK_DSS_IP3
- GSM8619467 s19_HK_IP1
- GSM8619468 s20_HK_IP2
- GSM8619469 s21_HK_IP3
- GSM8619470 s23_HK_PNK_IP1
- GSM8619471 s24_HK_PNK_IP2
- GSM8619472 s25_HK_PNK_IP3
- GSM8619473 s3_Control_IP1
- GSM8619474 s4_Control_IP2
- GSM8619475 s5_Control_IP3
- GSM8619476 s7_DSS_IP1
- GSM8619477 s8_DSS_IP2
- GSM8619478 s9_DSS_IP3
- GSE230337 ATAC-Seq based chromatin accessibilty profile 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
- 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
- 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
- GSE310970 Fetal brain RNA-seq of DSS treated or DSS+ Gsdmd-cko 6 samples shares dss, treated
- GSE277899 CUT&RUN sequencing on wildtype HSCs, MPP3s, GMPs, and macrophages with four weeks M. avium infection 36 samples shares gmp
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.