OTUD3 prevents ulcerative colitis by modulating microbiota-mediated STING activation.
RNA-seq (gene expression) · mouse · 14 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 14 samples: 14 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
- OTUD3 prevents ulcerative colitis by inhibiting microbiota-mediated STING activationScience immunology · 2025
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 GSE244081_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1021199 and SRA study SRP463239. 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 14 sample titles: 14 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.
- GSM7806286 Wild-type_colon_fibroblasts [GA05768]
- GSM7806287 Otud3_colon_fibroblasts [GA05769]
- GSM7806288 control [GA30573]
- GSM7806289 cGAMP [GA30574]
- GSM7806290 DCPIB [GA30575]
- GSM7806291 sulfasalazine [GA30576]
- GSM7806292 control [GA43158]
- GSM7806293 cGAMP [GA43159]
- GSM7806294 DCPIB [GA43160]
- GSM7806295 A740003 [GA43161]
- GSM7806296 1_ff [GA35464 scRNA-seq]
- GSM7806297 2_ff_cre [GA35465 scRNA-seq]
- GSM7806298 Otud3_ff_DSS [GA40620 scRNA-seq]
- GSM7806299 cKO_DSS [GA40621 scRNA-seq]
- GSE253734 The miR-29-IFN-γ-JAK-STAT axis attenuates CD8+ T cell overactivation and differentiation in ulcerative colitis, and delivery of mimics in LMSH-CS hydrogel reduces colitis in mice 14 samples shares ulcerative, activation, colitis
- GSE331176 Phagosome-mediated activation of STING by purine and pyrimidine-based bacterial cyclic dinucleotides 380 samples shares sting, activation
- GSE253848 Mechano-oncogenic cytoskeletal remodeling drives leukemic transformation with mitochondrial vesicle-mediated STING activation 54 samples shares sting, activation
- GSE217803 ARID1A suppresses R-loop mediated STING-Type I Interferon pathway activation of anti-tumor immunity (RNA-Seq) 46 samples shares sting, activation
- GSE313021 STING–IFN–CH25H lipid axis links innate immune activation to tau pathology [scRNA-seq] 16 samples shares sting, activation
- GSE217807 ARID1A suppresses R-loop mediated STING-Type I Interferon pathway activation of anti-tumor immunity 62 samples shares sting, activation
- GSE292063 Pre-existing epigenetic state and differential NF-kB activation shape type 2 immune cell responses 61 samples shares sting, activation
- GSE299286 Exploring the inhibitory mechanism of DSS-induced ulcerative colitis by Banxia Xiexin Decoctionthrough the combination of serumpharmacochemistry, networkpharmacology, and transcriptomics. 12 samples shares ulcerative, colitis
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.