Type III interferons induce pyroptosis in gut epithelial cells and delay tissue restitution upon acute intestinal injury.
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 16 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.
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 GSE247149_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 PRJNA1036441 and SRA study SRP470489. 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 16 sample titles: 16 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.
- GSM7884376 Chip_001_011-NT-WT
- GSM7884377 Chip_001_012-NT-WT
- GSM7884378 Chip_001_013-NT-WT
- GSM7884379 Chip_001_014-NT-WT
- GSM7884380 Chip_001_111-NT-KO
- GSM7884381 Chip_001_112-NT-KO
- GSM7884382 Chip_001_113-NT-KO
- GSM7884383 Chip_001_114-NT-KO
- GSM7884384 Chip_002_026-IFN-WT
- GSM7884385 Chip_002027-IFN-WT
- GSM7884386 Chip_002028-IFN-WT
- GSM7884387 Chip_002029-IFN-WT
- GSM7884388 Chip_002121-IFN-KO
- GSM7884389 Chip_002122-IFN-KO
- GSM7884390 Chip_002123-IFN-KO
- GSM7884391 Chip_002124-IFN-KO
- GSE277150 Type III interferons induce pyroptosis in gut epithelial cells and impair tissue repair upon intestinal injury. 8 samples shares iii, interferons, pyroptosis, epithelial, intestinal, induce, injury
- GSE341526 Atractylenolide III Alleviates Cisplatin-Induced Acute Liver Injury by Regulating Gut-Liver Axis Through Inhibiting ACT1/TRAF6/NF-κB-Mediated IL-17 Pathway 9 samples shares iii, induce, injury
- GSE308130 Oncogenic MAPK signalling induces epithelial cell state change and therapeutic resistance in vivo III 1 samples shares iii, epithelial, induce
- GSE287098 Influenza virus-induced type I interferons disrupt alveolar epithelial repair and tight junction integrity in the developing lung 96 samples shares interferons, epithelial, induce
- GSE334138 Cardiotoxin from Naja atra Activates the NLRP3/Caspase-1/GSDMD Pyroptosis Pathway to Induce Skin Tissue Injury 16 samples shares pyroptosis, induce, injury
- GSE282594 Pseudorabies virus induces Natural killer cell depletion by GSDMD-mediated inflammation and pyroptosis to promote infection and lung injury 8 samples shares pyroptosis, induce, injury
- GSE283560 Fate mapping of peripherally derived macrophages reveals a long-lasting engrafted population that maintains a distinct transcriptomic profile for up to 8 months after Traumatic Brain Injury III 65 samples shares iii, injury
- GSE299877 N-acetyl-L-cysteine ethyl ester (NACET) induces the transcription factor NRF2 in the retina and prevents its aging and diabetic retinopathy. [III] 20 samples shares iii, induce
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.