Gene expression profiles of WT and epithlial GSDMD ko mouse intestine [bulk RNA-seq]
RNA-seq (gene expression) · mouse · 30 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
- 30 samples: 30 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
- Gasdermin-D-mediated epithelial-immune circuit synchronizes nutrient absorption and host defense in the small intestineImmunity · 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 GSE289523_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 PRJNA1223370 and SRA study SRP563714. 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 30 sample titles: 30 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.
- GSM8793292 duodenum1_WT
- GSM8793293 duodenum2_WT
- GSM8793294 duodenum3_WT
- GSM8793295 duodenum1_GSDMD_CKO
- GSM8793296 duodenum2_GSDMD_CKO
- GSM8793297 duodenum3_GSDMD_CKO
- GSM8793298 jejunum1_WT
- GSM8793299 jejunum2_WT
- GSM8793300 jejunum3_WT
- GSM8793301 jejunum1_GSDMD_CKO
- GSM8793302 jejunum2_GSDMD_CKO
- GSM8793303 jejunum3_GSDMD_CKO
- GSM8793304 ileum1_WT
- GSM8793305 ileum2_WT
- GSM8793306 ileum3_WT
- GSM8793307 ileum1_GSDMD_CKO
- GSM8793308 ileum2_GSDMD_CKO
- GSM8793309 ileum3_GSDMD_CKO
- GSM8793310 proximal colon1_WT
- GSM8793311 proximal colon2_WT
- GSM8793312 proximal colon3_WT
- GSM8793313 proximal colon1_GSDMD_CKO
- GSM8793314 proximal colon2_GSDMD_CKO
- GSM8793315 proximal colon3_GSDMD_CKO
- GSM8793316 distal colon1_WT
- GSM8793317 distal colon2_WT
- GSM8793318 distal colon3_WT
- GSM8793319 distal colon1_GSDMD_CKO
- GSM8793320 distal colon2_GSDMD_CKO
- GSM8793321 distal colon3_GSDMD_CKO
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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.