GEO series

RNA-sequencing analysis of wild-type, Lao1 knockout and Lao1/Il4i1 double knockout mice under normal and DSS-treated conditions

GSE312324 Mus musculus (mouse) RNA-seq (gene expression) 18 samples Submitted 2025/12/09 Platform GPL34328

At a glance

RNA-seq (gene expression) · mouse · 18 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: 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.

Summary (written by the submitters)

RNA-sequencing was performed on intestinal tissues from wild-type, Lao1 knockout, and Lao1/Il4i1 double knockout germ-free mice under normal and 24-hour DSS treatment conditions to identify regulators of intestinal stress response. Lao1 controls 80.1% of DSS-induced transcriptional differences, with Il4i1 adding 14.7%. Lao1 mainly regulates oxidative phosphorylation and cell migration pathways, while Il4i1 modulates lipid metabolism and ER stress responses. These findings establish Lao1 and Il4i1 as hierarchical regulators of intestinal stress responses.

This dataset

Open GSE312324 in finder → Find more mouse RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE312324_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1373031 and SRA study SRP650981. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

18 samples, each with a distinct title — no replicated groups

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.

Samples in this study

GSM9343581 WT mouse colon, normal, replicate A
GSM9343582 WT mouse colon, normal, replicate B
GSM9343583 WT mouse colon, normal, replicate C
GSM9343584 LAO1KO mouse colon, normal, replicate A
GSM9343585 LAO1KO mouse colon, normal, replicate B
GSM9343586 LAO1KO mouse colon, normal, replicate C
GSM9343587 DKO mouse colon, normal, replicate A
GSM9343588 DKO mouse colon, normal, replicate B
GSM9343589 DKO mouse colon, normal, replicate C
GSM9343590 WT mouse colon, DSS , replicate A
GSM9343591 WT mouse colon, DSS , replicate B
GSM9343592 WT mouse colon, DSS , replicate C
GSM9343593 LAO1KO mouse colon, DSS, replicate A
GSM9343594 LAO1KO mouse colon, DSS, replicate B
GSM9343595 LAO1KO mouse colon, DSS, replicate C
GSM9343596 DKO mouse colon, DSS, replicate A
GSM9343597 DKO mouse colon, DSS, replicate B
GSM9343598 DKO mouse colon, DSS, replicate C

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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.