GEO series

Gene expression signature of liver of mice with and without functional NNT

GSE313717 Mus musculus (mouse) RNA-seq (gene expression) 40 samples Submitted 2025/12/15 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 40 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: 40 samples: 8 conditions, mostly with about 5 replicates eachGroups 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)

Global RNA sequencing analysis of liver of chow and high-fat diet fed WT and NNT KO mice (both sexes)

This dataset

Open GSE313717 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 GSE313717_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 PRJNA1381479 and SRA study SRP655165. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

8 conditions, mostly with about 5 replicates each

WT, female, chow diet, ×5 KO, female, chow diet, ×5 WT, female, HFD diet, ×5 KO, female, HFD diet, ×5 WT, male, chow diet, ×5 KO, male, chow diet, ×5 WT, male, HFD diet, ×5 KO, male, HFD diet, ×5

Supports a between-group comparison across 40 samples.

How we read this: 8 replicated groups read from 40 sample titles; they account for 40 of them. 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

GSM9372984 WT, female, chow diet, Rep1 WT, female, chow diet,
GSM9372985 WT, female, chow diet, Rep2 WT, female, chow diet,
GSM9372986 WT, female, chow diet, Rep3 WT, female, chow diet,
GSM9372987 WT, female, chow diet, Rep4 WT, female, chow diet,
GSM9372988 WT, female, chow diet, Rep5 WT, female, chow diet,
GSM9372989 KO, female, chow diet, Rep1 KO, female, chow diet,
GSM9372990 KO, female, chow diet, Rep2 KO, female, chow diet,
GSM9372991 KO, female, chow diet, Rep3 KO, female, chow diet,
GSM9372992 KO, female, chow diet, Rep4 KO, female, chow diet,
GSM9372993 KO, female, chow diet, Rep5 KO, female, chow diet,
GSM9372994 WT, female, HFD diet, Rep1 WT, female, HFD diet,
GSM9372995 WT, female, HFD diet, Rep2 WT, female, HFD diet,
GSM9372996 WT, female, HFD diet, Rep3 WT, female, HFD diet,
GSM9372997 WT, female, HFD diet, Rep4 WT, female, HFD diet,
GSM9372998 WT, female, HFD diet, Rep5 WT, female, HFD diet,
GSM9372999 KO, female, HFD diet, Rep1 KO, female, HFD diet,
GSM9373000 KO, female, HFD diet, Rep2 KO, female, HFD diet,
GSM9373001 KO, female, HFD diet, Rep3 KO, female, HFD diet,
GSM9373002 KO, female, HFD diet, Rep4 KO, female, HFD diet,
GSM9373003 KO, female, HFD diet, Rep5 KO, female, HFD diet,
GSM9373004 WT, male, chow diet, Rep1 WT, male, chow diet,
GSM9373005 WT, male, chow diet, Rep2 WT, male, chow diet,
GSM9373006 WT, male, chow diet, Rep3 WT, male, chow diet,
GSM9373007 WT, male, chow diet, Rep4 WT, male, chow diet,
GSM9373008 WT, male, chow diet, Rep5 WT, male, chow diet,
GSM9373009 KO, male, chow diet, Rep1 KO, male, chow diet,
GSM9373010 KO, male, chow diet, Rep2 KO, male, chow diet,
GSM9373011 KO, male, chow diet, Rep3 KO, male, chow diet,
GSM9373012 KO, male, chow diet, Rep4 KO, male, chow diet,
GSM9373013 KO, male, chow diet, Rep5 KO, male, chow diet,
GSM9373014 WT, male, HFD diet, Rep1 WT, male, HFD diet,
GSM9373015 WT, male, HFD diet, Rep2 WT, male, HFD diet,
GSM9373016 WT, male, HFD diet, Rep3 WT, male, HFD diet,
GSM9373017 WT, male, HFD diet, Rep4 WT, male, HFD diet,
GSM9373018 WT, male, HFD diet, Rep5 WT, male, HFD diet,
GSM9373019 KO, male, HFD diet, Rep1 KO, male, HFD diet,
GSM9373020 KO, male, HFD diet, Rep2 KO, male, HFD diet,
GSM9373021 KO, male, HFD diet, Rep3 KO, male, HFD diet,
GSM9373022 KO, male, HFD diet, Rep4 KO, male, HFD diet,
GSM9373023 KO, male, HFD diet, Rep5 KO, male, HFD diet,

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