GEO series

Organ-Specific Transcriptional and Metabolic Remodelling During Late Mouse Adolescence

GSE337595 Mus musculus (mouse) RNA-seq (gene expression) 36 samples Submitted 2026/07/15 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 36 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: 36 samples: 9 conditions, mostly with about 4 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)

Mouse models aimed at deciphering human aging have typically focused on early development or late-life stages. Much less is known about the transition from late adolescence to young adulthood, spanning 8 to 12 weeks of age. Here, we show that C57Bl6 mice undergo a comprehensive developmental transition characterized by significant transcriptional and metabolic reprogramming during this time.

Read the full summary ↓

Transcriptional analysis revealed substantial, organ-specific changes: the heart shifts toward a maintenance-focused phenotype with down-regulated oxidative phosphorylation (OXPHOS) and increased expression of genes supporting structural remodeling. Conversely, the kidney adopts an immunologically active state, reflecting progressive immune cell colonization, while the liver shifts from a hematopoietic role to one dominated by lipid metabolism, detoxification, and ketogenesis. These transcriptional changes correspond to a coherent metabolic maturation driven by the gut-liver axis. Intestinal maturation enhances lipid absorption and microbial fermentation, leading to increased circulating levels of short-chain fatty acids, poly-unsaturated glycerolipids, and sphingomyelins. Elevated hepatic production of ketone bodies, driven by up-regulated fatty acid metabolism genes, provides an efficient alternative energy substrate for peripheral tissues like the heart. Urinary metabolite profiles, marked by increased acylglycines and tricarboxylic acid (TCA) cycle intermediates, further confirm heightened mitochondrial energy turnover and fatty acid beta-oxidation. Collectively, this coordinated maturation from 8 to 12 weeks signifies the transition from a highly plastic developmental state to a stable, energy-efficient, and metabolically flexible adult phenotype.

This dataset

Open GSE337595 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 GSE337595_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 PRJNA1490470 and SRA study SRP715456. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

9 conditions, mostly with about 4 replicates each

Heart, 8 weeks, ×4 Heart, 10 weeks, ×4 Heart, 12 weeks, ×4 Kidney, 8 weeks, ×4 Kidney, 10 weeks, ×4 Kidney, 12 weeks, ×4 Liver, 8 weeks, ×4 Liver, 10 weeks, ×4 +1 more

Supports a between-group comparison across 36 samples.

How we read this: 9 replicated groups read from 36 sample titles; they account for 36 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

GSM9858428 Heart, 8 weeks, replicate 1 Heart, 8 weeks,
GSM9858429 Heart, 8 weeks, replicate 2 Heart, 8 weeks,
GSM9858430 Heart, 8 weeks, replicate 3 Heart, 8 weeks,
GSM9858431 Heart, 8 weeks, replicate 4 Heart, 8 weeks,
GSM9858432 Heart, 10 weeks, replicate 1 Heart, 10 weeks,
GSM9858433 Heart, 10 weeks, replicate 2 Heart, 10 weeks,
GSM9858434 Heart, 10 weeks, replicate 3 Heart, 10 weeks,
GSM9858435 Heart, 10 weeks, replicate 4 Heart, 10 weeks,
GSM9858436 Heart, 12 weeks, replicate 1 Heart, 12 weeks,
GSM9858437 Heart, 12 weeks, replicate 2 Heart, 12 weeks,
GSM9858438 Heart, 12 weeks, replicate 3 Heart, 12 weeks,
GSM9858439 Heart, 12 weeks, replicate 4 Heart, 12 weeks,
GSM9858440 Kidney, 8 weeks, replicate 1 Kidney, 8 weeks,
GSM9858441 Kidney, 8 weeks, replicate 2 Kidney, 8 weeks,
GSM9858442 Kidney, 8 weeks, replicate 3 Kidney, 8 weeks,
GSM9858443 Kidney, 8 weeks, replicate 4 Kidney, 8 weeks,
GSM9858444 Kidney, 10 weeks, replicate 1 Kidney, 10 weeks,
GSM9858445 Kidney, 10 weeks, replicate 2 Kidney, 10 weeks,
GSM9858446 Kidney, 10 weeks, replicate 3 Kidney, 10 weeks,
GSM9858447 Kidney, 10 weeks, replicate 4 Kidney, 10 weeks,
GSM9858448 Kidney, 12 weeks, replicate 1 Kidney, 12 weeks,
GSM9858449 Kidney, 12 weeks, replicate 2 Kidney, 12 weeks,
GSM9858450 Kidney, 12 weeks, replicate 3 Kidney, 12 weeks,
GSM9858451 Kidney, 12 weeks, replicate 4 Kidney, 12 weeks,
GSM9858452 Liver, 8 weeks, replicate 1 Liver, 8 weeks,
GSM9858453 Liver, 8 weeks, replicate 2 Liver, 8 weeks,
GSM9858454 Liver, 8 weeks, replicate 3 Liver, 8 weeks,
GSM9858455 Liver, 8 weeks, replicate 4 Liver, 8 weeks,
GSM9858456 Liver, 10 weeks, replicate 1 Liver, 10 weeks,
GSM9858457 Liver, 10 weeks, replicate 2 Liver, 10 weeks,
GSM9858458 Liver, 10 weeks, replicate 3 Liver, 10 weeks,
GSM9858459 Liver, 10 weeks, replicate 4 Liver, 10 weeks,
GSM9858460 Liver, 12 weeks, replicate 1 Liver, 12 weeks,
GSM9858461 Liver, 12 weeks, replicate 2 Liver, 12 weeks,
GSM9858462 Liver, 12 weeks, replicate 3 Liver, 12 weeks,
GSM9858463 Liver, 12 weeks, replicate 4 Liver, 12 weeks,

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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.