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Effect of renal failure and sex on gene expression in mouse strain 129S1/SvlmJ kidneys

GSE308235 Mus musculus (mouse) RNA-seq (gene expression) 16 samples Submitted 2025/10/01 Platform GPL19057
At a glance

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: 5 × 129S1/SvlmJ kidney, KlothoKl/Kl, male, vs 4 × 129S1/SvlmJ kidney, KlothoCtrl, female, vs 4 × 129S1/SvlmJ kidney, KlothoKl/Kl, female, vs 3 × 129S1/SvlmJ kidney, KlothoCtrl, male,Groups 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)
Sex and genetic background are key, but sometimes overlooked factors, that profoundly impact disease susceptibility and presentation in both humans and disease models. We previously showed that deficiency of KLOTHO protein, an important renal regulator of mineral homeostasis and a cofactor for FGF23, causes different phenotypes in 129S1/SvlmJ (129) and C57BL/6J (B6) mouse strains (Kuro-o et al.
Read the full summary ↓
Mutation of the mouse Klotho gene leads to a syndrome resembling ageing. Nature 390: 45-51, 1997; Salloum JS, Garsetti DE, Rogers MB. Genetic Background Influences the Impact of KLOTHO Deficiency. Physiological Genomics. 52, 512-516 (2020). The 129 strain was more severely affected, with decreased longevity, decreased body weight, and increased amounts of kidney calcification compared to B6 mice. Here we used RNA seq to profile messenger RNAs in kidneys from control (ctrl) healthy and Klotho homozygous deficient strain 129 mice of both sexes. The kidney messenger RNA profiles of control and Klotho homozygous deficient strain B6 mice of both sexes has been submitted separately. Comparing and contrasting the genetic architecture leading to different phenotypes associated with specific inbred mouse strains may reveal previously unrecognized and important metabolic interactions affecting chronic kidney disease. Both sex and kidney status modulated mRNA profiles.
This dataset
Open GSE308235 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 GSE308235_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 PRJNA1329276 and SRA study SRP620823. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 × 129S1/SvlmJ kidney, KlothoKl/Kl, male, vs 4 × 129S1/SvlmJ kidney, KlothoCtrl, female, vs 4 × 129S1/SvlmJ kidney, KlothoKl/Kl, female, vs 3 × 129S1/SvlmJ kidney, KlothoCtrl, male,

Supports a between-group comparison across 16 samples.

How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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
Datasets on a similar topic

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