GEO series

Altered Nephron Progenitor Cell Dynamics Drive Long-Term Kidney Abnormalities Following Preterm Birth in Mice.

GSE316576 Mus musculus (mouse) RNA-seq (gene expression) 32 samples Submitted 2026/04/17 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 32 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: 32 samples: 32 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)

Preterm birth-affecting ~10% of live births globally-is associated with a markedly increased lifetime risk of chronic kidney disease (CKD), reportedly up to fivefold higher than in term births. Yet, the mechanisms linking prematurity to impaired renal development remain incompletely understood. Here, we investigated how preterm birth influences nephron endowment, kidney function, and the trajectory of kidney injury in a mifepristone-induced mouse model.

Read the full summary ↓

We compared renal structure and function between preterm and term-born mice at postnatal day (P) 30 and P180, quantifying nephron number, glomerular morphology, and injury markers. We also performed bulk RNA sequencing on sorted nephron progenitor cells (NPCs) and non-NPC fractions from post-conception (PC) days 19.5–21.5, spanning the final window of nephrogenesis. Preterm mice exhibited up to 17% fewer nephrons at P30 (p < 0.01) and a ~25% lower kidney-to-body-weight ratio at P30 and P180 (both p < 0.05), despite a ~40% increase in body weight by P180. Injury biomarkers were elevated at P30 and P180, with serum creatinine increased by ~50%, NGAL by ~35%, urinary albumin excretion approximately doubled (p < 0.001), and KIM-1 elevated in preterm versus term controls. Glomerular density at P180 was reduced by ~30% in preterm mice; glomeruli were disproportionately localized in the medulla, and increased Bowman’s space area and capsule ratios suggested filtration defects. Transcriptomic profiling around the time of preterm birth revealed acute induction of cellular stress pathways and transiently impaired NPC differentiation that resolved within 24 hours. Concomitantly, we observed a short-lived increase in NPC proliferation and an approximate 24-hour extension of nephrogenesis, consistent with a compensatory response to bolster nephron formation and indicating a potential therapeutic window. In summary, preterm birth perturbs NPC developmental timing and stress responses, leading to reduced nephron endowment and persistent susceptibility to kidney injury.

This dataset

Open GSE316576 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 GSE316576_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 PRJNA1332900 and SRA study SRP625199. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

32 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 32 sample titles: 32 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

GSM9456313 Sample1 Term GFP (+) NPCs At PC19.5
GSM9456314 Sample3 Term GFP (+) NPCs At PC19.5
GSM9456315 Sample5 Term GFP (+) NPCs At PC19.5
GSM9456316 Sample7 Term GFP (+) NPCs At PC19.5
GSM9456317 Sample9 Preterm GFP (+) NPCs At PC19.5
GSM9456318 Sample11 Preterm GFP (+) NPCs At PC19.5
GSM9456319 Sample13 Preterm GFP (+) NPCs At PC19.5
GSM9456320 Sample15 Preterm GFP (+) NPCs At PC19.5
GSM9456321 Sample17 Term GFP (+) NPCs At PC20.5
GSM9456322 Sample19 Term GFP (+) NPCs At PC20.5
GSM9456323 Sample21 Term GFP (+) NPCs At PC20.5
GSM9456324 Sample23 Term GFP (+) NPCs At PC20.5
GSM9456325 Sample25 Preterm GFP (+) NPCs At PC20.5
GSM9456326 Sample27 Preterm GFP (+) NPCs At PC20.5
GSM9456327 Sample29 Preterm GFP (+) NPCs At PC20.5
GSM9456328 Sample31 Preterm GFP (+) NPCs At PC20.5
GSM9456329 Sample2 Term GFP (-) non NPCs At PC19.5
GSM9456330 Sample4 Term GFP (-) non NPCs At PC19.5
GSM9456331 Sample6 Term GFP (-) non NPCs At PC19.5
GSM9456332 Sample8 Term GFP (-) non NPCs At PC19.5
GSM9456333 Sample10 Preterm GFP (-) non NPCs At PC19.5
GSM9456334 Sample12 Preterm GFP (-) non NPCs At PC19.5
GSM9456335 Sample14 Preterm GFP (-) non NPCs At PC19.5
GSM9456336 Sample16 Preterm GFP (-) non NPCs At PC19.5
GSM9456337 Sample18 Term GFP (-) non NPCs At PC20.5
GSM9456338 Sample20 Term GFP (-) non NPCs At PC20.5
GSM9456339 Sample22 Term GFP (-) non NPCs At PC20.5
GSM9456340 Sample24 Term GFP (-) non NPCs At PC20.5
GSM9456341 Sample26 Preterm GFP (-) non NPCs At PC20.5
GSM9456342 Sample28 Preterm GFP (-) non NPCs At PC20.5
GSM9456343 Sample30 Preterm GFP (-) non NPCs At PC20.5
GSM9456344 Sample32 Preterm GFP (-) non NPCs At PC20.5

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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.