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p27kip1-dependent gene activity within pregranulosa cells implicates pathways relevant for control of primordial follicle activation in mice

GSE246098 Mus musculus (mouse) RNA-seq (gene expression) 29 samples Submitted 2026/04/01 Platform GPL21103
At a glance

RNA-seq (gene expression) · mouse · 29 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
29 samples: 8 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)
The number of primordial follicles within the ovary, and their rate of activation, are critical parameters of the female reproductive lifespan. A finite number of primordial follicles are established during early ovarian development when individual oocytes are surrounded by a layer of somatic supporting pregranulosa cells. Primordial follicles remain quiescent until activated and their selective activation represents the definitive first step towards oocyte maturation and ovulation.
Read the full summary ↓
Activation is characterised by oocyte and granulosa morphological changes. Activated granulosa cells resume proliferating, downregulating cell cycle inhibitor and transcriptional repressor Cdkn1b/p27kip1. Aside from a single wave of neonatal activation, primordial follicles activate cyclically to enter the pool of growing follicles. Mice lacking p27kip1 are infertile as all their primordial follicles activate during this neonatal wave of activation. Here, we utilise a p27kip1-null (Cdkn1b-/-) mouse line to functionally implicate a gene expression signature within the pregranulosa cells of primordial follicles undergoing activation. Using a combinatorial transcriptomic approach, we find pregranulosa cells undergoing follicle activation are characterised by the expression of several genes previously linked with mature granulosa cells as well several novel candidates: Tnni3, Slc18a2, Fam13a and Klf2. This study implicates pregranulosa cell transition as the key driver of primordial follicle activation and integrates cell-cycle regulator p27kip1 within the molecular mechanism driving pregranulosa cell transition.
This dataset
Open GSE246098 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 GSE246098_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 PRJNA1031538 and SRA study SRP468124. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
8 conditions, mostly with about 4 replicates each
12wk ovary cells WT ×4 PND8 ovary cells WT ×4 E18.5 ovary cells WT ×4 E18.5 ovary cells p27null ×4 E13.5 ovary cells WT ×4 12wk ovary cells p27null ×3 PND8 ovary cells p27null ×3 E13.5 ovary cells p27null ×3

Supports a between-group comparison across 29 samples.

How we read this: 8 replicated groups read from 29 sample titles; they account for 29 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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