← BioTransfer GEO Dataset Finder
GEO series

Long-term post-ovariectomy mouse model recapitulates hypothalamic transcriptomic changes observed during the menopausal transition in women

GSE288245 Mus musculus (mouse) RNA-seq (gene expression) 33 samples Submitted 2026/02/03 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 33 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
33 samples: 6 conditions, mostly with about 6 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)
Menopause significantly impacts women's health, yet hypothalamic changes during this transition remain poorly understood. We analyzed gene expression in human hypothalamic samples across menopausal transition, revealing significant changes in inflammatory pathways, KNDy neuron signaling, and thermoregulatory genes. This analysis also identified novel central markers of menopause, including AKAP5 and CDKN1A (p21).
Read the full summary ↓
To further investigate these changes, we developed a novel mouse model based on long-term (4 months) post-ovariectomy (OVX) that mimics the gonadotropin and temperature fluctuations of menopausal transition. Remarkably, the posterior hypothalamus of 4-month post-OVX mice closely mirrored the transcriptional changes observed in women at the late peri-/early post-menopausal age range (ages 51-55). Both species exhibited increased inflammatory signaling and glial activation, alongside altered KNDy neuron activity. Our findings provide new insights into the central mechanisms of menopausal symptoms and offer a valuable preclinical model for testing interventions.
This dataset
Open GSE288245 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 GSE288245_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 PRJNA1216617 and SRA study SRP560414. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
6 conditions, mostly with about 6 replicates each
PH_14dOVX ×6 PH_4mOVX ×6 POA_14dOVX ×6 POA_4mOVX ×6 POA_sham ×5 PH_sham ×4

Supports a between-group comparison across 33 samples.

How we read this: 6 replicated groups read from 33 sample titles; they account for 33 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

Search all mouse RNA-seq datasets in GEO →

Share this dataset

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.