GEO series

Chronic stress induces neural stem cell quiescence in the hippocampus by repressing Ascl1 expression [RNA-seq]

GSE262992 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/03/20 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 12 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: 12 samples: 3 × HpNSCs, no treatment, vs 3 × HpNSCs, 10-6 M Dex, vs 3 × HpNSCs, 20ng/mL BMP4, vs 3 × HpNSCs, 10-6 M Dex and 20ng/mL BMP4,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)

Chronic stress inhibits neurogenesis, yet its impact on neural stem cells (NSCs) remains poorly understood. Here, using the 5-bromo-2′-deoxyuridine (BrdU) label-retaining assay, we found that chronic restraint stress (CRS) in adult mice promoted quiescence in hippocampal NSCs (i.e. radial-glial-like cells, RGLs). Long-term administration of the synthetic stress hormone agonist dexamethasone (Dex) to adult mice recapitulated the phenotype.

Read the full summary ↓

Moreover, pre-administration of the antagonist mifepristone (RU486) prevented RGLs from quiescence. At the cellular level, Dex induced reversible quiescence in hippocampal NSCs (HpNSCs) in a manner similar to the quiescence-promoting signal BMP4 in vitro. However, Dex and BMP4 regulated overlapping yet distinct NSC quiescence programs, with their co-regulation primarily being synergistic. Mechanistically, Dex downregulated the expression of achaete-scute homolog 1 (Ascl1) by repressing a distal enhancer. These data suggest that chronic stress induces quiescence in RGLs by repressing the transcription of the quiescence regulator gene Ascl1, and that synthetic glucocorticoid antagonists may have therapeutic value in correcting abnormalities of NSC activity in conditions associated with elevated cortisol levels, including psychological and mental health conditions.

This dataset

Open GSE262992 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 GSE262992_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 PRJNA1095417 and SRA study SRP499275. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

3 × HpNSCs, no treatment, vs 3 × HpNSCs, 10-6 M Dex, vs 3 × HpNSCs, 20ng/mL BMP4, vs 3 × HpNSCs, 10-6 M Dex and 20ng/mL BMP4,

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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

GSM8182839 HpNSCs, no treatment, rep1 HpNSCs, no treatment,
GSM8182840 HpNSCs, no treatment, rep2 HpNSCs, no treatment,
GSM8182841 HpNSCs, no treatment, rep3 HpNSCs, no treatment,
GSM8182842 HpNSCs, 10-6 M Dex, rep1 HpNSCs, 10-6 M Dex,
GSM8182843 HpNSCs, 10-6 M Dex, rep2 HpNSCs, 10-6 M Dex,
GSM8182844 HpNSCs, 10-6 M Dex, rep3 HpNSCs, 10-6 M Dex,
GSM8182845 HpNSCs, 20ng/mL BMP4, rep1 HpNSCs, 20ng/mL BMP4,
GSM8182846 HpNSCs, 20ng/mL BMP4, rep2 HpNSCs, 20ng/mL BMP4,
GSM8182847 HpNSCs, 20ng/mL BMP4, rep3 HpNSCs, 20ng/mL BMP4,
GSM8182848 HpNSCs, 10-6 M Dex and 20ng/mL BMP4, rep1 HpNSCs, 10-6 M Dex and …
GSM8182849 HpNSCs, 10-6 M Dex and 20ng/mL BMP4, rep2 HpNSCs, 10-6 M Dex and …
GSM8182850 HpNSCs, 10-6 M Dex and 20ng/mL BMP4, rep3 HpNSCs, 10-6 M Dex and …

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