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Differential Effects of Prenatal Alcohol Exposure in Mice on Brain Growth and Gene Expression Reveals Early Effects on Cell Cycle and Apoptosis and Delayed Effects on Metabolism in Affected Offspring

GSE267633 Mus musculus (mouse) RNA-seq (gene expression) 151 samples Submitted 2024/12/06 Platform GPL25723
At a glance

RNA-seq (gene expression) · mouse · 151 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
151 samples: 151 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.
Paper
Differential effects of prenatal alcohol exposure on brain growth reveals early upregulation of cell cycle and apoptosis and delayed downregulation of metabolism in affected offspringPloS one · 2024
Summary (written by the submitters)
Fetal Alcohol Spectrum Disorder (FASD) encompasses the deleterious consequences of Prenatal Alcohol Exposure (PAE), including developmental delay, dysmorphologies, cognitive and behavioral issues. The dose and timing of alcohol exposure, maternal and environmental factors, and genetics all impact FASD outcomes, but differential susceptibility to PAE remains poorly understood.
Read the full summary ↓
In this study, we examined the differential effects of PAE on mouse brain development by measuring brain weight in embryos (embryonic day 14, E14) and neonatal pups (postnatal day 0, P0) exposed alcohol during early development. We used transcriptomics to determine whether offspring differentially affected by PAE also differ in gene expression. PAE offspring were classified as normal, middle, and low-weight brains relative to controls. The normal-weight brains showed no differences in gene expression, suggesting these offspring were both phenotypically and transcriptionally unaffected by PAE. While both middle- and low-weight brains showed changes in gene expression, the middle-weight brains showed the most robust transcriptome differences. In affected E14 offspring, we saw an upregulation of cell cycle and apoptosis by PAE, whereas at P0, we saw a downregulation of metabolic processes. Overall, these findings highlight variability in response to PAE and demonstrate the molecular processes involved in offspring affected by alcohol.
Published in
Differential effects of prenatal alcohol exposure on brain growth reveals early upregulation of cell cycle and apoptosis and delayed downregulation of metabolism in affected offspring
Sambo D, Kinstler E, Lin Y et al. · PloS one 2024 · PMID 39602444 · doi:10.1371/journal.pone.0311683
This dataset
Open GSE267633 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 GSE267633_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 PRJNA1112309 and SRA study SRP508085. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39602444) ↗
Study design
151 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 151 sample titles: 151 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

+ 111 more — browse all 151 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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