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Maternal high fat diet induces circadian clock-independent endocrine alterations impacting metabolism of the offspring

GSE240147 Mus musculus (mouse) RNA-seq (gene expression) 70 samples Submitted 2024/06/09 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 70 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
70 samples: 24 conditions, mostly in triplicateGroups 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
Maternal high fat diet induces circadian clock-independent endocrine alterations impacting the metabolism of the offspringiScience · 2024
Summary (written by the submitters)
Maternal obesity has long-term effects on offspring metabolic health. Among the potential mechanisms, prior research has indicated potential disruptions in circadian rhythms and gut microbiota in the offspring. To challenge this hypothesis, we implemented a maternal high fat diet regimen before and during pregnancy, followed by a standard diet after birth.
Read the full summary ↓
Our findings confirm that maternal obesity impacts offspring birth weight and glucose and lipid metabolisms. However, we found minimal impact on circadian rhythms and microbiota that are predominantly driven by the feeding/fasting cycle. Notably, maternal obesity altered rhythmic liver gene expression, affecting mitochondrial function and inflammatory response without disrupting the hepatic circadian clock. These changes could be explained by a masculinisation of liver gene expression similar to the changes observed in polycystic ovarian syndrome. Intriguingly, such alterations seem to provide the first-generation offspring with a degree of protection against obesity when exposed to a high fat diet.
Published in
Maternal high fat diet induces circadian clock-independent endocrine alterations impacting the metabolism of the offspring
Ding L, Weger BD, Liu J et al. · iScience 2024 · PMID 39045103 · doi:10.1016/j.isci.2024.110343
This dataset
Open GSE240147 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 GSE240147_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 PRJNA1002362 and SRA study SRP453486. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39045103) ↗
Study design
24 conditions, mostly in triplicate
4 weeks_maternal control diet_ZT1 ×3 4 weeks_maternal control diet_ZT5 ×3 4 weeks_maternal control diet_ZT17 ×3 4 weeks_maternal control diet_ZT21 ×3 4 weeks_maternal high-fat diet_ZT1 ×3 4 weeks_maternal high-fat diet_ZT5 ×3 4 weeks_maternal high-fat diet_ZT9 ×3 4 weeks_maternal high-fat diet_ZT13 ×3 +16 more

Supports a between-group comparison across 70 samples.

How we read this: 24 replicated groups read from 70 sample titles; they account for 70 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

+ 30 more — browse all 70 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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