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The Transcriptome Analysis Reveals the Underlying Mechanism of Low Fetal Weight due to Prenatal High Estradiol Exposure in Mice

GSE214007 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2024/09/01 Platform GPL21273
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 × mouse, normal control, female, vs 3 × mouse, normal control, male, vs 3 × mouse, high E2 prenatal exposure, female, vs 3 × mouse, high E2 prenatal exposure, male,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)
To reveal differences in transcriptome profiles of mouse placentas between HE placentas and NC placentas, aiming to identify the important genes and critical pathways associated with the underlying mechanism for the risk of low birth weight induced by high maternal serum E2 levels. We used the mouse model of high E2 prenatal exposure or pure core oil exposure and collect the pups and placentas. In total, 12 samples were sequenced, including 3 placentas derived from male pups and 3 placentas obtained from female pups in both control and E2-treated groups.
This dataset
Open GSE214007 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 GSE214007_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 PRJNA883619 and SRA study SRP399208. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × mouse, normal control, female, vs 3 × mouse, normal control, male, vs 3 × mouse, high E2 prenatal exposure, female, vs 3 × mouse, high E2 prenatal exposure, male,

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
Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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