← BioTransfer GEO Dataset Finder
GEO series

Maternal SMARCA5 is required for major ZGA in mouse

GSE248181 Mus musculus (mouse) DNA methylation 251 samples Submitted 2024/09/18 Platform GPL19057
At a glance

DNA methylation · mouse · 251 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Mus musculus (mouse)
Samples
251 samples: 65 conditions, mostly in duplicateGroups 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.
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
This dataset
Open GSE248181 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 GSE248181_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: Look for beta-value tables or raw IDAT files among the supplementary files.

Also filed as BioProject PRJNA1041874 and SRA study SRP472645. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
65 conditions, mostly in duplicate
SMARCA5+/+ 2 cell stage embryos (matKO female… ×3 SMARCA5+/+ 2 cell stage embryos (matKO female… ×3 SMARCA5+/- 2 cell stage embryos (matKO female… ×3 SMARCA5+/- 2 cell stage embryos (matKO female… ×3 SMARCA5+/- 2 cell stage embryos (matKO female… ×3 SMARCA5+/- 2 cell stage embryos (matKO female… ×3 SMARCA5+/- 2 cell stage embryos (matKO female… ×3 Trim-Away 2 cell stage _rep1 a-Smarca5_A ×3 +159 more

Supports a between-group comparison across 149 samples.

How we read this: 65 replicated groups read from 251 sample titles; they account for 149 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

+ 211 more — browse all 251 samples with per-sample file links →

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.