Single-nucleus multiomics of murine gonads reveals gene-regulatory networks underlying sex determination
Single-nucleus RNA-seq · mouse · 24 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue).
- Organism
- Mus musculus (mouse)
- Samples
- 24 samples: 12 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.
- Paper
- Single-nucleus multiomics reveals the gene regulatory networks underlying sex determination of murine primordial germ cellseLife · 2025
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE288206_RAW.tar (it can run to tens of gigabytes).
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.
What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1216559 and SRA study SRP560486. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 12 replicated groups read from 24 sample titles; they account for 24 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.
- GSM8761236 Female E11.5, ATAC, replicate 1 Female E11.5, ATAC,
- GSM8761237 Female E11.5, GEX, replicate 1 Female E11.5, GEX,
- GSM8761238 Female E11.5, ATAC, replicate 2 Female E11.5, ATAC,
- GSM8761239 Female E11.5, GEX, replicate 2 Female E11.5, GEX,
- GSM8761240 Male E11.5, ATAC, replicate 1 Male E11.5, ATAC,
- GSM8761241 Male E11.5, GEX, replicate 1 Male E11.5, GEX,
- GSM8761242 Male E11.5, ATAC, replicate 2 Male E11.5, ATAC,
- GSM8761243 Male E11.5, GEX, replicate 2 Male E11.5, GEX,
- GSM8761244 Female E12.5, ATAC, replicate 1 Female E12.5, ATAC,
- GSM8761245 Female E12.5, GEX, replicate 1 Female E12.5, GEX,
- GSM8761246 Female E12.5, ATAC, replicate 2 Female E12.5, ATAC,
- GSM8761247 Female E12.5, GEX, replicate 2 Female E12.5, GEX,
- GSM8761248 Male E12.5, ATAC, replicate 1 Male E12.5, ATAC,
- GSM8761249 Male E12.5, GEX, replicate 1 Male E12.5, GEX,
- GSM8761250 Male E12.5, ATAC, replicate 2 Male E12.5, ATAC,
- GSM8761251 Male E12.5, GEX, replicate 2 Male E12.5, GEX,
- GSM8761252 Female E13.5, ATAC, replicate 1 Female E13.5, ATAC,
- GSM8761253 Female E13.5, GEX, replicate 1 Female E13.5, GEX,
- GSM8761254 Female E13.5, ATAC, replicate 2 Female E13.5, ATAC,
- GSM8761255 Female E13.5, GEX, replicate 2 Female E13.5, GEX,
- GSM8761256 Male E13.5, ATAC, replicate 1 Male E13.5, ATAC,
- GSM8761257 Male E13.5, GEX, replicate 1 Male E13.5, GEX,
- GSM8761258 Male E13.5, ATAC, replicate 2 Male E13.5, ATAC,
- GSM8761259 Male E13.5, GEX, replicate 2 Male E13.5, GEX,
- GSE284515 Fidelity in lineage determination and stimulus-inducible gene expression requires ISWI chromatin remodeling activity 132 samples shares determination
- GSE246688 CUT&Tag, ATAC-seq, bulk RNA-seq and single-nucleus RNA-seq analysis of histone variant H2BE in cortical neurons 67 samples shares single-nucleus
- GSE333807 Single-nucleus multiomic profiling of hippocampus and frontal cortex in a C9orf72 knockout mouse model 52 samples shares single-nucleus
- GSE244450 Unraveling Epigenetic and Immune Mechanisms Underlying Cystogenesis in Autosomal Dominant Polycystic Kidney Disease 19 samples shares underlying
- GSE281085 Nuclei isolation from frozen heart tissues through an easy-to-operating, prompt, and inexpensive method for single-nucleus Multiome-seq 18 samples shares single-nucleus
- GSE267831 Single-nucleus multiomic profiling of mouse substantia nigra across age 16 samples shares single-nucleus
- GSE84371 Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons 924 samples shares single-nucleus
- GSE287551 Spatial organization, chromatin accessibility and gene-regulatory programs defining sensory neurons 10 samples shares gene-regulatory
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.