Scalable and Efficient Generation of Mouse Primordial Germ Cell-like Cells
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 5 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
- Scalable primordial germ cell-like-cell platform for functional genomics identifies epigenetic fertility modifiersbioRxiv : the preprint server for biology · 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 GSE256104_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: 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 PRJNA1078246 and SRA study SRP490424. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8085909 ESC, 2i LIF, rep1 ESC, 2i LIF,
- GSM8085910 ESC, 2i LIF, rep2 ESC, 2i LIF,
- GSM8085911 ESC, 2i LIF, rep3 ESC, 2i LIF,
- GSM8085912 EpiLC, 48h, rep1 EpiLC, 48h,
- GSM8085913 EpiLC, 48h, rep2 EpiLC, 48h,
- GSM8085914 EpiLC, 48h, rep3 EpiLC, 48h,
- GSM8085915 PGCLC, 4TF, day2, rep1 PGCLC, 4TF, day2,
- GSM8085916 PGCLC, 4TF, day2, rep2 PGCLC, 4TF, day2,
- GSM8085917 PGCLC, 4TF, day2, rep3 PGCLC, 4TF, day2,
- GSM8085918 PGCLC, 4TF, day4, rep1 PGCLC, 4TF, day4,
- GSM8085919 PGCLC, 4TF, day4, rep2 PGCLC, 4TF, day4,
- GSM8085920 PGCLC, 4TF, day4, rep3 PGCLC, 4TF, day4,
- GSM8085921 PGCLC, 4TF, day6, rep1 PGCLC, 4TF, day6,
- GSM8085922 PGCLC, 4TF, day6, rep2 PGCLC, 4TF, day6,
- GSM8085923 PGCLC, 4TF, day6, rep3 PGCLC, 4TF, day6,
- GSE272452 Generation of germinal-vesicle oocytes from mouse embryonic stem cells under an ovarian soma-free condition 202 samples shares generation, germ
- GSE323391 Reconstitution of spermatogenesis and continuous generation of functional haploid germ cells in mouse testicular organoids 21 samples shares generation, germ
- GSE240971 UHRF2 mediates resistance to DNA methylation reprogramming in primordial germ cells 95 samples shares primordial, germ
- GSE286574 Intrauterine hyperglycemia impairs primordial germ cell development and fertility by sex-specific epigenetic reprogramming interference in mice offspring [ATAC-seq] 30 samples shares primordial, germ
- GSE255212 Transcriptomic Signatures of WNT-Driven Pathways and Granulosa Cell-Oocyte Interaction during Primordial Follicle Activation 762 samples shares primordial
- GSE290574 Gene Regulatory Networks Orchestrating Oocyte Fate Bifurcation in Primordial Follicles Revealed by Single-Cell Transcriptomics 386 samples shares primordial
- GSE281823 Transcriptional profiling of striatum from the Q140 mouse model of Huntington's disease, from A rare genetic variant confers resistance to neurodegeneration across multiple neurological disorders by augmenting selective autophagy 40 samples shares generation
- GSE307127 Immune Receptor Lag3 Deletion Alleviates Neurodegeneration Phenotypes in a Mouse Model of Alzheimer’s Disease 36 samples shares generation
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.