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Generation of spermatogonia from human and non-human primate pluripotent stem cells

GSE334362 Homo sapiens (human) Non-coding RNA profiling 21 samples Submitted 2026/07/10 Platform GPL24676
At a glance

Non-coding RNA profiling · human · 21 samples

What it is
Non-coding RNA profilingLevels of RNAs that do not code for proteins, such as miRNA or lncRNA.
Organism
Homo sapiens (human)
Samples
21 samples: 7 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
Generation of spermatogonia from human and non-human primate pluripotent stem cellsCell stem cell · 2026
Summary (written by the submitters)
Failures in germline development drive male infertility, but the lack of model systems that recapitulate human spermatogenesis hampers therapeutic development. Here, we develop a system to differentiate human induced pluripotent stem cells (iPSCs) into primordial germ cell-like cells that self-organize with mouse fetal testicular cells into seminiferous tubule–like structures within xenogeneic reconstituted testis (xrTestis).
Read the full summary ↓
Subsequent transplantation of xrTestes into immunodeficient mice results in efficient generation of male germ cells up to meiotic onset, including spermatogonia with evidence of prepachytene piRNA biogenesis, as well as differentiating spermatogonia and rare preleptotene spermatocytes exhibiting transcriptomic and phenotypic similarity to their in vivo counterparts. As future clinical applications will require testing in non-human primates, we apply a similar strategy to differentiate rhesus iPSCs through fetal germ cell stages into spermatogonia and differentiating spermatogonia. Together, these platforms provide a foundation for studying primate germ cell lineages and represent a step toward in vitro gametogenesis.
Published in
Generation of spermatogonia from human and non-human primate pluripotent stem cells
Whelan EC, Guo M, Yokomizo R et al. · Cell stem cell 2026 · PMID 42431197 · doi:10.1016/j.stem.2026.06.001
This dataset
Open GSE334362 in finder → Find more human 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 GSE334362_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 ↗

Also filed as BioProject PRJNA1474875 and SRA study SRP706809. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42431197) ↗
Study design
7 conditions, mostly in triplicate
induced Pluripotent Stem Cells (iPSC), small … ×3 primordial germ cell-like cells (PGCLC), smal… ×3 FACS-sorted VT+ xrTestes (VT+ xrTestes), smal… ×3 xenogeneic reconstituted testes (xrTestes), s… ×3 induced Pluripotent Stem Cells (iPSC), RNA-se… ×3 primordial germ cell-like cells (PGCLC), RNA-… ×3 FACS-sorted VT+ xrTestes (VT+ xrTestes), RNA-… ×3

Supports a between-group comparison across 21 samples.

How we read this: 7 replicated groups read from 21 sample titles; they account for 21 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
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