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Derivation of Dome-Shaped Trophoblast Stem Cells with Morphology Distinct from Classic Trophoblast Stem Cells in Mice

GSE315936 Mus musculus (mouse) RNA-seq (gene expression) 6 samples Submitted 2026/09/23 Platform GPL21273
At a glance

RNA-seq (gene expression) · mouse · 6 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
6 samples
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)
The placenta serves as a critical interface between the mother and fetus, with placental dysfunction being a major contributor to various pregnancy complications. Successful placental formation relies on the robust expansion of trophoblast stem cells, followed by precisely regulated lineage specification. Trophoblast stem cells (TSCs) have emerged as a valuable model for investigating placentation and related disorders.
Read the full summary ↓
However, despite their ability to be maintained over multiple passages without losing stemness, conventional TSCs are characterized by inherent heterogeneity and a spontaneous tendency to differentiate autonomously. In this study, we established a novel type of mouse trophoblast stem cell. These cells form dome-shaped colonies, morphologically distinct from tight epithelial classic TSC colonies with a raised edge, and are therefore termed dome-shaped TSCs (dTSCs). The established dTSCs maintain the dome-shaped morphology, express canonical TSC markers, exhibit reduced cellular heterogeneity, display a relatively low propensity for spontaneous differentiation under stem cell maintenance conditions, retain multipotency for differentiating into specialized trophoblast lineages, and are capable of integrating into E12.5 placentas in chimeric assays. Meanwhile, dTSCs are amenable to gene manipulations, providing a practical means for studying functional genomics in the trophoblast lineages. Collectively, these findings establish dTSCs as a promising and refined model for studying trophoblast development.
This dataset
Open GSE315936 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 GSE315936_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 PRJNA1399983 and SRA study SRP660680. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42757427) ↗
Samples in this study

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+ 6 more — browse all 6 samples with per-sample file links →

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