GEO series

DEVELOPMENTAL LANDMARKS AND CELLULAR TRANSITIONS DURING EXTRAVILLOUS TROPHOBLAST CELL DIFFERENTIATION [scRNA-Seq]

GSE307832 Homo sapiens (human) Single-cell RNA-seq 11 samples Submitted 2026/04/22 Platform GPL24676

At a glance

Single-cell RNA-seq · human · 11 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Homo sapiens (human)
Samples: 11 samples: 2 × Human TS cell, stem state,scRNA-Seq, vs 2 × Human TS cell, EVT differentition D3,scRNA-Seq, vs 2 × Human TS cell, EVT differentition D6, scRNA-Seq, vs 2 × Human TS cell, EVT differentition D8, scRNA-Seq,Groups 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: Developmental landmarks and cellular transitions during extravillous trophoblast cell differentiationProceedings of the National Academy of Sciences of the United States of America · 2026

Summary (written by the submitters)

Human trophoblast stem (TS) can be captured, maintained in vitro under specific conditions, and differentiated into extravillous trophoblast (EVT) cells. The regulatory mechanisms that govern the self-renewal and differentiation of human TS cells into EVT cells are largely unknown. In this study, bulk RNA-sequencing (RNA-seq) and single cell RNA-seq (scRNA-seq) were performed on human TS cells maintained in the stem state and on cells progressing from the stem state into EVT cells (differentiation days 3, 6, and 8).

Read the full summary ↓

Distinct bulk and single cell transcript profiles were identified for each day of analysis. Day 3 of EVT cell differentiation represented a striking transition point and was readily distinguished from stem state and days 6 and 8 of EVT cell differentiation. Analysis of scRNA-seq led to the identification of several unique cell populations. Trophoblast cell developmental state-specific regulons and trajectories. We elucidated functional roles of key regulators of EVT cell development: cyclin B1, CCAAT/enhancer-binding protein beta, and ADAM metallopeptidase with thrombospondin type 1 motif 20. Collectively, we have defined developmental landmarks and transitional cell populations during EVT cell differentiation. These findings provide a valuable resource and foundation for future investigations into regulatory mechanisms controlling TS cell differentiation into the EVT cell lineage

Published in

Developmental landmarks and cellular transitions during extravillous trophoblast cell differentiation

Moreno-Irusta A, Basu MK, Dominguez EM et al. · Proceedings of the National Academy of Sciences of the United States of America 2026 · PMID 42090250 · doi:10.1073/pnas.2529836123

This dataset

Open GSE307832 in finder → Find more human 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 GSE307832_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: 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 PRJNA1327380 and SRA study SRP619237. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42090250) ↗

Study design

2 × Human TS cell, stem state,scRNA-Seq, vs 2 × Human TS cell, EVT differentition D3,scRNA-Seq, vs 2 × Human TS cell, EVT differentition D6, scRNA-Seq, vs 2 × Human TS cell, EVT differentition D8, scRNA-Seq,

Supports a between-group comparison across 8 samples.

How we read this: 4 replicated groups read from 11 sample titles; they account for 8 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

GSM9232293 Human TS cell, stem state,scRNA-Seq, replicate 1 Human TS cell, stem sta…
GSM9232294 Human TS cell, stem state,scRNA-Seq, replicate 2 Human TS cell, stem sta…
GSM9232295 Human TS cell, EVT differentition D3,scRNA-Seq, replicate 1 Human TS cell, EVT diff…
GSM9232296 Human TS cell, EVT differentition D3,scRNA-Seq, replicate 2 Human TS cell, EVT diff…
GSM9232297 Human TS cell, EVT differentition D6, scRNA-Seq, replicate 1 Human TS cell, EVT diff…
GSM9232298 Human TS cell, EVT differentition D6, scRNA-Seq, replicate 2 Human TS cell, EVT diff…
GSM9232299 Human TS cell, EVT differentition D8, scRNA-Seq, replicate 1 Human TS cell, EVT diff…
GSM9232300 Human TS cell, EVT differentition D8, scRNA-Seq, replicate 2 Human TS cell, EVT diff…
GSM9232301 CT27_Human TS cell, EVT differentition D6, scRNA-Seq, replicate 1
GSM9232302 CT29_Human TS cell, EVT differentition D6, scRNA-Seq, replicate 1
GSM9232303 CT30_Human TS cell, EVT differentition D6, scRNA-Seq, replicate 1

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