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SOX4 Mediated Differentiation of Specific T Lymphocyte Subsets at the Maternal-Fetal Interface Contributes to Preterm Labor [RNA-Seq]

GSE298146 Homo sapiens (human) Single-cell RNA-seq 34 samples Submitted 2026/05/13 Platform GPL24676
At a glance

Single-cell RNA-seq · human · 34 samples

What it is
Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism
Homo sapiens (human)
Samples
34 samples: 10 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.
Summary (written by the submitters)
Preterm labor is one of the most common pregnancy complications and the leading cause of perinatal neonatal mortality, and its prevention and treatment strongly rely on the depiction of mechanisms underlying the initiation of labor. T lymphocyte are major players of the adaptive immune system and balance tolerance and protection at the maternal-fetal interface.
Read the full summary ↓
Here we integrated single-cell RNA sequencing and single-cell ATAC sequencing analyses of human decidua basalis and decidua parietalis from term and preterm labor to depict the composition of T cells at the maternal-fetal interface during late pregnancy. Our research identified CD8-naïve-SOX4 subset associated with preterm labor, which showed a significant decrease of proportion in the basalis decidua of preterm labor. The transcription factor SOX4 was specifically expressed in naïve CD8+ T cells and was significantly downregulated in the CD8-naïve-SOX4 subset in the decidua basalis of preterm labor. Mechanically, SOX4 plays a pivotal role in mediating T cell differentiation and promotes the differentiation of naïve CD8+ T cells into effector CD8+ T cells in the preterm labor based on pseudotime analysis. We generated a co-culture system to simulate cellular interactions between T cells and uterine smooth muscle cells or amniotic epithelial cells at the maternal-fetal interface, and RNA-sequencing analysis of myometrial cells and amniotic epithelial cells co-cultured with SOX4-deficient T cells revealed disruption of actin filament assembly in uterine smooth muscle cells and F-actin rearrangement in amniotic epithelial cells.
This dataset
Open GSE298146 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 GSE298146_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 PRJNA1268421 and SRA study SRP588112. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
10 conditions, mostly in triplicate
WISH with primary decidual CD3+ T cells-shcon… ×4 WISH with primary decidual CD3+ T cells-shsox… ×4 hUSMC with primary decidual CD3+ T cells-shco… ×4 hUSMC with primary decidual CD3+ T cells-shso… ×4 Jurkat T cells, shcontrol, RNA-seq, ×3 Jurkat T cells, shsox4, RNA-seq, ×3 WISH with Jurkat-shcontrol, RNA-seq, ×3 WISH with Jurkat-shsox4, RNA-seq, ×3 +2 more

Supports a between-group comparison across 34 samples.

How we read this: 10 replicated groups read from 34 sample titles; they account for 34 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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