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Ancestry and fetal sex differences in human placental transcriptome in spontaneous early preterm birth

GSE251663 Homo sapiens (human) RNA-seq (gene expression) 118 samples Submitted 2025/04/29 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 118 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
Homo sapiens (human)
Samples
118 samples: 12 conditions, mostly with about 10 replicates eachGroups 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
Race and sex differences in placental lipid metabolism are associated with spontaneous early preterm birth†Biology of reproduction · 2025
Summary (written by the submitters)
Black women have highest risk of spontaneous preterm birth (SPTB) than other race, and placental insufficiency is implicated in SPTB. We performed RNA-seq study in male and female placentas from White and Black women (self-identified) with early SPTB (< 32 weeks gestation) compared to normal pregnancies (≥ 38 weeks gestation) to assess the alterations in gene expression profiles as well as ancestry and fetal sex differences. The mid-trimester placentas (19-23 weeks gestation) were used as gestational controls.
Published in
Race and sex differences in placental lipid metabolism are associated with spontaneous early preterm birth†
Lien YC, Kan M, Leite R et al. · Biology of reproduction 2025 · PMID 40244074 · doi:10.1093/biolre/ioaf085
This dataset
Open GSE251663 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 GSE251663_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 PRJNA1055038 and SRA study SRP479175. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40244074) ↗
Study design
12 conditions, mostly with about 10 replicates each
Term_Male_AA_s ×10 Preterm_Female_AA_s ×10 Term_Female_AA_s ×10 Mid-Trimester_Female_White_s ×10 Preterm_Male_White_s ×10 Term_Male_White_s ×10 Term_Female_White_s ×10 Preterm_Female_White_s ×10 +4 more

Supports a between-group comparison across 118 samples.

How we read this: 12 replicated groups read from 118 sample titles; they account for 118 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

+ 78 more — browse all 118 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

Share this dataset

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.