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Maternal acute SARS-CoV-2 infection impairs preimplantation embryo development and reprograms early offspring hematopoietic system

GSE289648 Homo sapiens (human) DNA methylation 102 samples Submitted 2025/11/21 Platform GPL24676
At a glance

DNA methylation · human · 102 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Homo sapiens (human)
Samples
102 samples: 8 conditions, mostly in duplicateGroups 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
Maternal acute SARS-CoV-2 infection impairs preimplantation embryo development and reprograms the early offspring hematopoietic systemCell discovery · 2025
Summary (written by the submitters)
The COVID-19 pandemic has raised significant concerns regarding its impact on reproductive health, particularly in the context of assisted reproductive technology (ART). This study investigates the effects of maternal acute SARS-CoV-2 infection on preimplantation embryo development and early offspring hematopoietic system. We analyzed embryo development and neonatal immune responses in women undergoing ART during acute SARS-CoV-2 infection.
Read the full summary ↓
Our findings reveal that maternal SARS-CoV-2 infection significantly impairs blastocyst formation and quality, with molecular evidence of developmental delay in embryos. Single-cell RNA sequencing (scRNA-seq) of blastocysts and umbilical cord blood (UCB) cells demonstrated dysregulated mitochondrial function, impaired mTORC1 signaling, and altered immune responses in neonates from infected mothers. Additionally, DNA methylation analysis revealed hypermethylation of immune-related genes in embryos from infected mothers. These results highlight the potential long-term impacts of maternal SARS-CoV-2 infection on embryonic development and offspring immune health, emphasizing the need for further research to balance patient safety and reproductive outcomes during the pandemic.
Published in
Maternal acute SARS-CoV-2 infection impairs preimplantation embryo development and reprograms the early offspring hematopoietic system
Zhang M, Liu D, Li S et al. · Cell discovery 2025 · PMID 41436442 · doi:10.1038/s41421-025-00856-3
This dataset
Open GSE289648 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 GSE289648_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: Look for beta-value tables or raw IDAT files among the supplementary files.

Also filed as BioProject PRJNA1223889. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41436442) ↗
Study design
8 conditions, mostly in duplicate
PBAT.NI_Embryo8_sc ×23 PBAT.IS_Embryo2_sc ×20 PBAT.NI_Embryo9_sc ×18 PBAT.NI_Embryo7_sc ×10 PBAT.IS_Embryo1_sc ×8 PBAT.NI_Embryo6_sc ×5 UCB_IS_Donor1_LIB ×2 UCB_NI_Donor1_LIB ×2 +14 more

Supports a between-group comparison across 88 samples.

How we read this: 8 replicated groups read from 102 sample titles; they account for 88 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

+ 62 more — browse all 102 samples with per-sample file links →

Datasets on a similar topic

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