GEO series

Maternal IL-10 restricts fetal emergency myelopoiesis [scRNA-seq]

GSE240913 Mus musculus (mouse) Single-cell RNA-seq 10 samples Submitted 2024/02/29 Platform GPL21103

At a glance

Single-cell RNA-seq · mouse · 10 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Mus musculus (mouse)
Samples: 10 samples: 10 samples, each with a distinct title — no replicated groupsGroups 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 inflammation regulates fetal emergency myelopoiesisCell · 2024

Summary (written by the submitters)

We investigated how late fetal liver (FL) mouse hematopoieitic stem and progenitor cells (HSPC) respond to inflammation, with the hypothesis that deficits in engagement of emergency myelopoiesis (EM) pathways could limit neutrophil output and contribute to perinatal neutropenia, ultimately explaining the susceptibility of neonates to inflammation and infection.

Read the full summary ↓

We show that fetal HSPCs are biased toward erythroid and lymphoid cell production at steady state and fail to mount classical EM responses in vivo. Despite being capable of responding to EM-inducing stimuli in vitro, we find that maternal factors like interleukin-10 (IL-10) restrict fetal HSPCs from activating EM pathways in utero. Accordingly, we find that loss of maternal IL-10 restores EM activation in fetal HSPCs but at a cost of premature parturition. These results reveal the evolutionary trade-off inherent in maternal anti-inflammatory responses that maintain pregnancy but render the fetus susceptible to infection.

Published in

Maternal inflammation regulates fetal emergency myelopoiesis

Collins A, Swann JW, Proven MA et al. · Cell 2024 · PMID 38428422 · doi:10.1016/j.cell.2024.02.002

This dataset

Open GSE240913 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 GSE240913_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 PRJNA1005683 and SRA study SRP455260. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 38428422) ↗

Study design

10 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 10 sample titles: 10 distinct titles with little repetition. 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

GSM7712012 Adult LK LPS 16 hrs
GSM7712013 E18 LK LPS 16 hrs
GSM7712014 E18 LK PBS
GSM7712015 Adult LK PBS
GSM7712016 E18 LK LPS 3 hrs
GSM7712017 Adult LK LPS 3 hrs
GSM7712018 E18 WT mom LK PBS
GSM7712019 E18 WT mom LK LPS 3 hrs
GSM7712020 E18 IL10KO mom LK PBS
GSM7712021 E18 IL10KO mom LK LPS 3 hrs

Datasets on a similar topic

GSE240912 Maternal IL-10 restricts fetal emergency myelopoiesis [Bulk RNA-seq] 36 samples shares il-10, myelopoiesis, restricts, emergency, maternal, fetal
GSE240915 Maternal IL-10 restricts fetal emergency myelopoiesis 50 samples shares il-10, myelopoiesis, restricts, emergency, maternal, fetal
GSE291186 Emergency Myelopoiesis in Murine Arthritis Results in Cell-Intrinsic Changes in Dendritic Cell Development and Function 26 samples shares myelopoiesis, emergency
GSE296404 Cartography of emergency myelopoiesis identifies conserved molecular activation modules 15 samples shares myelopoiesis, emergency
GSE298048 Cartography of emergency myelopoiesis identifies dysregulated metabolism 9 samples shares myelopoiesis, emergency
GSE275150 Hematopoietic aging promotes cancer by fueling IL-1⍺-driven emergency myelopoiesis 8 samples shares myelopoiesis, emergency
GSE296132 Stage-specific degradation of cyclin D3 orchestrates myelopoiesis and restrains MPN development [scRNA-seq] 4 samples shares myelopoiesis, scrna-seq
GSE318312 Myc Driven Emergency Myelopoiesis Reprograms HPSC Metabolism 31 samples shares myelopoiesis, emergency

Search all mouse RNA-seq datasets in GEO →

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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.