GEO series

Zbtb16 determines the fate plasticity of cardiovascular progenitors through IGF2BP3-mediated mRNA stabilization [scRNA-seq]

GSE279846 Mus musculus (mouse) Single-cell RNA-seq 2 samples Submitted 2025/08/08 Platform GPL28330

At a glance

Single-cell RNA-seq · mouse · 2 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: 2 samples: 2 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: Zbtb16 determines the fate plasticity of cardiovascular progenitors through IGF2BP3-mediated mRNA stabilizationCell reports · 2025

Summary (written by the submitters)

Cardiovascular progenitors (CPs) are responsible for generating the diverse cell populations in hearts, exhibiting significant transcriptional heterogeneity. However, the regulation of fate plasticity among heterogeneous CP subpopulations, as well as the intrinsic regulatory factors, remains poorly understood.

Read the full summary ↓

In this study, we characterized three CP subpopulations derived from pluripotent stem cells and found that the deletion of ZBTB family protein Zbtb16 led to a profound imbalance in the branching transition trajectory of Early-CPs, redirecting them toward CPs committed to endothelial cells and cardiac fibroblasts (EC/CF-CPs) rather than that to cardiomyocytes (CM-CPs). Mechanistic studies revealed that Zbtb16 interacted with the m6A reader IGF2BP3 to post-transcriptionally recognize and stabilize the mRNAs of key genes critical for the CM-CP subpopulation determination. Collectively, our findings established Zbtb16 as a key regulator of fate plasticity of heterogeneous CP subpopulations and revealed the interplay with IGF2BP3 to impact the m6A-modified mRNA stabilization, which provided new insights into the intrinsic connections between CP subpopulation plasticity and cardiovascular multi-lineage fate determination.

Published in

Zbtb16 determines the fate plasticity of cardiovascular progenitors through IGF2BP3-mediated mRNA stabilization

Wang W, Lian Y, Li J et al. · Cell reports 2025 · PMID 40779394 · doi:10.1016/j.celrep.2025.116127

This dataset

Open GSE279846 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 GSE279846_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 PRJNA1174780 and SRA study SRP539410. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40779394) ↗

Study design

2 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 2 sample titles: 2 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

GSM8581896 Ctrl
GSM8581897 Zbtb16_KO

Datasets on a similar topic

GSE186419 Hypoxia-mediated stabilization of HIF1A in prostatic intraepithelial neoplasia promotes cell plasticity and malignant progression 4 samples shares stabilization, plasticity
GSE202817 ZBTB16/PLZF regulates self-renewal and differentiation of spermatogonial stem cells through an extensive transcription factor-chromatin poising network [RNA-Seq] 24 samples shares zbtb16
GSE202819 ZBTB16/PLZF regulates juvenile spermatogonial stem cell development via an extensive transcription factor poising network 64 samples shares zbtb16
GSE276673 ZBTB16/PLZF regulates self-renewal and differentiation of juvenile spermatogonial stem cells through an extensive transcription factor-chromatin poising network 20 samples shares zbtb16
GSE202818 ZBTB16/PLZF regulates self-renewal and differentiation of spermatogonial stem cells through an extensive transcription factor-chromatin poising network 20 samples shares zbtb16
GSE249055 Casz1 is required for both inner hair cell fate stabilization and outer hair cell survival 73 samples shares stabilization
GSE279618 Casz1 is required for both inner hair cell fate stabilization and outer hair cell survival 65 samples shares stabilization
GSE294937 Selective Intestinal Decontamination Mitigates Binge Alcohol-Induced Cardiovascular Dysfunction via Reduced Anandamide Production 29 samples shares cardiovascular

Search all mouse 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.