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Generation of mature epicardium derived from human-induced pluripotent stem cells via inhibition of mTOR signaling

GSE252590 Homo sapiens (human) RNA-seq (gene expression) 23 samples Submitted 2025/06/30 Platform GPL30172Platform GPL18573Platform GPL24676Platform GPL19057
At a glance

RNA-seq (gene expression) · human · 23 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
23 samples: 6 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
Generation of mature epicardium derived from human-induced pluripotent stem cells via inhibition of mTOR signalingNature communications · 2025
Summary (written by the submitters)
Reactivating the human epicardium post-cardiac injury holds promise for cardiac tissue regeneration. Despite successful differentiation protocols yielding pure, self-renewing epicardial cells from induced pluripotent stem cells (iPSCs), these cells maintain an embryonic, proliferative state, impeding adult epicardial reactivation investigation.
Read the full summary ↓
We introduce an optimized method that employs mammalian target of rapamycin (mTOR) signaling inhibition in embryonic epicardium, inducing a quiescent state that enhances multi-step epicardial maturation. This yields functionally mature epicardium, valuable for modeling adult epicardial reactivation. Furthermore, we assess cardiac organoids with cardiomyocytes and mature epicardium, probing molecular mechanisms governing epicardial quiescence during cardiac maturation. Our results highlight iPSC-derived mature epicardium's potential in investigating adult epicardial reactivation, pivotal for effective cardiac regeneration. Additionally, the cardiac organoid model offers insight into intricate cardiomyocyte-epicardium interactions in cardiac development and regeneration.
Published in
Generation of mature epicardium derived from human-induced pluripotent stem cells via inhibition of mTOR signaling
Tian Y, Lucena-Cacace A, Tani K et al. · Nature communications 2025 · PMID 40593704 · doi:10.1038/s41467-025-60934-8
This dataset
Open GSE252590 in finder → Find more 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 GSE252590_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 PRJNA1061472 and SRA study SRP482084. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40593704) ↗
Study design
6 conditions, mostly in duplicate
iPS-epi_control ×3 iPS-epi_Torin ×3 2_iPS-epi_control ×2 2_iPS-epi_Rapamycin ×2 2_iPS-epi_Torin ×2 adult mouse epicardium, biol ×2 2_iPS-epi_Tacrolimus ×1 An02_Torin1_01_mouse_epi ×1 +7 more

Supports a between-group comparison across 14 samples.

How we read this: 6 replicated groups read from 23 sample titles; they account for 14 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
Datasets on a similar topic

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