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Effect of miP-PSTPIP2 overexpression on endothelial gene expression in homeostasis and inflammation. [ext501]

GSE261982 Homo sapiens (human) RNA-seq (gene expression) 28 samples Submitted 2026/07/01 Platform GPL30173
At a glance

RNA-seq (gene expression) · human · 28 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
28 samples: 6 conditions, mostly with about 5 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
Identification of unannotated microproteins involved in endothelial cell homeostasis, dysfunction, and vascular diseaseCardiovascular research · 2026
Summary (written by the submitters)
Detecting microproteins (miPs) translated from small open reading frames (smORFs) by mass spectrometry poses major challenges. Here we report a high-throughput proteo-genomic pipeline that provides cumulative evidence for a large number of bona fide miPs in human and murine endothelial cells. Vascular inflammation in vitro and in vivo profoundly altered smORF expression and a large number of miPs was identified in the blood stream of patients following heart tissue damage.
Read the full summary ↓
Human miPs presented high homology with other primates and their functional perturbation identified miPs that were essential for endothelial cell growth and viability. Moreover, combining gain/loss-of-function with multi-omic approaches demonstrated the involvement of an inflammation-regulated miP in the regulation of gene expression, proliferation and inflammation through interaction with proteins in different subcellular compartments. Thus, large numbers of uncharacterized miPs exist, play a major role in the regulation of cell function and may become biomarkers or therapeutic targets in cardiovascular disease. MiP-PSTPIP2 is upregulated in inflammatory conditions in vitro and in vivo. Therefore this study investigated global transcriptomic alterations following overexpression of FLAG-miP-PSTPIP2 in homeostatic conditions as well as after treatment with interleukin-1beta in human endothelial cells. As the overexpression of FLAG-miP-PSTPIP2 was achieved by adenoviral infection, infection with an adenovirus to express the small protein FLAG-miRFP670nano served as control. The analysis included non infected human endothelial cells under the same experimental conditions to control for infection-dependent effects.
Published in
Identification of unannotated microproteins involved in endothelial cell homeostasis, dysfunction, and vascular disease
Siragusa M, Graumann J, Kuenne C et al. · Cardiovascular research 2026 · PMID 42156223 · doi:10.1093/cvr/cvag110
This dataset
Open GSE261982 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 GSE261982_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 PRJNA1089981 and SRA study SRP496599. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42156223) ↗
Study design
6 conditions, mostly with about 5 replicates each
non-infection-solvent ×5 non-infection-IL-1b ×5 miRFP670nano-solvent ×5 miRFP670nano-IL-1b ×5 miP-PSTPIP2-solvent ×4 miP-PSTPIP2-IL-1b ×4

Supports a between-group comparison across 28 samples.

How we read this: 6 replicated groups read from 28 sample titles; they account for 28 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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