GEO series

Transcriptomic Analysis of Nicotine on the Cardiovascular System Using a Diverse Population of Human Induced Pluripotent Stem Cell-derived Endothelial Cells

GSE274506 Homo sapiens (human) RNA-seq (gene expression) 40 samples Submitted 2025/07/31 Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 40 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: 40 samples
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: Transcriptomic analysis of nicotine on the cardiovascular system using a diverse population of human induced pluripotent stem cell-derived endothelial cellsJournal of molecular and cellular cardiology · 2025

Summary (written by the submitters)

Nicotine, the primary addictive component of tobacco, is linked to major adverse cardiovascular events (MACE) and increased mortality. The impact of nicotine across diverse populations is challenging to investigate in clinical studies due to individual variations in environmental exposures, the presence of other compounds in cigarettes and e-cigarettes, and differences in nicotine dosage and frequency.

Read the full summary ↓

While animal models offer control over these variables, translating findings to human physiology remains complex. Induced pluripotent stem cells (iPSCs) present a promising alternative, leveraging each patient's unique genetic profile. In this study, we utilized iPSCs to explore the effects of nicotine on the cardiovascular system in a genetically diverse population. We derived endothelial cells (iPSC-ECs) from iPSCs of 20 healthy donors from diverse ancestries, including African, Caucasian, East Asian, and Hispanic, and exposed them to 1 µM nicotine for 48 hours. RNA sequencing analysis revealed significant interindividual variation in gene expression, while the nicotine-induced transcriptomic signature was consistent across individuals. A total of 399 differentially expressed genes (DEGs) were identified, with 303 downregulated and 96 upregulated genes. Pathway analysis indicated that upregulated genes were associated with cardiovascular diseases and nicotine addiction, whereas downregulated genes were linked to type 2 diabetes and respiratory disorders. Further analysis highlighted nicotine's effect on pathways related to atherosclerosis and type 2 diabetes. Notably, genes such as HMOX1 and HSPA6 were significantly downregulated upon nicotine exposure, findings validated by quantitative real-time PCR. This study underscores the utility of iPSC-ECs in modeling nicotine's direct impact on the endothelium, providing insights into its role in disease pathogenesis and offering potential avenues for the development of diagnostic markers and therapeutic interventions.

Published in

Transcriptomic analysis of nicotine on the cardiovascular system using a diverse population of human induced pluripotent stem cell-derived endothelial cells

Jimenez-Tellez N, Williams D, Liu Y et al. · Journal of molecular and cellular cardiology 2025 · PMID 39608091 · doi:10.1016/j.yjmcc.2024.11.001

This dataset

Open GSE274506 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 GSE274506_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 PRJNA1146893 and SRA study SRP525664. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39608091) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 40 more — browse all 40 samples with per-sample file links →

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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.