GEO series

Dysfunctional HDL Causes Platelet Apoptosis and Accelerated Thrombogenesis

GSE236541 Homo sapiens (human) RNA-seq (gene expression) 23 samples Submitted 2026/07/05 Platform GPL24676

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: 13 × Platelets, FH, vs 10 × Platelets, Healthy,Groups 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.

Summary (written by the submitters)

Our previous study suggests that the HDL from patients with Familial Hypercholesterolemia (FH) is enriched with peroxidation products, including malondialdehyde (MDA) and isolevuglandins (IsoLG), and is strikingly dysfunctional and enhances platelet abnormalities leading to atherosclerosis, yet the mechanisms are not clear. Although HDL are regarded as one of the most potent anti-apoptotic factors and oxidized HDL act as pro-apoptotic in macrophages and endothelial cells, little is known about their effect on platelets survival and susceptibility to apoptosis.

Read the full summary ↓

Therefore, in our present study, we hypothesize that the maintenance of platelet integrity and protection against potentially deleterious proatherogenic stimuli may constitute a new biological function of HDL and thus may define a new mechanism contributing to their atheroprotective function in FH subjects.

This dataset

Open GSE236541 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 GSE236541_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 PRJNA991546 and SRA study SRP447505. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

13 × Platelets, FH, vs 10 × Platelets, Healthy,

Supports a between-group comparison across 23 samples.

How we read this: 2 replicated groups read from 23 sample titles; they account for 23 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

GSM7549688 Platelets, Healthy, Rep1 Platelets, Healthy,
GSM7549689 Platelets, Healthy, Rep2 Platelets, Healthy,
GSM7549690 Platelets, FH, Rep1 Platelets, FH,
GSM7549691 Platelets, FH, Rep2 Platelets, FH,
GSM7549692 Platelets, FH, Rep3 Platelets, FH,
GSM7549693 Platelets, FH, Rep4 Platelets, FH,
GSM7549694 Platelets, FH, Rep5 Platelets, FH,
GSM7549695 Platelets, FH, Rep6 Platelets, FH,
GSM7549696 Platelets, FH, Rep7 Platelets, FH,
GSM7549697 Platelets, FH, Rep8 Platelets, FH,
GSM7549698 Platelets, FH, Rep9 Platelets, FH,
GSM7549699 Platelets, FH, Rep10 Platelets, FH,
GSM7549700 Platelets, FH, Rep11 Platelets, FH,
GSM7549701 Platelets, FH, Rep12 Platelets, FH,
GSM7549702 Platelets, FH, Rep13 Platelets, FH,
GSM7549703 Platelets, Healthy, Rep4 Platelets, Healthy,
GSM7549704 Platelets, Healthy, Rep5 Platelets, Healthy,
GSM7549705 Platelets, Healthy, Rep6 Platelets, Healthy,
GSM7549706 Platelets, Healthy, Rep7 Platelets, Healthy,
GSM7549707 Platelets, Healthy, Rep9 Platelets, Healthy,
GSM7549708 Platelets, Healthy, Rep10 Platelets, Healthy,
GSM7549709 Platelets, Healthy, Rep11 Platelets, Healthy,
GSM7549710 Platelets, Healthy, Rep12 Platelets, Healthy,

Datasets on a similar topic

GSE262261 An obesogenic FTO allele causes accelerated development, growth and insulin resistance in human skeletal muscle cells 2 samples shares accelerated, causes
GSE274839 Genome-wide discovery and integrative genomic characterization of insulin resistance loci using serum triglycerides to HDL-cholesterol ratio [bulk RNA-seq] 12 samples shares hdl
GSE252953 Tumor Cell JAGGED-1 Promotes Lymph Node Metastasis and Predicts Recurrence in Lymph Node Positive Breast Cancer Patients [hdLEC_JAG1_TLA] 6 samples shares hdl
GSE339670 long read RNA-seq from small intestine (ENCSR047HDL) 1 samples shares hdl
GSE53201 Expression data from human coronary artery endothelial cells treated with HDL components 25 samples shares hdl
GSE53315 MicroRNA expression data from human coronary artery endothelial cells treated with HDL components 25 samples shares hdl
GSE76065 Rader HHDL genotyping 18 samples shares hdl
GSE261070 Dysfunctional neutrophil Type 1 interferon responses in preschool children with recurrent wheezing and IL-4-mediated aeroallergen sensitization 134 samples shares dysfunctional

Search all human 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.