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Transcriptional Landscape for Endoplasmic Reticulum Stress in Alzheimer's Disease Patients-Derived Dermal Fibroblast

GSE283128 Homo sapiens (human) RNA-seq (gene expression) 84 samples Submitted 2025/02/21 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 84 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
84 samples: 22 × Human Dermal Fibroblast, healthy control, treat, C vs 21 × Human Dermal Fibroblast, healthy control, untreat, C vs 20 × Human Dermal Fibroblast, Alzheimer's Disease, untreat, D vs 20 × Human Dermal Fibroblast, Alzheimer's Disease, treat, DGroups 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
Transcriptional Landscape and Biomarker Discovery for Endoplasmic Reticulum Stress in Alzheimer's Disease: An Ex Vivo Study Using Patients-Derived Dermal FibroblastsPsychiatry investigation · 2025
Summary (written by the submitters)
Numerous studies have identified various risk factors associated with Alzheimer's disease (AD). However, the experimental limitations of disease modeling make it challenging to directly interpret these effects. These limitations include constraints of postmortem samples, animal experiments, and challenges associated with brain tissue studies.
Read the full summary ↓
Ex-vivo experiments effectively address these issues by enabling patient-specific identification and highlighting potential biomarkers. In addition, patient-derived human dermal fibroblast effectively reflect the molecular anomalies that disrupt cellular homeostasis. This study aimed to use an ex-vivo platform to characterize the transcriptional profile of fibroblasts derived from patients with AD in response to endoplasmic reticulum (ER) stress and propose potential biomarkers. We utilized patient-derived fibroblasts to observe differentially responsive genes to ER stress in both healthy controls (N=22) and patients with AD (N=20) using RNA sequencing.
Published in
Transcriptional Landscape and Biomarker Discovery for Endoplasmic Reticulum Stress in Alzheimer's Disease: An Ex Vivo Study Using Patients-Derived Dermal Fibroblasts
Kim Y, Nam YJ, Yoon S et al. · Psychiatry investigation 2025 · PMID 40566894 · doi:10.30773/pi.2025.0101
This dataset
Open GSE283128 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 GSE283128_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 PRJNA1192209 and SRA study SRP548355. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40566894) ↗
Study design
22 × Human Dermal Fibroblast, healthy control, treat, C vs 21 × Human Dermal Fibroblast, healthy control, untreat, C vs 20 × Human Dermal Fibroblast, Alzheimer's Disease, untreat, D vs 20 × Human Dermal Fibroblast, Alzheimer's Disease, treat, D

Supports a case/control comparison: 40 samples read as cases, 44 as controls.

How we read this: 4 replicated groups read from 84 sample titles; they account for 83 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

+ 44 more — browse all 84 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

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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.