← BioTransfer GEO Dataset Finder
GEO series

Protein folding dependence on Selenoprotein M contributes to steady cartilage extracellular matrix repressing ferroptosis specifically access to PERK/ATF4/CHAC1 axis

GSE252487 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/03/05 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 12 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
12 samples: 3 × si-nc vs 3 × si-selm vs 3 × ad-gfp vs 3 × ad-selmGroups 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
Protein folding dependence on selenoprotein M contributes to steady cartilage extracellular matrix repressing ferroptosis via PERK/ATF4/CHAC1 axisOsteoarthritis and cartilage · 2025
Summary (written by the submitters)
Oateoarthritis (OA) commonly attends persistent inflammatory injury, extensive cartilage structural destruction and severe extracellular matrix (ECM) degradation. This study provides an overview of decreasing endoplasmic reticulum (ER)-resident selenoprotein M (SELM) probed into OA cartilage. Overexpression of SELM in chondrocytes positively promoted the synthesis of ECM.
Read the full summary ↓
RNA-Seq results represented the mobilization of genes touched on various parts of degenerative diseases, inflammation and ferroptosis after SELM knockdown, which also negatively regulated cellular response to misfolded proteins and led to the activation of ER stress mediated by the PERK/P-EIF2A/ATF4 pathway in chondrocytes. Protein docking results captured that SELM was overwhelmingly likely to be involved in protein disulfide bond formation and modification processes by interacting with PDI, GRP94, CNX and CRT, resting on its thioredoxin domain. Decreased SELM also deepened GSH/GSSG homeostasis imbalance through the ATF4/CHAC1 axis and sparking ferroptosis. In vitro supplementation of SELM was buffering the effects of IL-1β on tattered cartilage explants. Furthermore, SELM also powered up the maintenance of favorable proliferative and homeostatic phenotypes among to an inhibitory effect on the hypertrophic phenotype in chondrocytes. These results make conclusive proof to unravel the involvement of SELM in ER stress induced cartilage damage and depict the distinctive function of SELM in protein folding, which renews directions for molecular therapeutic of degenerative diseases.
Published in
Protein folding dependence on selenoprotein M contributes to steady cartilage extracellular matrix repressing ferroptosis via PERK/ATF4/CHAC1 axis
Zhao Y, Zheng Y, Li H et al. · Osteoarthritis and cartilage 2025 · PMID 39419437 · doi:10.1016/j.joca.2024.10.005
This dataset
Open GSE252487 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 GSE252487_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 PRJNA1060723 and SRA study SRP481172. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39419437) ↗
Study design
3 × si-nc vs 3 × si-selm vs 3 × ad-gfp vs 3 × ad-selm

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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

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.