Omics · study · 2026
Multi-omic analysis reveals distinct endothelial gene expression profiles induced by pathological flow [miRNA-Seq]
Listed in NCBI GEO
Aims -Coronary artery disease (CAD) remains a leading cause of mortality globally.
Description
Atherosclerosis develops at arterial sites exposed to disturbed, low, or oscillatory shear stress, while acute coronary syndromes-triggered by plaque rupture or erosion predominantly occurs in regions subjected to elevated shear stress. While the response of endothelial cells to disturbed flow has received significant attention, the response to elevated flow is less well studied.
Methods and Results - To address this shortfall, we conducted a comprehensive multi-omic analysis of primary human coronary artery endothelial cells (HCAECs) cultured for 72 hours under oscillatory shear stress (OSS), physiological laminar shear stress (LSS), and elevated shear stress (ESS). This identified 2,175 shear-regulated genes, with 1,218 uniquely responsive to OSS and 665 to ESS. Both OSS and ESS induced significant changes in RNA isoform selection, affecting 580 and 848 genes respectively.
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Signalling pathways regulating CAD pathogenesis including HIPPO, TGFβ/BMP, and IRF, showed altered RNA isoform selection which may influence plaque development and plaque erosion. 65% of LD-filtered CAD-associated genetic variants from two recent multi-population meta-analyses contained at least one OSS or ESS-regulated gene within 250Kb. Proteomic analysis identified 289 proteins differentially expressed under OSS and 171 under ESS, with notable discordance between mRNA and protein changes observed in 28.7% (OSS vs LSS) and 16.6% (ESS vs LSS) genes.
Additionally, 40 shear-responsive microRNAs were identified, potentially contributing to 71% of this discordance. Conclusion- Both oscillatory and elevated flow trigger distinct HCAEC gene expression programmes, affecting mRNA, microRNA, splicing, and protein expression, and modulating pathways central to CAD pathogenesis.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE300nnn/GSE300939 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE300939 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1282705 ncbi.nlm.nih.gov/bioproject/PRJNA1282705 ↗
project · from NCBI GEO
- PubMed 42333643 pubmed.ncbi.nlm.nih.gov/42333643 ↗
publication · from NCBI GEO
Topics
- Stated by source
- Homo sapiens · Non-coding RNA profiling by high throughput sequencing
- From keywords
- Life Sciences
- Inferred from text
- Disease 75%
Provenance · 1 source records, 8 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE300939 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[disease].local:disease:disease | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:non-coding-rna-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[organism].NCBITaxon:9606 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |