Tiit Örd

Cross-Cohort Optimal Transport Maps Macrophage Plasticity and Competing Routes to Inflammation and Fibrosis in Human Atherosclerotic Plaques

The paper develops a computational framework using optimal transport to analyze macrophage state transitions in atherosclerosis, identifying origin-dependent plasticity mechanisms and shared regulatory circuits in inflammation and fibrosis.

Transcriptomic, Specific Marker, and Pathway Analysis of Smooth Muscle Cell Foam Cells Relative to Macrophage Foam Cells in Human Atherosclerosis

Smooth muscle foam cells in early-to-intermediate human coronary plaques map to fibromyocytes, express CFH and SERPINE1 unlike macrophage foam cells, and show matrix, coagulation and angiogenesis programs.

Immune interaction signatures in adipose tissue fibroblasts in obesity-associated atherosclerosis

The paper identifies immune-related transcriptional changes in adipose-derived fibroblasts in obesity-associated atherosclerosis using single-cell RNA sequencing and spatial transcriptomics.

Integrated ambient modeling and genetic demultiplexing of single-cell RNA+ATAC multiome experiments with Ambimux

The paper introduces ambimux, a method to estimate and demultiplex ambient molecule contamination in single-cell RNA+ATAC multiome data, improving the detection of biologically meaningful signals.

Cardiovascular disease causes proinflammatory microvascular changes in the human right atrium

The paper uses single-nuclei RNA-seq and spatial transcriptomics to analyze gene expression changes in the right atrium of patients with ischemic heart disease, revealing inflammatory microvascular dysfunction and altered tissue composition.

Coronary Artery Disease risk variant dampens the expression of CALCRL by reducing HSF binding to shear stress responsive enhancer in endothelial cells

The paper identifies a CAD risk SNP rs880890 in an endothelial enhancer that reduces CALCRL expression by impairing HSF binding under shear stress.

Cell-type-specific characterization of miRNA gene dynamics in immune cell subpopulations during aging and atherosclerosis disease development at single-cell resolution

The paper quantifies and integrates miRNA gene expression in single-cell studies, revealing age- and disease-related miRNA regulation in immune cells.

Functional non-coding SNPs in human endothelial cells fine-map vascular trait associations

The paper identifies functional non-coding SNPs in human endothelial cells that influence vascular traits by affecting transcriptional regulation and chromatin states.

Genetic regulation of human aortic smooth muscle cell gene expression and splicing predict causal coronary artery disease genes

The paper identifies eQTLs and sQTLs in human aortic SMCs that colocalize with CAD GWAS loci, highlighting splicing regulation as a mechanism for CAD risk.

Disease specific alterations in the olfactory mucosa of patients with Alzheimer's disease

This study identifies disease-specific gene expression and protein secretion patterns in olfactory mucosa cells from Alzheimer's patients, revealing potential diagnostic and mechanistic insights.