Article-Journal

TripLexicon: prediction and analysis of gene regulatory RNA-DNA interactions

MOTIVATION: Non-coding RNA (ncRNA) plays a crucial role in gene regulation, including by forming sequence-specific RNA-DNA interactions at gene regulatory elements. One form of …

Dr. Timothy Warwick
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The transaminase-ω-amidase pathway senses oxidative stress to control glutamine metabolism and α-ketoglutarate levels in endothelial cells

Oxidative stress is a major driver of cardiovascular disease; however, the fast changes in cellular metabolism caused by short-lived reactive oxygen species (ROS) remain …

niklas-herrle
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Epigenetic control of metabolic identity across cell types

BACKGROUND: Constraint-based network modeling is a powerful genomic-scale approach for analyzing cellular metabolism, capturing metabolic variations across tissues and cell types, …

maria-pires-pacheco
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Vascular Niches Are the Primary Hotspots in Cardiac Aging

BACKGROUND: Aging is a major, yet unmodifiable, cardiovascular risk factor and is associated with vascular alterations, increased cardiac fibrosis, and inflammation, all of which …

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Davíd Rodriguez Morales
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Decoding heart failure subtypes with neural networks via differential explanation analysis

Single-cell transcriptomics offers critical insights into the molecular mechanisms of heart failure (HF) with reduced or preserved ejection fraction. However, understanding these …

mariano-ruz-jurado
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Pipeline Olympics: continuable benchmarking of computational workflows for DNA methylation sequencing data against an experimental gold standard

DNA methylation is a widely studied epigenetic mark and a powerful biomarker of cell type, age, environmental exposures, and disease. Whole-genome sequencing following selective …

yu-yu-lin
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STAT3 expression is reduced in cardiac pericytes in HFpEF and its loss reduces cellular adhesion and induces pericyte senescence

Heart failure with preserved ejection fraction (HFpEF) accounts for half of heart failure cases and is characterised by reduced pericyte coverage. While the contributions of other …

leah-rebecca-vanicek
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Revealing microRNA regulation in single cells

MicroRNAs (miRNAs) are key regulators of gene expression and control cellular functions in physiological and pathophysiological states. miRNAs play important roles in disease, …

ranjan-k.-maji
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A cell type-specific expression atlas of small and total RNA in the heart after myocardial infarction

Acute myocardial infarction (AMI) is a leading cause of mortality worldwide. MicroRNAs (miRNAs), among other small non-coding RNAs, shape the transcriptome and control cellular …

ranjan-kumar-maji
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Temporal Expression Analysis to Unravel Gene Regulatory Dynamics by microRNAs

MicroRNAs (miRNAs) are a class of small non-coding RNAs (sncRNAs) of length 21-25 nucleotides. These sncRNAs hybridize to repress their target genes and inhibit protein …

ranjan-kumar-maji
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