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Alternative polyadenylation (APA) is a widespread post-transcriptional regulatory mechanism in eukaryotes, which contributes greatly in shaping transcriptome complexity and proteome diversity. The advancement of 3' tag-based single-cell RNA sequencing (scRNA-seq) technology has facilitated the emergence …
Read PDF<h4>Background</h4>Dysregulated interferon-alpha/beta-receptor 1 (IFNAR1) signaling was recently identified to contribute to the development of sporadic Parkinson's disease (PD) into PD with Dementia (PDD). The molecular, cellular, and phenotypic impacts of brain IFNAR1 loss in aging …
Read PDFAtherosclerosis is a chronic inflammatory disease of blood vessels, characterized by atherosclerotic lesions in large- and medium-sized arteries. IFNγ is a crucial mediator of atherosclerosis through activation of signal transducer and activator of transcription (STAT)1. …
Read PDFAs integral parts of the transcription super elongation complex, the ENL and AF9 proteins are two master regulators of gene expression involved in the development and homeostasis of various tissues. They are encoded by MLLT1 …
Read PDFN4-acetylcytidine (ac<sup>4</sup>C), which is an evolutionarily conserved RNA modification in eukaryotes, functions as a critical epitranscriptomic regulator that enhances mRNA stability and translation efficiency. In Arabidopsis thaliana and Oryza sativa, ac<sup>4</sup>C has been characterized as …
Read PDFThe tumor extracellular matrix (ECM) is increasingly recognized as a key driver of immune suppression and therapy resistance in cancer. However, the specific ECM components and mechanisms that create this immunosuppressive environment remain poorly understood, …
Read PDFIntegrative analysis of RNA-seq datasets faces critical challenges in disentangling biologically meaningful signals from implicit confounders, such as unmeasured technical variability and nonlinear interactions between biological and technical variables. Traditional methods like Surrogate Variable Analysis …
Read PDFR-loops, three-stranded nucleic acid structures comprising an RNA-DNA hybrid and a displaced single-stranded DNA strand, play context-dependent roles in cancer-serving essential physiological functions while also driving tumorigenesis when dysregulated. Their pathological effects are mediated through …
Read PDFCollective behavior emerges from socially interacting individuals. Across species, the social behavior of healthy adults is often not present in immature animals, in socially isolated animals, or in animals with certain genetic perturbations, including models …
Read PDFWildfire smoke (WFS) exposures are becoming more common, and firefighters and community members are often exposed to WFS for days to weeks. Controlled studies assessing the effects of repeated exposure to WFS and woodsmoke (WS; …
Read PDFRNA-protein interactions (RPIs), mediated primarily by RNA-binding proteins (RBPs), are central to post-transcriptional gene regulation and govern RNA splicing, transport, localization, translation, and decay. Dysregulation of RBPs and their associated RNA networks contributes to diverse …
Read PDFAging is a global issue that affects human health and increases disease risk. The traditional concept of the "age gap (AG)," defined as the difference between estimated biological age and an individual's chronological age, has …
Read PDFLeprosy is a debilitating disease that requires early detection for effective control, yet diagnosis still relies on clinical signs. Previous RNA-Seq analysis of coding genes from leprosy patients' household contacts (HHC) who developed leprosy (progressors) …
Read PDFUpstream open reading frames (uORFs) in the 5' leader of bacterial mRNAs can modulate gene expression, yet genome-wide identification remains limited. We combined bioinformatic prediction of ribosome-binding sites (RBSs)-a Shine-Dalgarno sequence and a start codon-with …
Read PDFMALAT1 is a long non-coding RNA (lncRNA) with altered expression in many cancers but poorly studied in B-cell neoplasms like mantle cell lymphoma (MCL), a very aggressive B-cell lymphoma. To elucidate the role of MALAT1 …
Read PDFA model plant, Nicotiana benthamiana, was examined as a host for persistent fungal viruses capable of crossing organismal kingdoms. Protoplasts of N. benthamiana were transfected with a mixture of virions of a betapartitivirus, Rosellinia necatrix …
Read PDFAged normal tissues harbour cancer mutations predisposing to transformation. However, how different pro-oncogenic events in the human colon compare in frequency, behaviour and subsequent transformation risk remains unclear. Here, we analyse mutation hotspot regions in …
Read PDF<h4>Introduction</h4>Early-life exposure to general anesthetics has been associated with increased neurodevelopmental vulnerability, but the cell type-resolved mechanisms remain incompletely understood. Here, we investigated whether isoflurane-induced neonatal neurotoxicity is associated with a glia-linked ferroptotic susceptibility state …
Read PDFBulk RNA sequencing (RNA-seq) produces high-dimensional gene expression data where the number of measured features greatly exceeds the number of available samples, which challenges artificial intelligence (AI)-based modeling. In this setting, models are highly susceptible …
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