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Despite their miniscule mass, microgravity has been shown to impose physiological stresses on bacteria, leading to altered gene regulation and metabolic output in unpredictable ways. Changes in metabolic output can ultimately impact the production of …
Read PDFLoss-of-function mutations in AKAP11 (a protein kinase A (PKA)-binding protein) greatly increase the risk of bipolar disorder and schizophrenia. To determine the neurobiological functions of AKAP11, we conduct multi-omic and neurobiological analyses of Akap11 mutant …
Read PDFDetermining the appropriate sample size (N) for bulk RNA sequencing experiments is critical for obtaining reliable results. We show in two N = 30 profiling studies, comparing wild-type mice and mice in which one copy …
Read PDFRNA sequencing (RNA-seq) is a widely used method in transcriptomics research, offering insights into gene expression, variant discovery, and, when deconvoluted, the cellular composition of complex tissues. However, existing RNA-seq pipelines frequently emphasize gene expression …
Read PDFBiotic and abiotic stresses alter the physiology of perennial plants, with consequences for fungal endophytes and disease expression. In grapevine, drought inhibits esca disease expression, but the underlying molecular interactions between the plant and fungi …
Read PDFTumor cell plasticity drives metastasis and therapy resistance, yet its regulation by oncoprotein dosage dynamics remains poorly understood. In Ewing sarcoma (EwS), variations in EWS::FLI1 (EF) fusion oncoprotein activity have been associated with epithelial-mesenchymal plasticity …
Read PDFVascular smooth muscle cells contribute to heritable coronary artery disease risk and undergo complex transitions to multiple disease-related phenotypes. To investigate the genetic basis of these trajectories, we develop a dense timecourse single-cell transcriptomic and …
Read PDFPsoriasis, a chronic inflammatory skin disease affecting men and women equally, presents distinct gender-based differences in severity and treatment response. While molecular mechanisms underlying psoriasis are well-studied, sex-specific differences remain largely unexplored. To address this, …
Read PDFNeuroblastoma (NB) accounts for 10% of pediatric cancer-related deaths, is often highly metastatic at diagnosis, and has a 5-year-survival rate of <50% for patients with high-risk disease. We previously showed that the transcriptional coactivator LMO1 …
Read PDFGene selection from expression data represents a challenging task, primarily due to the high data dimensionality and the vast number of genes that would be identified, many of which may be unrelated to cancer-relevant biological …
Read PDFWe present the CellHit web server (https://cellhit.bioinfolab.sns.it/), a web-based platform designed to predict and analyze cancer patients' responsiveness to drugs using transcriptomic data. By leveraging extensive pharmacogenomics datasets from the Genomics of Drug Sensitivity in …
Read PDFPseudouridine (Ψ) modifications are the most abundant RNA modifications; however, their distribution and functional significance in bacteria remain largely unexplored compared to eukaryotic systems. In this study, we present the first transcriptome-wide and quantitative mapping …
Read PDF<h4>Background/aims</h4>Hepatocellular carcinoma (HCC) is characterized by profound transcriptomic dysregulation, yet the mechanism(s) by which DNA methylation is coordinated with chromatin modifications to regulate alternative splicing during tumorigenesis remains poorly understood.<h4>Methods</h4>Using prospectively paired multi-omics data obtained …
Read PDFT-cell exhaustion is a state of functional decline in T cells, driven by chronic antigen exposure and inhibitory signals within the tumor microenvironment. Exhausted CD8+ T cells (Tex) derive from precursor exhausted T cells (Tpex), …
Read PDFMarek's disease (MD), caused by Marek's disease virus (MDV), poses a significant threat to the poultry industry worldwide by inducing neurological disorders and malignant lymphoma in infected chickens. The underlying mechanisms of the host response …
Read PDFTomato (Solanum lycopersicum L.), one of the most widely grown vegetable crops in the world, faces cracking problems before and after harvest. Fruit cracking reduces the commercial value and seriously affects the economic performance of …
Read PDFSpermatogonial stem cells (SSCs) are essential for long-term spermatogenesis and hold therapeutic potential for treating male infertility. While rodent SSCs are well characterized, human SSCs remain poorly understood. Here, we screen antibodies against proteins encoded …
Read PDFAmyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease marked by progressive degeneration of motor neurons and skeletal muscle. Gene expression analysis of the spinal cord and gastrocnemius of the SOD1-G93A ALS mouse model revealed …
Read PDFNon-animal methods for identification and characterization of skin sensitizers are continuously evolving, advancing towards more effective, accurate, and informational assays. The GARDskin assay is a scientifically and regulatory recognized assay for the assessment of skin …
Read PDFArchaea rely on motility and morphological plasticity to navigate their environments, yet the transcriptional regulation of these processes remains poorly understood. In Haloferax volcanii, archaellum-dependent motility is transcriptionally regulated, but an EarA-like central regulator for …
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