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TExCNN: Leveraging Pre-Trained Models to Predict Gene Expression from Genomic Sequences.
Genes (Basel)
December 2024
Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun 130012, China.
Background/objectives: Understanding the relationship between DNA sequences and gene expression levels is of significant biological importance. Recent advancements have demonstrated the ability of deep learning to predict gene expression levels directly from genomic data. However, traditional methods are limited by basic word encoding techniques, which fail to capture the inherent features and patterns of DNA sequences.
View Article and Find Full Text PDFUnlabelled: The reflexive translation of symbols in one chemical language to another defined genetics. Yet, the co-linearity of codons and amino acids is so commonplace an idea that few even ask how it arose. Readout is done by two distinct sets of proteins, called aminoacyl-tRNA synthetases (AARS).
View Article and Find Full Text PDFCardiac vagal control and inflammation are upregulated in exceptional human longevity.
Intern Emerg Med
December 2024
Department of Clinical Sciences and Community Health, University of Milan, via Francesco Sforza 35, 20122, Milan, Italy.
We investigated the interplay of cardiovascular autonomic and inflammatory profiles in persons with extreme longevity (PEL), their direct offsprings (DO), and a group of controls matched for age and sex with the DO. Cardiac autonomic control was assessed through the heart rate variability (HRV) using spectral and symbolic analysis. The plasma concentration and gene expression of interleukin (IL)-10, IL-6, and TNF-α were quantified.
View Article and Find Full Text PDFCharacterization and functional analysis of interleukin-6 and its receptor subunits (IL-6Rα and IL-6Rβ) in the yellow drum, Nibea alibiflora.
Dev Comp Immunol
December 2024
National and Provincial Joint Laboratory of Exploration and Utilization of Marine Aquatic Genetic Resources, National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University, Zhoushan, 316022, PR China. Electronic address:
Interleukin 6 (IL-6) is one of the cytokines found to be multifunctional and biologically effective, regulating immune and inflammatory response by interacting with receptors to transmit signals. In this study, the full-length cDNAs of IL-6 (named as NaIL-6) and its receptors IL-6R and gp130 (named as NaIL-6Rα and NaIL-6Rβ) of Nibea albiflora were acquired and they possessed the typical symbolic motifs similar to its teleost orthologues in multiple sequence comparisons. The phylogenetic trees showed that NaIL-6 and its receptors clustered with their counterparts in bony fish, and had the closest affinity to Larimichthys crocea.
View Article and Find Full Text PDFCognitive benefits of folic acid supplementation during pregnancy track with epigenetic changes at an imprint regulator.
BMC Med
December 2024
School of Biomedical Sciences, Biomedical Sciences Research Institute, Ulster University, Coleraine, Northern Ireland, BT52 1SA, UK.
Background: The human ZFP57 gene is a major regulator of imprinted genes, maintaining DNA methylation marks that distinguish parent-of-origin-specific alleles. DNA methylation of the gene itself has shown sensitivity to environmental stimuli, particularly folate status. However, the role of DNA methylation in ZFP57's own regulation has not been fully investigated.
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