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Unveiling the translational dynamics of lychee (Litchi chinesis Sonn.) in response to cold stress
Cold stress poses a significant threat to the quality and productivity of lychee ( Litchi chinensis Sonn . ). While previous research has extensively...
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Evolution of hadron therapy from 1935 to 2005: a personal view
IntroductionHadron therapy is today an established modality in cancer radiation therapy that, world-wide, is available in about hundred centres....
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A systematic strategy for identifying causal single nucleotide polymorphisms and their target genes on Juvenile arthritis risk haplotypes
BackgroundAlthough genome-wide association studies (GWAS) have identified multiple regions conferring genetic risk for juvenile idiopathic arthritis...
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METASEED: a novel approach to full-length 16S rRNA gene reconstruction from short read data
BackgroundWith the emergence of Oxford Nanopore technology, now the on-site sequencing of 16S rRNA from environments is available. Due to the error...
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Benchmarking and integrating human B-cell receptor genomic and antibody proteomic profiling
Immunoglobulins (Ig), which exist either as B-cell receptors (BCR) on the surface of B cells or as antibodies when secreted, play a key role in the...
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Improving laryngeal cancer detection using chaotic metaheuristics integration with squeeze-and-excitation resnet model
Laryngeal cancer (LC) represents a substantial world health problem, with diminished survival rates attributed to late-stage diagnoses. Correct...
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expHRD: an individualized, transcriptome-based prediction model for homologous recombination deficiency assessment in cancer
BackgroundHomologous recombination deficiency (HRD) stands as a clinical indicator for discerning responsive outcomes to platinum-based chemotherapy...
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Anomaly analytics in data-driven machine learning applications
Machine learning is used widely to create a range of prediction or classification models. The quality of the machine learning (ML) models depends not...
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Comprehensive analysis of the Xya riparia genome uncovers the dominance of DNA transposons, LTR/Gypsy elements, and their evolutionary dynamics
Transposable elements (TEs) are DNA sequences that can move or replicate within a genome, and their study has become increasingly important in...
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Building RadiologyNET: an unsupervised approach to annotating a large-scale multimodal medical database
BackgroundThe use of machine learning in medical diagnosis and treatment has grown significantly in recent years with the development of...
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A strategy to detect metabolic changes induced by exposure to chemicals from large sets of condition-specific metabolic models computed with enumeration techniques
BackgroundThe growing abundance of in vitro omics data, coupled with the necessity to reduce animal testing in the safety assessment of chemical...
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Characteristics of the Structural Connectivity in Patients with Brain Injury and Chronic Health Symptoms: A Pilot Study
Diffusion properties from diffusion tensor imaging (DTI) are exquisitely sensitive to white matter abnormalities incurred during traumatic brain...
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Temporal analysis of computational economics: a topic modeling approach
This study offers a comprehensive investigation into the thematic evolution within computational economics over the past two decades, leveraging...
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Expression genome-wide association study identifies key regulatory variants enriched with metabolic and immune functions in four porcine tissues
BackgroundIntegration of high throughput DNA genoty** and RNA-sequencing data enables the discovery of genomic regions that regulate gene...
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SimSpliceEvol2: alternative splicing-aware simulation of biological sequence evolution and transcript phylogenies
BackgroundSimSpliceEvol is a tool for simulating the evolution of eukaryotic gene sequences that integrates exon-intron structure evolution as well...
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Transcriptome- and DNA methylation-based cell-type deconvolutions produce similar estimates of differential gene expression and differential methylation
BackgroundChanging cell-type proportions can confound studies of differential gene expression or DNA methylation (DNAm) from peripheral blood...
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OBSERVE: guidelines for the refinement of rodent cancer models
Existing guidelines on the preparation (Planning Research and Experimental Procedures on Animals: Recommendations for Excellence (PREPARE)) and...
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Genome-wide analysis of histone modifications can contribute to the identification of candidate cis-regulatory regions in the threespine stickleback fish
BackgroundCis -regulatory mutations often underlie phenotypic evolution. However, because identifying the locations of promoters and enhancers in...
