Genetics

TKOA-GPNN: a model framework for genotype-to-phenotype prediction in Duroc pigs.

CONTEXT: Genomic prediction has been established as a powerful tool in pig breeding, which typically entails the analysis of large-scale genomic datasets. Neural network models, renowned for their robust pattern recognition capabilities, have been successfully applied to extract complex genetic patterns from such high-dimensional genomic data. OBJECTIVE: Because growth traits are critical economic...

Multi-omics reveals fibroblast subtypes with distinct roles in inflammatory bowel disease.

BACKGROUND: Inflammatory bowel disease (IBD) is a chronic inflammatory disorder of the gastrointestinal tract involving complex interactions among epithelial, immune, and stromal components. Fibroblasts are key regulators of intestinal inflammation and fibrosis, but their heterogeneity, distribution, and therapeutic potential remain unclear. METHODS: We systematically identified and characterized ...

PFGPred: A stack ensemble classifier for the identification of fusion genes in plants.

Fusion genes play crucial roles in plant biological processes but remain far less explored than their human counterparts, largely due to limited valid...

Machine Learning-Enhanced Ultrasensitive Immuno-CRISPR Array Facilitates Early Diagnosis of Alzheimer's Disease by Detecting Multiple Plasma Biomarkers.

Early and accurate diagnosis of Alzheimer's disease (AD) remains a significant challenge due to the multifactorial and dynamic nature of its pathology...

Deep Structure-Enhanced Cell Clustering Model for Single-Cell RNA Sequencing Data.

Recently, deep cell clustering, which employs deep neural networks to learn cell representation for clustering purposes, has attracted increasing rese...

Identification of Centrosome Duplication-Related Biomarkers in Hypertrophic Cardiomyopathy Through Integrative Multi-Omics, Single-Cell Transcriptomics, and Experimental Validation.

BACKGROUND: Hypertrophic cardiomyopathy (HCM) is a prevalent inherited cardiovascular disorder characterized by ventricular wall thickening and myocar...

Advancing One Health genomics in Africa: opportunities and challenges for outbreak and antimicrobial resistance control.

SUMMARYAfrica's ongoing struggles with emerging epidemics and antimicrobial resistance (AMR) underscore the urgency of integrating pathogen genomics a...

MIRAGE: a multimodal deep learning framework for interpretable risk assessment of high myopia from genetic and retinal imaging data.

High myopia (HM) is a complex condition influenced by both genetic and environmental factors, yet its early prediction and clinical intervention remai...

Artificial intelligence in food allergen detection and prediction: advances, methodologies, and challenges.

Food allergies affect over 220 million individuals worldwide and present increasing challenges due to complex food matrices and processing-induced pro...

AI'm Here to Help: Enhancing Laboratory Genetic Counseling with Artificial Intelligence.

BACKGROUND: Artificial intelligence (AI) is transforming the fields of genetics and genetic counseling, enhancing both clinical and laboratory practic...

Brassinosteroid-associated transcriptional regulatory networks in rice.

Brassinosteroids (BRs) are crucial in regulating growth, development, and environmental adaptation in plants. To understand the complex regulatory net...

AI-guided prediction of ncRNA biochemical features for therapeutic targeting.

Noncoding RNAs (ncRNAs) are increasingly recognized as important therapeutic targets across human diseases, driving advances in RNA-targeting modaliti...

RNA-protein complexes as key regulators of plant secondary metabolism: Biophysical interactions and functional significance.

RNA-protein complexes (RNPs) are central regulators of post-transcriptional gene expression and are increasingly implicated in controlling when, where...

Acanthamoeba Keratitis: Recent Advances in Diagnosis and Management.

PURPOSE: To review recent advances in the diagnosis and management of acanthamoeba keratitis (AK), emphasizing clinically relevant developments from t...

Machine learning model to identify gut microbiome-derived metabolites as potential biomarkers of autism spectrum disorder: a pilot study.

Autism Spectrum Disorder (ASD) arises from complex and not yet completely understood interactions between genetic and environmental factors. Alongside...

Exploring Ligand Flexibility in Nucleic Acid Scaffolds Using Graph Neural Networks.

Interactions between nucleic acids and ligands are vital for gene regulation and therapy development, yet accurate modeling is hindered by shallow, fl...

Screening of Demethylation-related Biomarkers and Exploration of Regulatory Mechanisms in Esophageal Cancer Patients Based on Machine Learning and Mendelian Randomization.

INTRODUCTION: The aggressive cancer known as Esophageal Squamous Cell Carcinoma (ESCC) has a dismal prognosis. Epigenetic changes such as demethylatio...

Quantitative RNA spatial profiling using single-molecule RNA FISH on plant tissue cryosections.

Single-molecule fluorescence in situ hybridization (smFISH) has emerged as a powerful tool to study gene expression dynamics with unparalleled precisi...

Molecular Encoding during Amplification Enables Multiplex Nanopore Profiling of Small Noncoding RNAs.

Many cancers are characterized by the coordinated dysregulation of multiple small noncoding RNAs (sncRNAs), yet fluorescence-based assays such as quan...

Machine learning-guided drug repurposing for EGFR inhibition using scaffold-split validation, docking, and molecular dynamics.

Aberrant epidermal growth factor receptor (EGFR) signaling drives multiple cancers, but the clinical effectiveness of EGFR inhibitors is limited by re...