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Genotype

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Assessing the cardioprotective effects of exercise in APOE mouse models using deep learning and photon-counting micro-CT.

PloS one
BACKGROUND: The allelic variations of the apolipoprotein E (APOE) gene play a critical role in regulating lipid metabolism and significantly impact cardiovascular disease risk (CVD). This study aimed to evaluate the impact of exercise on cardiac stru...

Biological Prior Knowledge-Embedded Deep Neural Network for Plant Genomic Prediction.

Genes
Genomic prediction is a powerful approach that predicts phenotypic traits from genotypic information, enabling the acceleration of trait improvement in plant breeding. Traditional genomic prediction methods have primarily relied on linear mixed mode...

Integrating Deep Learning Models with Genome-Wide Association Study-Based Identification Enhanced Phenotype Predictions in Group A .

Journal of microbiology and biotechnology
Group A (GAS) is a major pathogen with diverse clinical outcomes linked to its genetic variability, making accurate phenotype prediction essential. While previous studies have identified many GAS-associated genetic factors, translating these finding...

Enhanced diagnosis of multi-drug-resistant microbes using group association modeling and machine learning.

Nature communications
New solutions are needed to detect genotype-phenotype associations involved in microbial drug resistance. Herein, we describe a Group Association Model (GAM) that accurately identifies genetic variants linked to drug resistance and mitigates false-po...

SVLearn: a dual-reference machine learning approach enables accurate cross-species genotyping of structural variants.

Nature communications
Structural variations (SVs) are diverse forms of genetic alterations and drive a wide range of human diseases. Accurately genotyping SVs, particularly occurring at repetitive genomic regions, from short-read sequencing data remains challenging. Here,...

From pixels to prognosis: leveraging radiomics and machine learning to predict IDH1 genotype in gliomas.

Neurosurgical review
Gliomas are the most common primary tumors of the central nervous system, and advances in genetics and molecular medicine have significantly transformed their classification and treatment. This study aims to predict the IDH1 genotype in gliomas using...

Sweet pepper yield modeling via deep learning and selection of superior genotypes using GBLUP and MGIDI.

Scientific reports
Intelligent knowledge about Capsicum annuum L. germplasm could lead to effective management of germplasm. Here, 29 accessions of sweet pepper were investigated in two separate randomized complete block design with three replications in the field cond...

Electrocardiographic Discrimination of Long QT Syndrome Genotypes: A Comparative Analysis and Machine Learning Approach.

Sensors (Basel, Switzerland)
Long QT syndrome (LQTS) presents a group of inheritable channelopathies with prolonged ventricular repolarization, leading to syncope, ventricular tachycardia, and sudden death. Differentiating LQTS genotypes is crucial for targeted management and tr...

Analysis of protein determinants of genotype-specific properties of group a rotaviruses using machine learning.

Computers in biology and medicine
Group A rotaviruses (RVAs) are the leading cause of viral diarrhoea across various host species, including mammals and birds. The VP7 and VP4 proteins of these viruses play critical roles in determining genotype specificity, influencing viral infecti...

Prediction of new-onset migraine using clinical-genotypic data from the HUNT Study: a machine learning analysis.

The journal of headache and pain
BACKGROUND: Migraine is associated with a range of symptoms and comorbid disorders and has a strong genetic basis, but the currently identified risk loci only explain a small portion of the heritability, often termed the "missing heritability". We ai...