AIMC Topic: Genotype

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Deep-learning analysis of 3D microarchitectural remodeling in hypertrophic cardiomyopathy.

Science (New York, N.Y.)
Hypertrophic cardiomyopathy (HCM), a genetic heart disease defined by unexplained cardiac wall thickening, is a leading cause of sudden death worldwide. However, the three-dimensional organization of cardiac tissue underlying left ventricular hypertr...

Bayesian neural networks for genomic prediction: uncertainty quantification and SNP interpretation with SHAP and GWAS.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
This study presents a Bayesian neural networks framework with LASSO regularization and the GSMeSP interpretability tool, enabling accurate, uncertainty-aware, and biologically interpretable genomic prediction. Deep learning offers significant potenti...

Exercise mitigates high-fat diet-induced cardiac dysfunction via APOE genotype- and immune-dependent mechanisms: A photon-counting CT study in adult mice.

PloS one
BACKGROUND: Cardiovascular dysfunction frequently accompanies aging and is often worsened by adverse lifestyle factors and genetic susceptibility. The apolipoprotein E (APOE) gene modulates susceptibility to cardiovascular disease, but how exercise a...

Evaluation of Lens culinaris germplasm against ascochyta blight by applying phenotyping and defense genes attributes.

Scientific reports
Lentil Ascochyta blight (caused by Ascochyta lentis) is one of the most important limiting factors of lentil cultivation and production in most regions of the world. Introducing resistance sources against the pathogen is a suitable strategy to conque...

Improving nitrogen use efficiency in rice by estimating leaf nitrogen content with near-infrared spectroscopy and chemometric modeling.

Scientific reports
Accurate nitrogen management in rice (Oryza sativa L.) is essential for optimizing both crop productivity and environmental sustainability. This study evaluated the potential of Near-Infrared Spectroscopy (NIRS) combined with chemometric modeling to ...

Towards a practical tool to identify genotype using high-speed videomicroscopy.

Thorax
The diagnosis of primary ciliary dyskinesia (PCD) can be challenging in patients with mutations in the gene, despite using electron microscopy tomography and ciliary motion analysis. Also, mutational analysis is hindered by a paralogous copy of the ...

Phenotype-driven leaf deep metabolomics framework depicts key metabolisms and metabolites associated with yield traits in rice.

Planta
This study links rice leaf metabolome to yield traits, identifying 13 key metabolites through computational metabolomics. These enable early prediction of high-yield varieties, enhancing screening strategies in crop breeding. Metabolites serve as dyn...

Machine learning for genomic prediction of growth traits in aquaculture: a case study of the Australasian snapper (Chrysophrys auratus).

BMC bioinformatics
BACKGROUND: Chrysophrys auratus (family: Sparidae), commonly known as Australasian snapper, is a warm-water species being developed as a candidate for aquaculture in New Zealand. Genomic selection of elite snapper offers significant potential to acce...

Machine learning models incorporating genotype and ancestry improve severe asthma risk prediction.

Scientific reports
This study proposes a novel machine learning (ML)-based stacking technique that integrates Single Nucleotide Polymorphisms (SNPs) and inferred local ancestry (LA) to improve predictive accuracy in clinical outcomes. Asthma, particularly severe asthma...

Obscured-ensemble models for genomic prediction.

PloS one
Genomic Prediction (GP) uses dense whole-genome marker sets from lines of a crop to predict agronomic traits for untested genotypes. In recent years, deep learning (DL) approaches for genomic prediction have demonstrated state-of-the-art results. How...