AIMC Topic: Phenotype

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Ensemble-learning approach improves fracture prediction using genomic and phenotypic data.

Osteoporosis international : a journal established as result of cooperation between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA
UNLABELLED: This study presents an innovative ensemble machine learning model integrating genomic and clinical data to enhance the prediction of major osteoporotic fractures in older men. The Super Learner (SL) model achieved superior performance (AU...

Accurate phenotyping of luminal A breast cancer in magnetic resonance imaging: A new 3D CNN approach.

Computers in biology and medicine
Breast cancer (BC) remains a predominant and deadly cancer in women worldwide. By 2040, projections indicate that more than 3 million new cases of breast cancer will emerge annually, culminating in more than 1 million deaths worldwide. Early detectio...

Development and Validation of an Electronic Health Record-Based, Pediatric Acute Respiratory Distress Syndrome Subphenotype Classifier Model.

Pediatric critical care medicine : a journal of the Society of Critical Care Medicine and the World Federation of Pediatric Intensive and Critical Care Societies
OBJECTIVE: To determine if hyperinflammatory and hypoinflammatory pediatric acute respiratory distress syndrome (PARDS) subphenotypes defined using serum biomarkers can be determined solely from electronic health record (EHR) data using machine learn...

Leveraging Automated Machine Learning for Environmental Data-Driven Genetic Analysis and Genomic Prediction in Maize Hybrids.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
Genotype, environment, and genotype-by-environment (G×E) interactions play a critical role in shaping crop phenotypes. Here, a large-scale, multi-environment hybrid maize dataset is used to construct and validate an automated machine learning framewo...

A Knowledge-Guided Graph Learning Approach Bridging Phenotype- and Target-Based Drug Discovery.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
Discovering therapeutic molecules requires the integration of both phenotype-based drug discovery (PDD) and target-based drug discovery (TDD). However, this integration remains challenging due to the inherent heterogeneity, noise, and bias present in...

NPENN: A Noise Perturbation Ensemble Neural Network for Microbiome Disease Phenotype Prediction.

IEEE journal of biomedical and health informatics
With advances in microbiomics, the crucial role of microbes in disease progression is increasingly recognized. However, predicting disease phenotypes using microbiome data remains challenging due to data complexity, heterogeneity, and limited model g...

Multi-Omics Deep-Learning Prediction of Homologous Recombination Deficiency-Like Phenotype Improved Risk Stratification and Guided Therapeutic Decisions in Gynecological Cancers.

IEEE journal of biomedical and health informatics
Homologous recombination deficiency (HRD) is a well-recognized important biomarker in determining the clinical benefits of platinum-based chemotherapy and PARP inhibitor therapy for patients diagnosed with gynecologic cancers. Accurate prediction of ...

Intelligent larval zebrafish phenotype recognition via attention mechanism for high-throughput screening.

Computers in biology and medicine
BACKGROUND: Larval zebrafish phenotypes serve as critical research indicators in fields such as ecotoxicology and safety assessment since phenotypic defects are closely related to alterations of underlying pathway. However, identifying these defects ...

Evaluating feature extraction in ovarian cancer cell line co-cultures using deep neural networks.

Communications biology
Single-cell image analysis is crucial for studying drug effects on cellular morphology and phenotypic changes. Most studies focus on single cell types, overlooking the complexity of cellular interactions. Here, we establish an analysis pipeline to ex...

Genetic association studies using disease liabilities from deep neural networks.

American journal of human genetics
The case-control study is a widely used method for investigating the genetic underpinnings of binary traits. However, long-term, prospective cohort studies often grapple with absent or evolving health-related outcomes. Here, we propose two methods, l...