AIMC Topic: Phenotype

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Comparing statistical learning methods for complex trait prediction from gene expression.

PloS one
Accurate prediction of complex traits is an important task in quantitative genetics. Genotypes have been used for trait prediction using a variety of methods such as mixed models, Bayesian methods, penalized regression methods, dimension reduction me...

Association Between Aortic Imaging Features and Impaired Glucose Metabolism: A Deep Learning Population Phenotyping Approach.

Academic radiology
RATIONALE AND OBJECTIVES: Type 2 diabetes is a known risk factor for vascular disease with an impact on the aorta. The aim of this study was to develop a deep learning framework for quantification of aortic phenotypes from magnetic resonance imaging ...

Comparing Phenotypes for Acute and Long-Term Response to Atrial Fibrillation Ablation Using Machine Learning.

Circulation. Arrhythmia and electrophysiology
BACKGROUND: It is difficult to identify patients with atrial fibrillation (AF) most likely to respond to ablation. While any arrhythmia patient may recur after acutely successful ablation, AF is unusual in that patients may have long-term arrhythmia ...

Machine learning-based unsupervised phenotypic clustering analysis of patients with IgA nephropathy: Distinct therapeutic responses of different groups.

Chinese medical journal
BACKGROUND: Immunoglobulin A nephropathy (IgAN) has a heterogeneous clinical presentation. Comparison of different IgAN subgroups may facilitate the application of more targeted therapies. This study was aimed to distinct disease phenotypes in IgAN a...

Learning Phenotype Associated Signature in Spatial Transcriptomics with PASSAGE.

Small methods
Spatially resolved transcriptomics (SRT) is poised to advance the understanding of cellular organization within complex tissues under various physiological and pathological conditions at unprecedented resolution. Despite the development of numerous c...

Multimodal learning for mapping genotype-phenotype dynamics.

Nature computational science
How complex phenotypes emerge from intricate gene expression patterns is a fundamental question in biology. Integrating high-content genotyping approaches such as single-cell RNA sequencing and advanced learning methods such as language models offers...

Mental health phenotypes of well-controlled HIV in Uganda.

Frontiers in public health
INTRODUCTION: The phenotypic expression of mental health (MH) conditions among people with HIV (PWH) in Uganda and worldwide are heterogeneous. Accordingly, there has been a shift toward identifying MH phenotypes using data-driven methods capable of ...

Analysis of the genetic basis of fiber-related traits and flowering time in upland cotton using machine learning.

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
Cotton is an important crop for fiber production, but the genetic basis underlying key agronomic traits, such as fiber quality and flowering days, remains complex. While machine learning (ML) has shown great potential in uncovering the genetic archit...

Analyzing the relationship between gene expression and phenotype in space-flown mice using a causal inference machine learning ensemble.

Scientific reports
Spaceflight has several detrimental effects on human and rodent health. For example, liver dysfunction is a common phenotype observed in space-flown rodents, and this dysfunction is partially reflected in transcriptomic changes. Studies linking trans...