AIMC Topic: Phenotype

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Machine learning-based label-free macrophage phenotyping in immune-material interactions.

Journal of materials chemistry. B
The rapid advancement of implantable biomedical materials necessitates a comprehensive understanding of macrophage interactions to optimize implant immunocompatibility. Macrophages, key immune regulators, exhibit phenotypic plasticity by polarizing i...

Personalized prediction of negative affect in individuals with serious mental illness followed using long-term multimodal mobile phenotyping.

Translational psychiatry
Heightened negative affect is a core feature of serious mental illness. Over 90% of American adults own a smartphone, equipped with an array of sensors which can continuously and unobtrusively measure behaviors (e.g., activity levels, location, and p...

Identification of predictive subphenotypes for clinical outcomes using real world data and machine learning.

Nature communications
Predicting treatment response is an important problem in real-world applications, where the heterogeneity of the treatment response remains a significant challenge in practice. Unsupervised machine learning methods have been proposed to address this ...

Machine learning-based prediction of restless legs syndrome using digital phenotypes from wearables and smartphone data.

Scientific reports
Restless legs syndrome (RLS) is a relatively common neurosensory disorder that causes an irresistible urge for leg movement. RLS causes sleep disturbances and reduced quality of life, but accurate diagnosis remains challenging owing to the reliance o...

Deep scSTAR: leveraging deep learning for the extraction and enhancement of phenotype-associated features from single-cell RNA sequencing and spatial transcriptomics data.

Briefings in bioinformatics
Single-cell sequencing has advanced our understanding of cellular heterogeneity and disease pathology, offering insights into cellular behavior and immune mechanisms. However, extracting meaningful phenotype-related features is challenging due to noi...

Rethinking GWAS: how lessons from genetic screens and artificial intelligence could reveal biological mechanisms.

Bioinformatics (Oxford, England)
MOTIVATION: Modern single-cell omics data are key to unraveling the complex mechanisms underlying risk for complex diseases revealed by genome-wide association studies (GWAS). Phenotypic screens in model organisms have several important parallels to ...

Breaking the barrier of human-annotated training data for machine learning-aided plant research using aerial imagery.

Plant physiology
Machine learning (ML) can accelerate biological research. However, the adoption of such tools to facilitate phenotyping based on sensor data has been limited by (i) the need for a large amount of human-annotated training data for each context in whic...

Post-composing ontology terms for efficient phenotyping in plant breeding.

Database : the journal of biological databases and curation
Ontologies are widely used in databases to standardize data, improving data quality, integration, and ease of comparison. Within ontologies tailored to diverse use cases, post-composing user-defined terms reconciles the demands for standardization on...

The Unified Phenotype Ontology : a framework for cross-species integrative phenomics.

Genetics
Phenotypic data are critical for understanding biological mechanisms and consequences of genomic variation, and are pivotal for clinical use cases such as disease diagnostics and treatment development. For over a century, vast quantities of phenotype...