AIMC Topic: Machine Learning

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Using Machine Learning to Analyze Molecular Dynamics Simulations of Biomolecules.

The journal of physical chemistry. B
Machine learning (ML) techniques have become powerful tools in both industrial and academic settings. Their ability to facilitate analysis of complex data and generation of predictive insights is transforming how scientific problems are approached ac...

A flexible machine learning Mendelian randomization estimator applied to predict the safety and efficacy of sclerostin inhibition.

American journal of human genetics
Mendelian randomization (MR) enables the estimation of causal effects while controlling for unmeasured confounding factors. However, traditional MR's reliance on strong parametric assumptions can introduce bias if these are violated. We describe a ma...

A Spatial Metabolomics Annotation Workflow Leveraging Cyclic Ion Mobility and Machine Learning-Predicted Collision Cross Sections.

Journal of the American Society for Mass Spectrometry
In nontargeted spatial metabolomics, accurate annotation is crucial for understanding metabolites' biological roles and spatial patterns. MS mass spectrometry imaging (MSI) coverage is often incomplete or nonexistent, resulting in many unknown featur...

Extracting Residue Solvent Exposure from Covalent Labeling Data with Machine Learning: A Hybrid Approach for Protein Structure Prediction.

Journal of the American Society for Mass Spectrometry
Hydroxyl radical protein footprinting (HRPF) coupled with mass spectrometry yields information about residue solvent exposure and protein topology. However, data from these experiments are sparse and require computational interpretation to generate u...

Adverse Outcome Pathway and Machine Learning to Predict Drug Induced Seizure Liability.

ACS chemical neuroscience
Central nervous system (CNS) drugs have the highest clinical attrition, often due to CNS-related toxicities such as drug-induced seizures (DIS). Early prediction of DIS risk could reduce failure rates and optimize drug development by prioritizing tes...

Early Prediction of Septic Shock in Emergency Department Using Serum Metabolites.

Journal of the American Society for Mass Spectrometry
Early recognition of septic shock is crucial for improving clinical management and patient outcomes, especially in the emergency department (ED). This study conducted serum metabolomic profiling on ED patients diagnosed with septic shock (n = 32) and...

Aryl Organophosphate Esters and Hemostatic Disruption: Identifying Risk through Machine Learning and Experimental Validation.

Environmental science & technology
Organophosphate esters (OPEs) have emerged as a significant environmental concern due to their widespread occurrence and potential human health risks. The presence of OPEs in human blood suggests direct interactions with hematological components, whi...

Federated Machine Learning Enables Risk Management and Privacy Protection in Water Quality.

Environmental science & technology
Real-time water quality risk management in wastewater treatment plants (WWTPs) requires extensive data, and data sharing is still just a slogan due to data privacy issues. Here we show an adaptive water system federated averaging (AWSFA) framework ba...

DeepAllo: allosteric site prediction using protein language model (pLM) with multitask learning.

Bioinformatics (Oxford, England)
MOTIVATION: Allostery, the process by which binding at one site perturbs a distant site, is being rendered as a key focus in the field of drug development with its substantial impact on protein function. The identification of allosteric pockets (site...

Machine Learning Prediction and Validation of Plasma Concentration-Time Profiles.

Molecular pharmaceutics
Recent research has increasingly focused on using machine learning for covariate selection in population pharmacokinetics (PPK) analysis. However, few studies have explored the prediction of plasma concentration profiles of drugs using nonlinear mixe...