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Models, Molecular

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Modeling of Cu(II) Adsorption from an Aqueous Solution Using an Artificial Neural Network (ANN).

Molecules (Basel, Switzerland)
This research optimized the adsorption performance of rice husk char (RHC4) for copper (Cu(II)) from an aqueous solution. Various physicochemical analyses such as Fourier transform infrared spectroscopy (FTIR), field-emission scanning electron micros...

In vitro and in silico genetic toxicity screening of flavor compounds and other ingredients in tobacco products with emphasis on ENDS.

Journal of applied toxicology : JAT
Electronic nicotine delivery systems (ENDS) are regulated tobacco products and often contain flavor compounds. Given the concern of increased use and the appeal of ENDS by young people, evaluating the potential of flavors to induce DNA damage is impo...

Prediction of hERG potassium channel blockage using ensemble learning methods and molecular fingerprints.

Toxicology letters
The human ether-a-go-go-related gene (hERG) encodes a tetrameric potassium channel called Kv11.1. This channel can be blocked by certain drugs, which leads to long QT syndrome, causing cardiotoxicity. This is a significant problem during drug develop...

DEEPSMP: A deep learning model for predicting the ectodomain shedding events of membrane proteins.

Journal of bioinformatics and computational biology
Membrane proteins play essential roles in modern medicine. In recent studies, some membrane proteins involved in ectodomain shedding events have been reported as the potential drug targets and biomarkers of some serious diseases. However, there are f...

Machine Estimation of Drug Melting Properties and Influence on Solubility Prediction.

Molecular pharmaceutics
There has been much recent interest in machine learning (ML) and molecular quantitative structure property relationships (QSPR). The present research evaluated modern ML-based methods implemented in commercial software (COSMOquick and Molecular Model...

The Study on the hERG Blocker Prediction Using Chemical Fingerprint Analysis.

Molecules (Basel, Switzerland)
Human ether-a-go-go-related gene (hERG) potassium channel blockage by small molecules may cause severe cardiac side effects. Thus, it is crucial to screen compounds for activity on the hERG channels early in the drug discovery process. In this study,...

Predicting RNA SHAPE scores with deep learning.

RNA biology
Secondary structure prediction approaches rely typically on models of equilibrium free energies that are themselves based on in vitro physical chemistry. Recent transcriptome-wide experiments of in vivo RNA structure based on SHAPE-MaP experiments pr...

Learning Molecular Representations for Medicinal Chemistry.

Journal of medicinal chemistry
The accurate modeling and prediction of small molecule properties and bioactivities depend on the critical choice of molecular representation. Decades of informatics-driven research have relied on expert-designed molecular descriptors to establish qu...

Privileged Scaffold Analysis of Natural Products with Deep Learning-based Indication Prediction Model.

Molecular informatics
Natural products play a vital role in the drug discovery and development process as an important source of reliable and novel lead structures. But the existing criteria for drug leads were usually developed for synthetic compounds and cannot be direc...