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Kinetics

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High-throughput Kinetics using capillary Electrophoresis and Robotics (HiKER) platform used to study T7, T3, and Sp6 RNA polymerase misincorporation.

PloS one
T7 RNA Polymerase (RNAP) is a widely used enzyme with recent applications in the production of RNA vaccines. For over 50 years denaturing sequencing gels have been used as key analysis tools for probing the nucleotide addition mechanisms of T7 RNAP a...

A novel deep learning approach to identify embryo morphokinetics in multiple time lapse systems.

Scientific reports
The use of time lapse systems (TLS) in In Vitro Fertilization (IVF) labs to record developing embryos has paved the way for deep-learning based computer vision algorithms to assist embryologists in their morphokinetic evaluation. Today, most of the l...

Deep Learning Unravels Differences Between Kinematic and Kinetic Gait Cycle Time Series from Two Control Samples of Healthy Children Assessed in Two Different Gait Laboratories.

Sensors (Basel, Switzerland)
We investigate the application of deep learning in comparing gait cycle time series from two groups of healthy children, each assessed in different gait laboratories. Both laboratories used similar gait analysis protocols with minimal differences in ...

Deep Learning-Based Ion Channel Kinetics Analysis for Automated Patch Clamp Recording.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
The patch clamp technique is a fundamental tool for investigating ion channel dynamics and electrophysiological properties. This study proposes the first artificial intelligence framework for characterizing multiple ion channel kinetics of whole-cell...

Combining Group Contribution Method and Semisupervised Learning to Build Machine Learning Models for Predicting Hydroxyl Radical Rate Constants of Water Contaminants.

Environmental science & technology
Machine learning is an effective tool for predicting reaction rate constants for many organic compounds with the hydroxyl radical (HO). Previously reported models have achieved relatively good performance, but due to scarce data (<1400 records), the ...

Integrating Chemical Mechanisms and Feature Engineering in Machine Learning Models: A Novel Approach to Analyzing HONO Budget.

Environmental science & technology
Nitrous acid (HONO) serves as the primary source of OH radicals in the atmosphere, exerting significant impacts on atmospheric secondary pollution. The heterogeneous reactions of NO on surfaces and photolysis of particulate nitrate or adsorbed nitric...

Pretrained Deep Neural Network Kin-SiM for Single-Molecule FRET Trace Idealization.

The journal of physical chemistry. B
Single-molecule fluorescence resonance energy transfer (smFRET) has emerged as a pivotal technique for probing biomolecular dynamics over time at nanometer scales. Quantitative analyses of smFRET time traces remain challenging due to confounding fact...

Kinetics, central composite design and artificial neural network modelling of ciprofloxacin antibiotic photodegradation using fabricated cobalt-doped zinc oxide nanoparticles.

Scientific reports
Cobalt-doped zinc oxide nanoparticles were fabricated and examined in this study as a potential photocatalyst for the antibiotic ciprofloxacin (CIPF) degradation when exposed to visible LED light. The Co-precipitation technique created Cobalt-doped z...

Biochemical and Computational Characterization of Haloalkane Dehalogenase Variants Designed by Generative AI: Accelerating the S2 Step.

Journal of the American Chemical Society
Generative artificial intelligence (AI) models trained on natural protein sequences have been used to design functional enzymes. However, their ability to predict individual reaction steps in enzyme catalysis remains unclear, limiting the potential u...

PreTKcat: A pre-trained representation learning and machine learning framework for predicting enzyme turnover number.

Computational biology and chemistry
The enzyme turnover number (k) is crucial for understanding enzyme kinetics and optimizing biotechnological processes. However, experimentally measured k values are limited due to the high cost and labor intensity of wet-lab measurements, necessitati...