AIMC Topic: Nucleic Acids

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Minimum Functional Length Analysis of K-Mer Based on BPNN.

IEEE/ACM transactions on computational biology and bioinformatics Oct 10, 2022
BP neural network (BPNN), as a multilayer feed-forward network, can realize the deep cognition to target data and high accuracy to output results. However, there were still no related research of k-mer based on BPNN yet. In present study, BPNN was us...
Nucleic Acids Sequence Analysis, DNA Base Sequence Neural Networks, Computer Algorithms
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Designing sensitive viral diagnostics with machine learning.

Nature biotechnology Mar 3, 2022
Design of nucleic acid-based viral diagnostics typically follows heuristic rules and, to contend with viral variation, focuses on a genome's conserved regions. A design process could, instead, directly optimize diagnostic effectiveness using a learne...
Neural Networks, Computer Machine Learning Nucleic Acids
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Protein embeddings and deep learning predict binding residues for various ligand classes.

Scientific reports Dec 13, 2021
One important aspect of protein function is the binding of proteins to ligands, including small molecules, metal ions, and macromolecules such as DNA or RNA. Despite decades of experimental progress many binding sites remain obscure. Here, we propose...
Molecular Docking Simulation Deep Learning Metals Software Sequence Analysis, Protein Nucleic Acids Protein Conformation Protein Binding Binding Sites Ligands
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Infrared Metasurface Augmented by Deep Learning for Monitoring Dynamics between All Major Classes of Biomolecules.

Advanced materials (Deerfield Beach, Fla.) Feb 22, 2021
Insights into the fascinating molecular world of biological processes are crucial for understanding diseases, developing diagnostics, and effective therapeutics. These processes are complex as they involve interactions between four major classes of b...
Liposomes Nucleic Acids Infrared Rays Sucrose Nucleotides Lab-On-A-Chip Devices Spectrophotometry, Infrared Deep Learning Proteins
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CD-NuSS: A Web Server for the Automated Secondary Structural Characterization of the Nucleic Acids from Circular Dichroism Spectra Using Extreme Gradient Boosting Decision-Tree, Neural Network and Kohonen Algorithms.

Journal of molecular biology Aug 22, 2020
Nucleic acids exhibit a repertoire of conformational preference depending on the sequence and environment. Circular dichroism (CD) is an essential and valuable tool for monitoring such secondary structural conformations of nucleic acids. Nonetheless,...
Automation Nucleic Acids Nucleic Acid Conformation Circular Dichroism User-Computer Interface Decision Trees Internet Software Algorithms Neural Networks, Computer
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The sweet detection of rolling circle amplification: Glucose-based electrochemical genosensor for the detection of viral nucleic acid.

Biosensors & bioelectronics Dec 30, 2019
Herein, an isothermal padlock probe-based assay for the simple and portable detection of pathogens coupled with a glucose oxidase (GOx)-based electrochemical readout is reported. Infectious diseases remain a constant threat on a global scale, as in r...
Limit of Detection Glucose Glucose Oxidase Ebolavirus Humans DNA, Viral Nucleic Acids Biosensing Techniques Nucleic Acid Amplification Techniques Electrochemical Techniques
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Exploration of the nanomedicine-design space with high-throughput screening and machine learning.

Nature biomedical engineering Feb 18, 2019
Only a tiny fraction of the nanomedicine-design space has been explored, owing to the structural complexity of nanomedicines and the lack of relevant high-throughput synthesis and analysis methods. Here, we report a methodology for determining struct...
Humans Alkaline Phosphatase Cell Line Machine Learning Liposomes Structure-Activity Relationship Animals High-Throughput Screening Assays Nanomedicine Oligonucleotides Nanoparticles Nucleic Acids
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A novel strategy for retention prediction of nucleic acids with their sequence information in ion-pair reversed phase liquid chromatography.

Talanta Apr 10, 2018
In this work, retention behaviors of oligonucleotides and double-stranded deoxyribonucleic acids (dsDNAs) have been investigated in ion-pair reversed-phase liquid chromatography (IP-RPLC). We demonstrated that classic linear solvent strength (LSS) mo...
Chromatography, High Pressure Liquid Chromatography, Reverse-Phase Base Sequence Support Vector Machine Nucleic Acids
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Representability of algebraic topology for biomolecules in machine learning based scoring and virtual screening.

PLoS computational biology Jan 8, 2018
This work introduces a number of algebraic topology approaches, including multi-component persistent homology, multi-level persistent homology, and electrostatic persistence for the representation, characterization, and description of small molecules...
Static Electricity Protein Interaction Mapping Machine Learning Ligands Algorithms Nucleic Acids Databases, Protein Humans Computational Biology Protein Binding Area Under Curve Neural Networks, Computer Models, Neurological Molecular Dynamics Simulation Proteins
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DEMO-EMol: modeling protein-nucleic acid complex structures from cryo-EM maps by coupling chain assembly with map segmentation.

Nucleic acids research Jul 7, 2025
Atomic structure modeling is a crucial step in determining the structures of protein complexes using cryo-electron microscopy (cryo-EM). This work introduces DEMO-EMol, an improved server that integrates deep learning-based map segmentation and chain...
Software Deep Learning Protein Conformation Nucleic Acid Conformation Proteins Cryoelectron Microscopy Models, Molecular Nucleic Acids
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