AIMC Topic: Protein Interaction Mapping

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Residue-Frustration-Based Prediction of Protein-Protein Interactions Using Machine Learning.

The journal of physical chemistry. B Feb 16, 2022
The study of protein-protein interactions (PPIs) is important in understanding the function of proteins. However, it is still a challenge to investigate the transient protein-protein interaction by experiments. Hence, the computational prediction for...
Algorithms Computational Biology Proteins Protein Interaction Mapping Neural Networks, Computer Machine Learning
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Deep Neural Network and Extreme Gradient Boosting Based Hybrid Classifier for Improved Prediction of Protein-Protein Interaction.

IEEE/ACM transactions on computational biology and bioinformatics Feb 3, 2022
Understanding the behavioral process of life and disease-causing mechanism, knowledge regarding protein-protein interactions (PPI) is essential. In this paper, a novel hybrid approach combining deep neural network (DNN) and extreme gradient boosting ...
Software Amino Acids Saccharomyces cerevisiae Humans Neural Networks, Computer Protein Interaction Mapping
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Harnessing protein folding neural networks for peptide-protein docking.

Nature communications Jan 10, 2022
Highly accurate protein structure predictions by deep neural networks such as AlphaFold2 and RoseTTAFold have tremendous impact on structural biology and beyond. Here, we show that, although these deep learning approaches have originally been develop...
Neural Networks, Computer Protein Conformation, beta-Strand Amino Acid Sequence Protein Folding Binding Sites Protein Interaction Domains and Motifs Protein Interaction Mapping Protein Binding Protein Conformation, alpha-Helical Proteins Models, Molecular Software Peptides Molecular Docking Simulation
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Super.Complex: A supervised machine learning pipeline for molecular complex detection in protein-interaction networks.

PloS one Dec 31, 2021
Characterization of protein complexes, i.e. sets of proteins assembling into a single larger physical entity, is important, as such assemblies play many essential roles in cells such as gene regulation. From networks of protein-protein interactions, ...
Proteins Protein Interaction Maps Humans Protein Interaction Mapping Supervised Machine Learning Protein Binding COVID-19 Viral Proteins Computational Biology SARS-CoV-2
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Computed structures of core eukaryotic protein complexes.

Science (New York, N.Y.) Dec 10, 2021
Protein-protein interactions play critical roles in biology, but the structures of many eukaryotic protein complexes are unknown, and there are likely many interactions not yet identified. We take advantage of advances in proteome-wide amino acid coe...
Saccharomyces cerevisiae Proteins DNA Repair Protein Biosynthesis Saccharomyces cerevisiae Ubiquitin Protein Interaction Mapping Homologous Recombination Chromosome Segregation Ligases Ribosomes Multiprotein Complexes Acyltransferases Computational Biology Proteome Membrane Proteins Evolution, Molecular Models, Molecular Computer Simulation Protein Conformation Deep Learning Protein Interaction Maps
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DeepRank: a deep learning framework for data mining 3D protein-protein interfaces.

Nature communications Dec 3, 2021
Three-dimensional (3D) structures of protein complexes provide fundamental information to decipher biological processes at the molecular scale. The vast amount of experimentally and computationally resolved protein-protein interfaces (PPIs) offers th...
Protein Interaction Mapping Protein Interaction Domains and Motifs Crystallography Molecular Docking Simulation Data Mining Datasets as Topic Deep Learning Protein Interaction Maps
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AI reveals structures of protein complexes.

Science (New York, N.Y.) Nov 11, 2021
Artificial Intelligence Software Protein Interaction Mapping Deep Learning Proteins Eukaryota Fungal Proteins Protein Conformation
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pdCSM-PPI: Using Graph-Based Signatures to Identify Protein-Protein Interaction Inhibitors.

Journal of chemical information and modeling Nov 1, 2021
Protein-protein interactions are promising sites for development of selective drugs; however, they have generally been viewed as challenging targets. Molecules targeting protein-protein interactions tend to be larger and more lipophilic than other dr...
Software Protein Interaction Mapping Machine Learning
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WinBinVec: Cancer-Associated Protein-Protein Interaction Extraction and Identification of 20 Various Cancer Types and Metastasis Using Different Deep Learning Models.

IEEE journal of biomedical and health informatics Oct 5, 2021
Biophysical protein-protein interactions perform dominant roles in the initiation and progression of many cancer-related pathways. A protein-protein interaction might play different roles in diverse cancer types. Hence, prioritizing the PPIs in each ...
Proteins Amino Acid Sequence Protein Interaction Mapping Neoplasms Deep Learning Computational Biology Humans Neural Networks, Computer
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Applications of artificial intelligence to drug design and discovery in the big data era: a comprehensive review.

Molecular diversity Jun 10, 2021
Artificial intelligence (AI) renders cutting-edge applications in diverse sectors of society. Due to substantial progress in high-performance computing, the development of superior algorithms, and the accumulation of huge biological and chemical data...
Big Data Protein Binding Databases, Pharmaceutical Models, Theoretical Humans Algorithms Artificial Intelligence Drug Design Drug Discovery Protein Interaction Mapping Workflow Proteins Protein Folding Structure-Activity Relationship Data Mining Models, Molecular
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