AIMC Topic: Protein Interaction Mapping

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Target Identification Using Homopharma and Network-Based Methods for Predicting Compounds Against Dengue Virus-Infected Cells.

Molecules (Basel, Switzerland) Apr 18, 2020
Drug target prediction is an important method for drug discovery and design, can disclose the potential inhibitory effect of active compounds, and is particularly relevant to many diseases that have the potential to kill, such as dengue, but lack any...
Humans Neural Networks, Computer Drug Discovery Antiviral Agents Host-Pathogen Interactions Virus Replication Protein Interaction Mapping Dengue Protein Interaction Maps Computational Biology Lipids Dengue Virus
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Energy-based graph convolutional networks for scoring protein docking models.

Proteins Mar 16, 2020
Structural information about protein-protein interactions, often missing at the interactome scale, is important for mechanistic understanding of cells and rational discovery of therapeutics. Protein docking provides a computational alternative for su...
Humans Software Research Design Structural Homology, Protein Protein Conformation, alpha-Helical Protein Conformation, beta-Strand Ligands Binding Sites Thermodynamics Computer Graphics Peptides Protein Binding Protein Interaction Mapping Molecular Docking Simulation Protein Multimerization Proteins Deep Learning Protein Interaction Domains and Motifs Benchmarking Amino Acid Sequence
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Prediction of Protein-Protein Interaction Sites Using Convolutional Neural Network and Improved Data Sets.

International journal of molecular sciences Jan 11, 2020
Protein-protein interaction (PPI) sites play a key role in the formation of protein complexes, which is the basis of a variety of biological processes. Experimental methods to solve PPI sites are expensive and time-consuming, which has led to the dev...
Reproducibility of Results Animals Protein Binding Datasets as Topic Binding Sites Protein Interaction Mapping Humans Neural Networks, Computer
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Using Weighted Extreme Learning Machine Combined With Scale-Invariant Feature Transform to Predict Protein-Protein Interactions From Protein Evolutionary Information.

IEEE/ACM transactions on computational biology and bioinformatics Jan 10, 2020
Protein-Protein Interactions (PPIs) play an irreplaceable role in biological activities of organisms. Although many high-throughput methods are used to identify PPIs from different kinds of organisms, they have some shortcomings, such as high cost an...
Computational Biology Evolution, Molecular Proteins Databases, Protein Machine Learning Animals Protein Interaction Maps Sequence Analysis, Protein Helicobacter pylori Amino Acid Sequence Protein Interaction Mapping Saccharomyces cerevisiae Proteins Humans
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GO2Vec: transforming GO terms and proteins to vector representations via graph embeddings.

BMC genomics Dec 24, 2019
BACKGROUND: Semantic similarity between Gene Ontology (GO) terms is a fundamental measure for many bioinformatics applications, such as determining functional similarity between genes or proteins. Most previous research exploited information content ...
Gene Ontology Protein Interaction Mapping Saccharomyces cerevisiae Proteins Humans
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JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants.

BMC genomics Dec 24, 2019
BACKGROUND: Jatropha curcas is an oil-bearing plant, and has seeds with high oil content (~ 40%). Several advantages, such as easy genetic transformation and short generation duration, have led to the emergence of J. curcas as a model for woody energ...
Software Gene Expression Profiling Gene Regulatory Networks Protein Interaction Mapping Genomics Models, Biological Genes, Plant Knowledge Bases Jatropha Plant Proteins
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Identification of aberrantly methylated‑differentially expressed genes and gene ontology in prostate cancer.

Molecular medicine reports Dec 11, 2019
Prostate cancer (PCa) is the most frequent urological malignancy in men worldwide. DNA methylation has an essential role in the etiology and pathogenesis of PCa. The purpose of the present study was to identify the aberrantly methylated‑differentiall...
Male Gene Ontology Humans Gene Expression Profiling Protein Interaction Mapping Reproducibility of Results Gene Expression Regulation, Neoplastic Gene Regulatory Networks DNA Methylation Prostatic Neoplasms Kaplan-Meier Estimate
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Integrated structural modeling and super-resolution imaging resolve GPCR oligomers.

Progress in molecular biology and translational science Dec 6, 2019
Formation of G protein-coupled receptors (GPCRs) dimers and higher order oligomers represents a key mechanism in pleiotropic signaling, yet how individual protomers function within oligomers remains poorly understood. For the Class A/rhodopsin subfam...
Protein Structure, Secondary Protein Multimerization Allosteric Site Fluorescence Resonance Energy Transfer Neural Networks, Computer Receptors, G-Protein-Coupled Crystallography, X-Ray Machine Learning Mutation Protein Interaction Mapping Animals Software Molecular Dynamics Simulation Humans Algorithms Protein Binding Ligands Computational Biology Support Vector Machine
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Multimodal deep representation learning for protein interaction identification and protein family classification.

BMC bioinformatics Dec 2, 2019
BACKGROUND: Protein-protein interactions(PPIs) engage in dynamic pathological and biological procedures constantly in our life. Thus, it is crucial to comprehend the PPIs thoroughly such that we are able to illuminate the disease occurrence, achieve ...
Saccharomyces cerevisiae Protein Interaction Mapping Databases, Protein Area Under Curve Amino Acid Sequence Neural Networks, Computer Algorithms Reproducibility of Results Animals Deep Learning ROC Curve Protein Binding Proteins Humans
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Improving neural protein-protein interaction extraction with knowledge selection.

Computational biology and chemistry Oct 23, 2019
Protein-protein interaction (PPI) extraction from published scientific literature provides additional support for precision medicine efforts. Meanwhile, knowledge bases (KBs) contain huge amounts of structured information of protein entities and thei...
Datasets as Topic Protein Interaction Mapping Proteins Models, Molecular Knowledge Bases
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