AIMC Topic: Protein Interaction Mapping
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Predicting protein subcellular location with network embedding and enrichment features.
Biochimica et biophysica acta. Proteins and proteomics
Jun 25, 2020
The subcellular location of a protein is highly related to its function. Identifying the location of a given protein is an essential step for investigating its related problems. Traditional experimental methods can produce solid determination. Howeve...
Prediction of Protein-Protein Interactions with Local Weight-Sharing Mechanism in Deep Learning.
BioMed research international
Jun 13, 2020
Protein-protein interactions (PPIs) are important for almost all cellular processes, including metabolic cycles, DNA transcription and replication, and signaling cascades. The experimental methods for identifying PPIs are always time-consuming and ex...
Identification of feature risk pathways of smoking-induced lung cancer based on SVM.
PloS one
Jun 4, 2020
OBJECTIVE: The present study aims to explore the role of smoking factors in the risk of lung cancer and screen the feature risk pathways of smoking-induced lung cancer.
BioConceptVec: Creating and evaluating literature-based biomedical concept embeddings on a large scale.
PLoS computational biology
Apr 23, 2020
A massive number of biological entities, such as genes and mutations, are mentioned in the biomedical literature. The capturing of the semantic relatedness of biological entities is vital to many biological applications, such as protein-protein inter...
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...
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...
Computer Graphics
Protein Interaction Mapping
Protein Multimerization
Protein Interaction Domains and Motifs
Ligands
Binding Sites
Thermodynamics
Structural Homology, Protein
Protein Conformation, alpha-Helical
Protein Conformation, beta-Strand
Peptides
Molecular Docking Simulation
Deep Learning
Protein Binding
Proteins
Benchmarking
Amino Acid Sequence
Humans
Software
Research Design
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...
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...
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 ...
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...
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