AIMC Topic: Proteins

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Editorial-Sequences and topology.

Current opinion in structural biology Jun 4, 2017
Proteins Binding Sites Thermodynamics Protein Binding Computational Biology Protein Interaction Domains and Motifs Protein Conformation, alpha-Helical Protein Conformation, beta-Strand Protein Interaction Mapping Protein Multimerization Humans Animals Molecular Docking Simulation Machine Learning
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Subcellular localization prediction of apoptosis proteins based on evolutionary information and support vector machine.

Artificial intelligence in medicine May 24, 2017
OBJECTIVES: In this paper, a high-quality sequence encoding scheme is proposed for predicting subcellular location of apoptosis proteins.
Computational Biology Amino Acid Sequence Apoptosis Regulatory Proteins Evolution, Molecular Proteins Databases, Protein Support Vector Machine Apoptosis
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Protein-Protein Interaction Interface Residue Pair Prediction Based on Deep Learning Architecture.

IEEE/ACM transactions on computational biology and bioinformatics May 19, 2017
MOTIVATION: Proteins usually fulfill their biological functions by interacting with other proteins. Although some methods have been developed to predict the binding sites of a monomer protein, these are not sufficient for prediction of the interactio...
Surface Properties Protein Conformation Binding Sites Computational Biology Proteins Deep Learning Protein Binding Molecular Docking Simulation
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Network mirroring for drug repositioning.

BMC medical informatics and decision making May 18, 2017
BACKGROUND: Although drug discoveries can provide meaningful insights and significant enhancements in pharmaceutical field, the longevity and cost that it takes can be extensive where the success rate is low. In order to circumvent the problem, there...
Drug Therapy Knowledge Discovery Data Mining Disease Humans Machine Learning Proteins Drug Repositioning Computational Biology
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Character-level neural network for biomedical named entity recognition.

Journal of biomedical informatics May 11, 2017
Biomedical named entity recognition (BNER), which extracts important named entities such as genes and proteins, is a challenging task in automated systems that mine knowledge in biomedical texts. The previous state-of-the-art systems required large a...
Humans Proteins Natural Language Processing Genes Neural Networks, Computer Algorithms
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A novel alignment-free method to classify protein folding types by combining spectral graph clustering with Chou's pseudo amino acid composition.

Journal of theoretical biology May 3, 2017
The present work employs pseudo amino acid composition (PseAAC) for encoding the protein sequences in their numeric form. Later this will be arranged in the similarity matrix, which serves as input for spectral graph clustering method. Spectral metho...
Proteins Protein Folding Machine Learning Sequence Analysis, Protein Sequence Alignment Algorithms
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A novel framework for the identification of drug target proteins: Combining stacked auto-encoders with a biased support vector machine.

PloS one Apr 28, 2017
The identification of drug target proteins (IDTP) plays a critical role in biometrics. The aim of this study was to retrieve potential drug target proteins (DTPs) from a collected protein dataset, which represents an overwhelming task of great signif...
Molecular Targeted Therapy Support Vector Machine Biometry Proteins
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A novel model-based on FCM-LM algorithm for prediction of protein folding rate.

Journal of bioinformatics and computational biology Apr 25, 2017
The prediction of protein folding rates is of paramount importance in describing the protein folding mechanism, which has broad applications in fields such as enzyme engineering and protein engineering. Therefore, predicting protein folding rates usi...
Protein Conformation Protein Folding Humans Neural Networks, Computer Computational Biology Proteins Algorithms
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Investigating Correlation between Protein Sequence Similarity and Semantic Similarity Using Gene Ontology Annotations.

IEEE/ACM transactions on computational biology and bioinformatics Apr 18, 2017
Sequence similarity is a commonly used measure to compare proteins. With the increasing use of ontologies, semantic (function) similarity is getting importance. The correlation between these measures has been applied in the evaluation of new semantic...
Humans Animals Sequence Alignment Mice Sequence Analysis, Protein Databases, Protein Computational Biology Molecular Sequence Annotation Amino Acid Sequence Proteins Gene Ontology Semantics
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Hidden Markov model and Chapman Kolmogrov for protein structures prediction from images.

Computational biology and chemistry Apr 13, 2017
Protein structure prediction and analysis are more significant for living organs to perfect asses the living organ functionalities. Several protein structure prediction methods use neural network (NN). However, the Hidden Markov model is more interpr...
Algorithms Proteins Protein Conformation Markov Chains Neural Networks, Computer
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