AIMC Topic: Proteins

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Drug target ontology to classify and integrate drug discovery data.

Journal of biomedical semantics Nov 9, 2017
BACKGROUND: One of the most successful approaches to develop new small molecule therapeutics has been to start from a validated druggable protein target. However, only a small subset of potentially druggable targets has attracted significant research...
Humans Software Drug Delivery Systems Semantics Biological Ontologies Drug Discovery Computational Biology Proteins
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Glypre: In Silico Prediction of Protein Glycation Sites by Fusing Multiple Features and Support Vector Machine.

Molecules (Basel, Switzerland) Nov 3, 2017
Glycation is a non-enzymatic process occurring inside or outside the host body by attaching a sugar molecule to a protein or lipid molecule. It is an important form of post-translational modification (PTM), which impairs the function and changes the ...
Computer Simulation Sensitivity and Specificity Binding Sites ROC Curve Area Under Curve Glycosylation Amino Acids Support Vector Machine Algorithms Lysine Proteins
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Specific and intrinsic sequence patterns extracted by deep learning from intra-protein binding and non-binding peptide fragments.

Scientific reports Nov 2, 2017
The key finding in the DNA double helix model is the specific pairing or binding between nucleotides A-T and C-G, and the pairing rules are the molecule basis of genetic code. Unfortunately, no such rules have been discovered for proteins. Here we sh...
Algorithms Deep Learning Peptide Fragments Protein Binding Amino Acid Sequence Proteins Databases, Protein Protein Conformation Binding Sites
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Protein contact prediction by integrating deep multiple sequence alignments, coevolution and machine learning.

Proteins Oct 31, 2017
In this study, we report the evaluation of the residue-residue contacts predicted by our three different methods in the CASP12 experiment, focusing on studying the impact of multiple sequence alignment, residue coevolution, and machine learning on co...
Models, Molecular Datasets as Topic Crystallography, X-Ray Computational Biology Proteins Sequence Analysis, Protein Databases, Protein Protein Conformation Humans Machine Learning Protein Folding Algorithms Sequence Alignment
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Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC.

Journal of theoretical biology Oct 31, 2017
Predicting protein subcellular location with support vector machine has been a popular research area recently because of the dramatic explosion of bioinformation. Though substantial achievements have been obtained, few researchers considered the prob...
Amino Acids Proteins Algorithms Protein Transport Databases, Protein Computational Biology Position-Specific Scoring Matrices Support Vector Machine Principal Component Analysis
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Simultaneous refinement of inaccurate local regions and overall structure in the CASP12 protein model refinement experiment.

Proteins Oct 26, 2017
Advances in protein model refinement techniques are required as diverse sources of protein structure information are available from low-resolution experiments or informatics-based computations such as cryo-EM, NMR, homology models, or predicted resid...
Protein Conformation Sequence Analysis, Protein Humans Protein Interaction Domains and Motifs Machine Learning Models, Molecular Molecular Dynamics Simulation Algorithms Crystallography, X-Ray Computational Biology Proteins
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ProLanGO: Protein Function Prediction Using Neural Machine Translation Based on a Recurrent Neural Network.

Molecules (Basel, Switzerland) Oct 17, 2017
With the development of next generation sequencing techniques, it is fast and cheap to determine protein sequences but relatively slow and expensive to extract useful information from protein sequences because of limitations of traditional biological...
Neural Networks, Computer Algorithms Proteins Machine Learning Databases, Protein Gene Ontology Software Reproducibility of Results Computational Biology
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Systematic Identification of Machine-Learning Models Aimed to Classify Critical Residues for Protein Function from Protein Structure.

Molecules (Basel, Switzerland) Oct 9, 2017
Protein structure and protein function should be related, yet the nature of this relationship remains unsolved. Mapping the critical residues for protein function with protein structure features represents an opportunity to explore this relationship,...
Protein Conformation Proteins Structure-Activity Relationship Models, Molecular Machine Learning Algorithms
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HashGO: hashing gene ontology for protein function prediction.

Computational biology and chemistry Oct 4, 2017
Gene ontology (GO) is a standardized and controlled vocabulary of terms that describe the molecular functions, biological roles and cellular locations of proteins. GO terms and GO hierarchy are regularly updated as the accumulated biological knowledg...
Humans Gene Ontology Proteins Databases, Protein
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Manipulation of Biomolecule-Modified Liquid-Metal Blobs.

Angewandte Chemie (International ed. in English) Oct 2, 2017
Soft and deformable liquid metals (LMs) are building components in various systems related to uncertain and dynamic task environments. Herein we describe the development of a biomolecule-triggered external-manipulation method involving LM conjugates ...
Biocompatible Materials Biocatalysis HT29 Cells Motion Catalase Sulfhydryl Compounds Serum Albumin, Bovine Bioengineering Biomedical Engineering Cattle Metals Adsorption Proteins Robotics Antibodies Humans Animals
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