AIMC Topic: Amino Acid Sequence

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ACP-MHCNN: an accurate multi-headed deep-convolutional neural network to predict anticancer peptides.

Scientific reports Dec 8, 2021
Although advancing the therapeutic alternatives for treating deadly cancers has gained much attention globally, still the primary methods such as chemotherapy have significant downsides and low specificity. Most recently, Anticancer peptides (ACPs) h...
Amino Acid Sequence Chemical Phenomena Deep Learning ROC Curve Computational Biology Neural Networks, Computer Algorithms Reproducibility of Results Peptides Drug Discovery Antineoplastic Agents Humans
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Protein Fold Recognition Based on Auto-Weighted Multi-View Graph Embedding Learning Model.

IEEE/ACM transactions on computational biology and bioinformatics Dec 8, 2021
Protein fold recognition is critical for studies of the protein structure prediction and drug design. Several methods have been proposed to obtain discriminative features from the protein sequences for fold recognition. However, the ensemble methods ...
Sequence Analysis, Protein Computational Biology Proteins Amino Acid Sequence Machine Learning Databases, Protein Protein Folding Algorithms Sequence Alignment
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Enhanced Protein Structural Class Prediction Using Effective Feature Modeling and Ensemble of Classifiers.

IEEE/ACM transactions on computational biology and bioinformatics Dec 8, 2021
Protein Secondary Structural Class (PSSC) information is important in investigating further challenges of protein sequences like protein fold recognition, protein tertiary structure prediction, and analysis of protein functions for drug discovery. Id...
Amino Acid Sequence Protein Structure, Secondary Sequence Analysis, Protein Support Vector Machine Proteins Databases, Protein Machine Learning Computational Biology
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Drug-Target Interaction Prediction: End-to-End Deep Learning Approach.

IEEE/ACM transactions on computational biology and bioinformatics Dec 8, 2021
The discovery of potential Drug-Target Interactions (DTIs) is a determining step in the drug discovery and repositioning process, as the effectiveness of the currently available antibiotic treatment is declining. Although putting efforts on the tradi...
Computational Biology Proteins Drug Repositioning Algorithms Drug Discovery Deep Learning Pharmaceutical Preparations Amino Acid Sequence Humans Neural Networks, Computer Machine Learning
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A Deep Learning Framework for Gene Ontology Annotations With Sequence- and Network-Based Information.

IEEE/ACM transactions on computational biology and bioinformatics Dec 8, 2021
Knowledge of protein functions plays an important role in biology and medicine. With the rapid development of high-throughput technologies, a huge number of proteins have been discovered. However, there are a great number of proteins without function...
Algorithms Deep Learning Protein Interaction Maps Software Molecular Sequence Annotation Computational Biology Gene Ontology Proteins Amino Acid Sequence
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De novo protein design by deep network hallucination.

Nature Dec 1, 2021
There has been considerable recent progress in protein structure prediction using deep neural networks to predict inter-residue distances from amino acid sequences. Here we investigate whether the information captured by such networks is sufficiently...
Humans Crystallography, X-Ray Protein Conformation Hallucinations Neural Networks, Computer Proteins Amino Acid Sequence
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Evaluation of Deep Neural Network ProSPr for Accurate Protein Distance Predictions on CASP14 Targets.

International journal of molecular sciences Nov 27, 2021
The field of protein structure prediction has recently been revolutionized through the introduction of deep learning. The current state-of-the-art tool AlphaFold2 can predict highly accurate structures; however, it has a prohibitively long inference ...
Protein Structural Elements Humans Neural Networks, Computer Computational Biology Protein Folding Proteins Sequence Alignment Amino Acid Sequence Software Design Protein Conformation
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Identification of the tail assembly chaperone genes of T4-Like phages suggests a mechanism other than translational frameshifting for biogenesis of their encoded proteins.

Virology Nov 18, 2021
Tape measure (TM) proteins are essential for the formation of long-tailed phages. TM protein assembly into tails requires the action of tail assembly chaperones (TACs). TACs (e.g. gpG and gpT of E. coli phage lambda) are usually produced in a short (...
Sequence Alignment Escherichia coli Viral Tail Proteins Bacteria Sequence Homology, Amino Acid Amino Acid Sequence Conserved Sequence Virion Computational Biology Bacteriophage T4 Genome, Viral Frameshifting, Ribosomal Virus Assembly Molecular Chaperones
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MemDis: Predicting Disordered Regions in Transmembrane Proteins.

International journal of molecular sciences Nov 12, 2021
Transmembrane proteins (TMPs) play important roles in cells, ranging from transport processes and cell adhesion to communication. Many of these functions are mediated by intrinsically disordered regions (IDRs), flexible protein segments without a wel...
Models, Molecular Internet Amino Acid Sequence Data Mining Intrinsically Disordered Proteins Protein Conformation Neural Networks, Computer Reproducibility of Results Computational Biology Membrane Proteins Databases, Protein
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Learning the local landscape of protein structures with convolutional neural networks.

Journal of biological physics Nov 9, 2021
One fundamental problem of protein biochemistry is to predict protein structure from amino acid sequence. The inverse problem, predicting either entire sequences or individual mutations that are consistent with a given protein structure, has received...
Amino Acid Sequence Neural Networks, Computer Proteins Amino Acids
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