AIMC Topic: Amino Acid Sequence

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Structural protein fold recognition based on secondary structure and evolutionary information using machine learning algorithms.

Computational biology and chemistry Feb 12, 2021
Understanding the function of protein is conducive to research in advanced fields such as gene therapy of diseases, the development and design of new drugs, etc. The prerequisite for understanding the function of a protein is to determine its tertiar...
Protein Structure, Secondary Protein Folding Humans Databases, Protein Amino Acid Sequence Machine Learning Algorithms
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Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

Frontiers in immunology Feb 10, 2021
The presence of pathogen-specific antibodies in an individual's blood-sample is used as an indication of previous exposure and infection to that specific pathogen (e.g., virus or bacterium). Measurement of the diagnostic antibodies is routinely achie...
HIV Core Protein p24 Epitopes Hepatitis C Antigens Base Sequence Antigen-Antibody Reactions Genetic Vectors Amino Acid Sequence DNA, Recombinant HIV Antibodies Oligonucleotides Polymerase Chain Reaction HIV Envelope Protein gp160 HIV Infections AIDS Serodiagnosis Hepatitis C Antibodies High-Throughput Nucleotide Sequencing Peptide Library Hepatitis C Humans DNA Barcoding, Taxonomic Peptide Fragments Serologic Tests Machine Learning Communicable Diseases
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Computational approach for identification, characterization, three-dimensional structure modelling and machine learning-based thermostability prediction of xylanases from the genome of Aspergillus fumigatus.

Computational biology and chemistry Feb 6, 2021
Identification of thermostable and alkaline xylanases from different fungal and bacterial species have gained an interest for the researchers because of its biotechnological relevance in many industries, such as pulp, paper, and bioethanol. In this s...
Temperature Protein Conformation Data Mining Molecular Docking Simulation Aspergillus fumigatus Machine Learning Sequence Homology, Amino Acid Enzyme Stability Computational Biology Genome, Fungal Amino Acid Sequence Endo-1,4-beta Xylanases
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diSBPred: A machine learning based approach for disulfide bond prediction.

Computational biology and chemistry Jan 27, 2021
The protein disulfide bond is a covalent bond that forms during post-translational modification by the oxidation of a pair of cysteines. In protein, the disulfide bond is the most frequent covalent link between amino acids after the peptide bond. It ...
Amino Acid Sequence Disulfides Protein Conformation Algorithms Support Vector Machine Proteins
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Prediction of Protein-ATP Binding Residues Based on Ensemble of Deep Convolutional Neural Networks and LightGBM Algorithm.

International journal of molecular sciences Jan 19, 2021
Accurately identifying protein-ATP binding residues is important for protein function annotation and drug design. Previous studies have used classic machine-learning algorithms like support vector machine (SVM) and random forest to predict protein-AT...
Carrier Proteins Proteins Amino Acid Sequence Adenosine Triphosphate Protein Binding Computational Biology Support Vector Machine Machine Learning Algorithms Humans Neural Networks, Computer
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Use of machine learning to identify a T cell response to SARS-CoV-2.

Cell reports. Medicine Jan 16, 2021
The identification of SARS-CoV-2-specific T cell receptor (TCR) sequences is critical for understanding T cell responses to SARS-CoV-2. Accordingly, we reanalyze publicly available data from SARS-CoV-2-recovered patients who had low-severity disease ...
Machine Learning COVID-19 Humans High-Throughput Nucleotide Sequencing Complementarity Determining Regions Sequence Analysis, DNA Receptors, Antigen, B-Cell Cluster Analysis Principal Component Analysis SARS-CoV-2 Amino Acid Sequence T-Lymphocytes Receptors, Antigen, T-Cell
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Prediction of pharmacological activities from chemical structures with graph convolutional neural networks.

Scientific reports Jan 12, 2021
Many therapeutic drugs are compounds that can be represented by simple chemical structures, which contain important determinants of affinity at the site of action. Recently, graph convolutional neural network (GCN) models have exhibited excellent res...
Pharmacology Molecular Conformation Antidepressive Agents Selective Serotonin Reuptake Inhibitors Pharmaceutical Preparations Drug Evaluation, Preclinical Amino Acid Sequence Humans Neural Networks, Computer
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A network-based machine-learning framework to identify both functional modules and disease genes.

Human genetics Jan 7, 2021
Disease gene identification is a critical step towards uncovering the molecular mechanisms of diseases and systematically investigating complex disease phenotypes. Despite considerable efforts to develop powerful computing methods, candidate gene ide...
Gene Regulatory Networks Computational Biology Predictive Value of Tests Metabolic Networks and Pathways Humans Mental Disorders Neoplasms Protein Interaction Mapping Immune System Diseases Musculoskeletal Diseases Terminology as Topic Metabolic Diseases Neurodegenerative Diseases Gastrointestinal Diseases Supervised Machine Learning Amino Acid Sequence
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Incorporating a transfer learning technique with amino acid embeddings to efficiently predict N-linked glycosylation sites in ion channels.

Computers in biology and medicine Jan 7, 2021
Glycosylation is a dynamic enzymatic process that attaches glycan to proteins or other organic molecules such as lipoproteins. Research has shown that such a process in ion channel proteins plays a fundamental role in modulating ion channel functions...
Machine Learning Glycosylation Amino Acids Amino Acid Sequence Ion Channels
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iT3SE-PX: Identification of Bacterial Type III Secreted Effectors Using PSSM Profiles and XGBoost Feature Selection.

Computational and mathematical methods in medicine Jan 6, 2021
Identification of bacterial type III secreted effectors (T3SEs) has become a popular research topic in the field of bioinformatics due to its crucial role in understanding host-pathogen interaction and developing better therapeutic targets against th...
Databases, Protein Amino Acid Sequence Position-Specific Scoring Matrices Type III Secretion Systems Machine Learning Algorithms Computational Biology Support Vector Machine
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