AI Medical Compendium Journal:
Journal of bioinformatics and computational biology

Showing 31 to 40 of 73 articles

iDNA6mA-Rice-DL: A local web server for identifying DNA N6-methyladenine sites in rice genome by deep learning method.

Journal of bioinformatics and computational biology Jul 21, 2021
Accurate detection of N6-methyladenine (6mA) sites by biochemical experiments will help to reveal their biological functions, still, these wet experiments are laborious and expensive. Therefore, it is necessary to introduce a powerful computational m...
Machine Learning DNA Deep Learning Oryza Genome, Plant
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DBP-GAPred: An intelligent method for prediction of DNA-binding proteins types by enhanced evolutionary profile features with ensemble learning.

Journal of bioinformatics and computational biology Jul 21, 2021
DNA-binding proteins (DBPs) perform an influential role in diverse biological activities like DNA replication, slicing, repair, and transcription. Some DBPs are indispensable for understanding many types of human cancers (i.e. lung, breast, and liver...
Humans Algorithms DNA-Binding Proteins Amino Acid Sequence Position-Specific Scoring Matrices Computational Biology Support Vector Machine Databases, Protein
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PANDA: Predicting the change in proteins binding affinity upon mutations by finding a signal in primary structures.

Journal of bioinformatics and computational biology Jun 11, 2021
Accurately determining a change in protein binding affinity upon mutations is important to find novel therapeutics and to assist mutagenesis studies. Determination of change in binding affinity upon mutations requires sophisticated, expensive, and ti...
Protein Binding Proteins Mutation Amino Acid Sequence Machine Learning
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Prediction of adverse drug reactions using drug convolutional neural networks.

Journal of bioinformatics and computational biology Jan 20, 2021
Prediction of Adverse Drug Reactions (ADRs) has been an important aspect of Pharmacovigilance because of its impact in the pharma industry. The standard process of introduction of a new drug into a market involves a lot of clinical trials and tests. ...
Antiviral Agents Drug-Related Side Effects and Adverse Reactions COVID-19 Drug Treatment Humans Neural Networks, Computer Deep Learning Databases, Pharmaceutical Dexamethasone Adenosine Monophosphate Alanine
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Scalable classification of organisms into a taxonomy using hierarchical supervised learners.

Journal of bioinformatics and computational biology Oct 29, 2020
Accurately identifying organisms based on their partially available genetic material is an important task to explore the phylogenetic diversity in an environment. Specific fragments in the DNA sequence of a living organism have been defined as DNA ba...
Chiroptera Rodentia Ferns DNA Barcoding, Taxonomic Classification Birds Phylogeny Deep Learning Support Vector Machine Databases, Genetic Fungi Algorithms Animals
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Calculation of immune cell proportion from batch tumor gene expression profile based on support vector regression.

Journal of bioinformatics and computational biology Aug 21, 2020
In addition to tumor cells, a large number of immune cells are found in the tumor microenvironment (TME) of cancer patients. Tumor-infiltrating immune cells play an important role in tumor progression and patient outcome. We improved the relative pro...
Humans Algorithms Databases, Factual Colorectal Neoplasms Tumor Microenvironment Flow Cytometry Immunohistochemistry Gene Expression Profiling Neutrophils Gene Expression Regulation, Neoplastic Support Vector Machine CD8-Positive T-Lymphocytes
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A deep attention network for predicting amino acid signals in the formation of [Formula: see text]-helices.

Journal of bioinformatics and computational biology Aug 6, 2020
The secondary and tertiary structure of a protein has a primary role in determining its function. Even though many folding prediction algorithms have been developed in the past decades - mainly based on the assumption that folding instructions are en...
Protein Conformation, alpha-Helical Amino Acids Protein Structure, Secondary Machine Learning Software Databases, Protein Models, Molecular
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EDeepSSP: Explainable deep neural networks for exact splice sites prediction.

Journal of bioinformatics and computational biology Jul 22, 2020
Splice site prediction is crucial for understanding underlying gene regulation, gene function for better genome annotation. Many computational methods exist for recognizing the splice sites. Although most of the methods achieve a competent performanc...
Data Visualization Drosophila melanogaster RNA Splice Sites Arabidopsis Animals Computational Biology Databases, Genetic Deep Learning ROC Curve Humans Neural Networks, Computer
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DEEPSMP: A deep learning model for predicting the ectodomain shedding events of membrane proteins.

Journal of bioinformatics and computational biology Jun 23, 2020
Membrane proteins play essential roles in modern medicine. In recent studies, some membrane proteins involved in ectodomain shedding events have been reported as the potential drug targets and biomarkers of some serious diseases. However, there are f...
Databases, Protein Area Under Curve Models, Molecular Deep Learning Neural Networks, Computer Membrane Proteins Reproducibility of Results Protein Domains Sensitivity and Specificity
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Pippin: A random forest-based method for identifying presynaptic and postsynaptic neurotoxins.

Journal of bioinformatics and computational biology May 5, 2020
Presynaptic and postsynaptic neurotoxins are two types of neurotoxins from venomous animals and functionally important molecules in the neurosciences; however, their experimental characterization is difficult, time-consuming, and costly. Therefore, b...
Synapses Amino Acid Motifs Animals Machine Learning Neurotoxins Computational Biology Algorithms Databases, Protein
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