AIMC Topic: Computational Biology

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Artificial neural network-based exploration of gene-nutrient interactions in folate and xenobiotic metabolic pathways that modulate susceptibility to breast cancer.

Gene
In the current study, an artificial neural network (ANN)-based breast cancer prediction model was developed from the data of folate and xenobiotic pathway genetic polymorphisms along with the nutritional and demographic variables to investigate how m...

A Factor Graph Approach to Automated GO Annotation.

PloS one
As volume of genomic data grows, computational methods become essential for providing a first glimpse onto gene annotations. Automated Gene Ontology (GO) annotation methods based on hierarchical ensemble classification techniques are particularly int...

Missing value imputation for microRNA expression data by using a GO-based similarity measure.

BMC bioinformatics
BACKGROUND: Missing values are commonly present in microarray data profiles. Instead of discarding genes or samples with incomplete expression level, missing values need to be properly imputed for accurate data analysis. The imputation methods can be...

Protein Secondary Structure Prediction Using Deep Convolutional Neural Fields.

Scientific reports
Protein secondary structure (SS) prediction is important for studying protein structure and function. When only the sequence (profile) information is used as input feature, currently the best predictors can obtain ~80% Q3 accuracy, which has not been...

Predicting Drug-Target Interactions With Multi-Information Fusion.

IEEE journal of biomedical and health informatics
Identifying potential associations between drugs and targets is a critical prerequisite for modern drug discovery and repurposing. However, predicting these associations is difficult because of the limitations of existing computational methods. Most ...

Deep Learning in Drug Discovery.

Molecular informatics
Artificial neural networks had their first heyday in molecular informatics and drug discovery approximately two decades ago. Currently, we are witnessing renewed interest in adapting advanced neural network architectures for pharmaceutical research b...

simDEF: definition-based semantic similarity measure of gene ontology terms for functional similarity analysis of genes.

Bioinformatics (Oxford, England)
MOTIVATION: Measures of protein functional similarity are essential tools for function prediction, evaluation of protein-protein interactions (PPIs) and other applications. Several existing methods perform comparisons between proteins based on the se...

Brain-inspired cheminformatics of drug-target brain interactome, synthesis, and assay of TVP1022 derivatives.

Neuropharmacology
The use of Cheminformatics tools is gaining importance in the field of translational research from Medicinal Chemistry to Neuropharmacology. In particular, we need it for the analysis of chemical information on large datasets of bioactive compounds. ...

MiRTDL: A Deep Learning Approach for miRNA Target Prediction.

IEEE/ACM transactions on computational biology and bioinformatics
MicroRNAs (miRNAs) regulate genes that are associated with various diseases. To better understand miRNAs, the miRNA regulatory mechanism needs to be investigated and the real targets identified. Here, we present miRTDL, a new miRNA target prediction ...

Discovery of Influenza A virus neuraminidase inhibitors using support vector machine and Naïve Bayesian models.

Molecular diversity
Neuraminidase (NA) is a critical enzyme in the life cycle of influenza virus, which is known as a successful paradigm in the design of anti-influenza agents. However, to date there are no classification models for the virtual screening of NA inhibito...