AIMC Topic: Computational Biology

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Cobb Angle Measurement of Spine from X-Ray Images Using Convolutional Neural Network.

Computational and mathematical methods in medicine
Scoliosis is a common spinal condition where the spine curves to the side and thus deforms the spine. Curvature estimation provides a powerful index to evaluate the deformation severity of scoliosis. In current clinical diagnosis, the standard curvat...

SignalP 5.0 improves signal peptide predictions using deep neural networks.

Nature biotechnology
Signal peptides (SPs) are short amino acid sequences in the amino terminus of many newly synthesized proteins that target proteins into, or across, membranes. Bioinformatic tools can predict SPs from amino acid sequences, but most cannot distinguish ...

ELM-MHC: An Improved MHC Identification Method with Extreme Learning Machine Algorithm.

Journal of proteome research
The major histocompatibility complex (MHC) is a term for all gene groups of a major histocompatibility antigen. It binds to peptide chains derived from pathogens and displays pathogens on the cell surface to facilitate T-cell recognition and perform ...

PPI-Detect: A support vector machine model for sequence-based prediction of protein-protein interactions.

Journal of computational chemistry
The prediction of peptide-protein or protein-protein interactions (PPI) is a challenging task, especially if amino acid sequences are the only information available. Machine learning methods allow us to exploit the information content in PPI datasets...

Deep Learning-Based Prediction of Drug-Induced Cardiotoxicity.

Journal of chemical information and modeling
Blockade of the human ether-à-go-go-related gene (hERG) channel by small molecules induces the prolongation of the QT interval which leads to fatal cardiotoxicity and accounts for the withdrawal or severe restrictions on the use of many approved drug...

FunMappOne: a tool to hierarchically organize and visually navigate functional gene annotations in multiple experiments.

BMC bioinformatics
BACKGROUND: Functional annotation of genes is an essential step in omics data analysis. Multiple databases and methods are currently available to summarize the functions of sets of genes into higher level representations, such as ontologies and molec...

Application of adaptive-network-based fuzzy inference systems to the parameter optimization of a biochemical rule-based model.

Computers in biology and medicine
In this study, the binding of allergens to antibody-receptor complexes was investigated. This process is important in understanding the allergic response. A BioNetGen model that simulates this process, combined with a novel method for encoding steric...

Adaboost-SVM-based probability algorithm for the prediction of all mature miRNA sites based on structured-sequence features.

Scientific reports
The significant role of microRNAs (miRNAs) in various biological processes and diseases has been widely studied and reported in recent years. Several computational methods associated with mature miRNA identification suffer various limitations involvi...

An Effective Solution for Large Scale Single Machine Total Weighted Tardiness Problem using Lunar Cycle Inspired Artificial Bee Colony Algorithm.

IEEE/ACM transactions on computational biology and bioinformatics
Single machine total weighted tardiness problem (SMTWTP) is one of the fundamental combinatorial optimization problems. The problem consists of a set of independent jobs with distinct processing times, weights, and due dates to be scheduled on a sing...

Novel Regularization Method for Biomarker Selection and Cancer Classification.

IEEE/ACM transactions on computational biology and bioinformatics
Variable selection has attracted more attention in big data and machine learning fields. In high dimensional data analysis, many relevant variables or variable groups are widely found. For example, people pay more interests to biological pathway or r...