Journal of bioinformatics and computational biology
Jun 14, 2016
Palmitoylation is the covalent attachment of lipids to amino acid residues in proteins. As an important form of protein posttranslational modification, it increases the hydrophobicity of proteins, which contributes to the protein transportation, orga...
BACKGROUND: Nucleotide and protein sequence feature annotations are essential to understand biology on the genomic, transcriptomic, and proteomic level. Using Semantic Web technologies to query biological annotations, there was no standard that descr...
G Protein-Coupled Receptors (GPCRs) are important pharmaceutical targets. More than 30% of currently marketed pharmaceutical medicines target GPCRs. Numerous studies have reported that GPCRs function not only as monomers but also as homo- or hetero-d...
We propose a novel computational method known as RVM-LPQ that combines the Relevance Vector Machine (RVM) model and Local Phase Quantization (LPQ) to predict PPIs from protein sequences. The main improvements are the results of representing protein s...
IEEE/ACM transactions on computational biology and bioinformatics
May 18, 2016
Prediction of compound-protein interactions (CPIs) is to find new compound-protein pairs where a protein is targeted by at least a compound, which is a crucial step in new drug design. Currently, a number of machine learning based methods have been d...
Extracellular Matrix (ECM) proteins are the vital type of proteins that are secreted by resident cells. ECM proteins perform several significant functions including adhesion, differentiation, cell migration and proliferation. In addition, ECM protein...
BACKGROUND: The nuclear magnetic resonance (NMR) spectroscopic data for biological macromolecules archived at the BioMagResBank (BMRB) provide a rich resource of biophysical information at atomic resolution. The NMR data archived in NMR-STAR ASCII fo...
IEEE/ACM transactions on computational biology and bioinformatics
Apr 20, 2016
Protein-protein interaction (PPI) plays a key role in understanding cellular mechanisms in different organisms. Many supervised classifiers like Random Forest (RF) and Support Vector Machine (SVM) have been used for intra or inter-species interaction...
Measuring the similarity between pairs of biological entities is important in molecular biology. The introduction of Gene Ontology (GO) provides us with a promising approach to quantifying the semantic similarity between two genes or gene products. T...
Computational and mathematical methods in medicine
Apr 3, 2016
Using the theory of machine learning to assist the virtual screening (VS) has been an effective plan. However, the quality of the training set may reduce because of mixing with the wrong docking poses and it will affect the screening efficiencies. To...