DV-Curve Representation of Protein Sequences and Its Application. (8th May 2014)

• Record Type: Journal Article
• Authors: Deng, Wei; Luan, Yihui
• Other Names: Jiang Rui Academic Editor.
• Is Part Of: Computational and mathematical methods in medicine. Volume 2014(2014)
• Publication Date: 2014-05-08
• Subjects: Medicine -- Computer simulation -- Periodicals; Medicine -- Mathematical models -- Periodicals; 610.11
• DOI: 10.1155/2014/203871
• Languages: English
• ISSNs: 1748-670X

Abstract

Abstract : Based on the detailed hydrophobic-hydrophilic(HP) model of amino acids, we propose dual-vector curve (DV-curve) representation of protein sequences, which uses two vectors to represent one alphabet of protein sequences. This graphical representation not only avoids degeneracy, but also has good visualization no matter how long these sequences are, and can reflect the length of protein sequence. Then we transform the 2D-graphical representation into a numerical characterization that can facilitate quantitative comparison of protein sequences. The utility of this approach is illustrated by two examples: one is similarity/dissimilarity comparison among different ND6 protein sequences based on their DV-curve figures the other is the phylogenetic analysis among coronaviruses based on their spike proteins.