An estimator for local analysis of genome based on the minimal absent word. (21st April 2016)

• Record Type: Journal Article
• Authors: Yang, Lianping; Zhang, Xiangde; Fu, Haoyue; Yang, Chenhui
• Is Part Of: Journal of theoretical biology. Volume 395(2016)
• Page Start: 23
• Page End: 30
• Publication Date: 2016-04-21
• Subjects: Visual comparison -- Alignment-free -- Relative feature; Biology -- Periodicals; Biological Science Disciplines -- Periodicals; Biology -- Periodicals; Biologie -- Périodiques; Theoretische biologie; Biology; Periodicals; 571.05
• DOI: 10.1016/j.jtbi.2016.01.023
• Languages: English
• ISSNs: 0022-5193

Abstract

Abstract: This study presents an alternative alignment-free relative feature analysis method based on the minimal absent word, which has potential advantages over the local alignment method in local analysis. Smooth-local-analysis-curve and similarity-distribution are constructed for a fast, efficient, and visual comparison. Moreover, when the multi-sequence-comparison is needed, the local-analysis-curves can illustrate some interesting zones. Abstract : Highlights: A comparison model is proposed based on the minimal absent word. Smooth-local-analysis-curve and similarity-distribution are constructed. A distance measure is deduced based on probability model. The method has potential advantages over the local alignment method.