A Visualization Quality Evaluation Method for Multiple Sequence Alignments

Author

Lee, Hongbin ; Wang, Bo ; Wu, Xiaoming ; Liu, Yonggang ; Gao, Wei ; Li, Huili ; Wang, Xu ; He, Feng

Author_Institution

Sch. of Life Sci. & Technol., Xi´´an Jiaotong Univ., Xi´´an, China

fYear

2011

fDate

10-12 May 2011

Firstpage

1

Lastpage

4

Abstract

Multiple sequence alignments (MSA) method is basic way for the analysis of biology sequences. As dozens of MSA algorithms appears, reasonable and effective quality evaluation method is necessary. Gap-insertion is common phenomenon after MSA, and should be an important factor to evaluate whether MSA is successful. A new MSA score evaluation method was introduced in this paper, which was based on the combination of both row distance of letters and column consensus of sequences. It can be used to evaluate the quality of MSA in the global and local justly and effectively. At same time, two formulas for assessing the distance of different MSA algorithms were derived.

Keywords

biology computing; data mining; data visualisation; molecular biophysics; MSA score evaluation method; biology sequences; data mining; gap-insertion; molecular biology; multiple sequence alignments method; visualization quality evaluation method; Clustering algorithms; DNA; Heuristic algorithms; Proteins; Software; Software algorithms;

fLanguage

English

Publisher

ieee

Conference_Titel

Bioinformatics and Biomedical Engineering, (iCBBE) 2011 5th International Conference on

Conference_Location

Wuhan

ISSN

2151-7614

Print_ISBN

978-1-4244-5088-6

Type

conf

DOI

10.1109/icbbe.2011.5779972

Filename

5779972