AFLP runner (AR): A software for prediction and analysis Of AFLP

Author

Zhang, Meng ; Liang, Shujian ; Huang, Lei ; Sun, Yeqing ; Zhou, Jian ; Wang, Chunli

Author_Institution

Sch. of Astronaut., Harbin Inst. of Technol., Harbin, China

Volume

5

fYear

2010

fDate

16-18 Oct. 2010

Firstpage

2150

Lastpage

2153

Abstract

AFLP is a PCR-based tool used in genetics research and DNA fingerprinting. Predicting the result and selecting the right primers play key roles in AFLP. Software called AFLP Runner (AR) was developed for AFLP predicting and analyzing. AR is a software based KMP algorithm for finding restriction enzyme cutting site sequence in genome. AR can be used for all organisms´ AFLP primers selecting, bands information predicting and enzyme cutting site distributing. The accuracy of AR was tested using AFLP experiment of Nipponbare (O. sativa ssp. Japonica ) and the result show that result of AR was coincided well with the experiment.

Keywords

DNA; biochemistry; bioinformatics; enzymes; genetics; molecular biophysics; prediction theory; AFLP Runner; AFLP primers selection; DNA fingerprinting; KMP algorithm; Nipponbare; O. sativa ssp. Japonica; PCR-based tool; amplified fragment length polymorphism PCR; analysis software; bands information prediction; enzyme cutting site distribution; genetics research; genome; prediction software; restriction enzyme cutting site sequence; Algorithm design and analysis; Biochemistry; Bioinformatics; Genomics; Organisms; Software; Software algorithms; AFLP; EcoR I; KMP; Mse I; software;

fLanguage

English

Publisher

ieee

Conference_Titel

Biomedical Engineering and Informatics (BMEI), 2010 3rd International Conference on

Conference_Location

Yantai

Print_ISBN

978-1-4244-6495-1

Type

conf

DOI

10.1109/BMEI.2010.5639293

Filename

5639293