Journal of Food, Agriculture and Environment

Vol 8, Issue 3&4,2010
Online ISSN: 1459-0263
Print ISSN: 1459-0255

A hybrid Fisher/SVM method for SNP discovery in Brassica oilseed rape


Huijuan Xiong 1, Xuehai Hu 1, Jingbo Xia 1, Ruiyuan Li 2, Feng Shi 1, Jinlin Meng 2, Zhi Li 1*

Recieved Date: 2010-06-24, Accepted Date: 2010-10-27


As genetic markers, single nucleotide polymorphisms play a crucial role in distinguishing most trait differences among individuals in a given species. The research on searching single nucleotide polymorphisms in kinds of organisms has been a hot topic in bio-informatics during the past ten years. In this paper, a hybrid Fisher/SVM SNPs identification algorithm is given for searching single nucleotide polymorphisms from sequences generated by Solexa GA in Brassica oilseed rape, which utilizes the advantage of traditional statistical test, specifically, Fisher exact test, and in conjunction with the notable prediction performance of support vector machine classifiers. By taking different windows width extracted from DNA sequences, the algorithm is designed to detect the single nucleotide polymorphisms in Brassica oilseed rape from a preview EU-China project. The results reveal that the new method is effective for single nucleotide polymorphisms detection in Brassica oilseed rape.


Single nucleotide polymorphism prediction, Brassica napus, Fisher exact test, Support vector machines

Journal: Journal of Food, Agriculture and Environment
Year: 2010
Volume: 8
Issue: 3&4
Category: Agriculture
Pages: 705-708

Full text for Subscribers

Note to users

The requested document is freely available only to subscribers/registered users with an online subscription to the Journal of Food, Agriculture & Environment. If you have set up a personal subscription to this title please enter your user name and password. All abstracts are available for free.

Article purchasing

If you like to purchase this specific document such as article, review or this journal issue, contact us. Specify the title of the article or review, issue, number, volume and date of the publication. Software and compilation, Science & Technology, all rights reserved. Your use of this website details or service is governed by terms of use. Authors are invited to check from time to time news or information.

Purchase this Article:   20 Purchase PDF Order Reprints for 15

Share this article :