DFA7, a new method to distinguish between intron-containing and intronless genes

Chenglong Yu, Mo Deng, Lu Zheng, Rong Lucy He, Jie Yang, Stephen S.T. Yau

Research output: Contribution to journalArticleResearchpeer-review

12 Citations (Scopus)

Abstract

Intron-containing and intronless genes have different biological properties and statistical characteristics. Here we propose a new computational method to distinguish between intron-containing and intronless gene sequences. Seven feature parameters α, β, γ, λ, θ, φ, and σ based on detrended fluctuation analysis (DFA) are fully used, and thus we can compute a 7-dimensional feature vector for any given gene sequence to be discriminated. Furthermore, support vector machine (SVM) classifier with Gaussian radial basis kernel function is performed on this feature space to classify the genes into introncontaining and intronless. We investigate the performance of the proposed method in comparison with other state-of-the-art algorithms on biological datasets. The experimental results show that our new method significantly improves the accuracy over those existing techniques.

Original languageEnglish
Article numbere101363
Number of pages10
JournalPLoS ONE
Volume9
Issue number7
DOIs
Publication statusPublished - 18 Jul 2014
Externally publishedYes

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