[1] Wu Jiansheng, Hu Minjing, Zhou Tong, Weng Jianhong, et al. Support vector machine for prediction of siRNA silencing efficacy [J]. Journal of Southeast University (English Edition), 2006, 22 (4): 501-504. [doi:10.3969/j.issn.1003-7985.2006.04.012]

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Support vector machine for prediction of siRNA silencing efficacy()

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Journal of Southeast University (English Edition)[ISSN:1003-7985/CN:32-1325/N]

Volumn:

22

Issue:

2006 4

Page:

501-504

Research Field:

Biological Science and Medical Engineering

Publishing date:

2006-12-30

Info

Title:

Support vector machine for prediction of siRNA silencing efficacy

Author(s):

Wu Jiansheng;  Hu Minjing;  Zhou Tong;  Weng Jianhong;  Jiang Peng;  Sun Xiao

State Key Laboratory of Bioelectronics, Southeast University, Nanjing 210096, China

Keywords:

short interfering ribonucleic acid(siRNA);  support vector machine;  base-base correlation;  receive operating characteristic(ROC)curve

PACS:

Q52

DOI:

10.3969/j.issn.1003-7985.2006.04.012

Abstract:

In order to assist the design of short interfering ribonucleic acids(siRNA), 573 non-redundant siRNAs were collected from published literatures and the relationship between siRNAs sequences and RNA interference(RNAi)effect is analyzed by a support vector machine(SVM)based algorithm relied on a base-base correlation(BBC)feature. The results show that the proposed algorithm has the highest area under curve(AUC)value(0.73)of the receive operating characteristic(ROC)curve and the greatest r value(0.43)of the Pearson’s correlation coefficient. This indicates that the proposed algorithm is better than the published algorithms on the collected datasets and that more attention should be paid to the base-base correlation information in future siRNA design.

References:

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Memo

Memo:

Biographies: Wu Jiansheng(1979—), male, graduate;Sun Xiao(corresponding author), male, doctor, professor, xsun@seu.edu.cn.

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