Study on the Differential Analysis of Alternative Splicing Based on the Median Value Jensen-Shannon Divergence

Wenbin LIU; Bing WANG; Gang FANG; Xiaolong SHI; Peng XU

doi:10.11999/JEIT190941

Volume 42 Issue 6

Jun. 2020

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Wenbin LIU, Bing WANG, Gang FANG, Xiaolong SHI, Peng XU. Study on the Differential Analysis of Alternative Splicing Based on the Median Value Jensen-Shannon Divergence[J]. Journal of Electronics & Information Technology, 2020, 42(6): 1392-1400. doi: 10.11999/JEIT190941

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Wenbin LIU, Bing WANG, Gang FANG, Xiaolong SHI, Peng XU. Study on the Differential Analysis of Alternative Splicing Based on the Median Value Jensen-Shannon Divergence[J]. Journal of Electronics & Information Technology, 2020, 42(6): 1392-1400. doi: 10.11999/JEIT190941

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Study on the Differential Analysis of Alternative Splicing Based on the Median Value Jensen-Shannon Divergence

doi: 10.11999/JEIT190941

Wenbin LIU^{1, 2
,
,},
Bing WANG¹,
Gang FANG²,
Xiaolong SHI²,
Peng XU^{2, 3}

1.
College of Computer Science and Artificial Intelligence, Wenzhou University, Wenzhou 325035, China
2.
Institute of Computing Science and Technology, Guangzhou University, Guangzhou 510006, China
3.
School of Computer Science and Information Technology, Qiannan Normal University for Nationalities, Duyun 558000, China

Funds: The National Key R&D Program of China (2019YFA0706402), The National Natural Science Foundation of China (61572367, 61573017, 61972107, 61972109)

Received Date: 2019-11-22
Rev Recd Date: 2020-04-24

Available Online: 2020-05-13

Publish Date: 2020-06-22

Abstract

Abstract

Alternative splicing is an important mechanism of protein diversity in a wide range of organisms, which plays an important role in the fine regulation of cell proliferation, differentiation, development, apoptosis and a series of important biological processes. In recent years, it is found that the occurrence of multiple complex diseases is often accompanied by the disordered expression of splicing isoforms. In order to study the difference of splicing isoforms on the whole distribution, a differential analysis method of Alternative Splicing (AS) based on the median value by Jensen-Shannon (JS) divergence is proposed in this paper. The results show the method can finds plenty of genes with significant differences in the overall distribution of splicing isoforms. These genes are not only concentrated in some cancer related pathways, but also in some signaling pathways based on alternative splicing regulation, cell division process and protein function. In addition, compared with the gene-level differential analysis, the genes with significant difference in alternative splicing also have better performance in survival analysis. In conclusion, the proposed method will lay a foundation for further revealing the mechanism of alternative splicing in cancer.
- Alternative splicing,
- Cancer,
- Jensen-Shannon (JS) divergence,
- Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway,
- Driver gene

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References(21)

References

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