Detect the different isoforms using GeneChip human exon 1.0 ST arrays

Mi Chia Ma, Hsiao Fang Lin, Ying Xu

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Alternative splicing is the RNA splicing variation mechanism. The exon isoforms lead to numerous different expressions through the alternative splicing. It's imperative to find the carcinogenic gene from the massive quantity of genes and understand the expressed isoforms. In this paper, the statistical procedures are applied on the colon cancer sample data of Affymetrix GeneChip Human Exon 1.0 ST Array and the dataset is used as the example of finding isoforms. First, the Wilcoxon sign rank test was applied to choose the suspect carcinogenic genes. About 54,854 suspect genes are selected from original 312,368 genes at 5% significant level. Second, one sample t-test and the factor analysis are used to estimate the tumor and normal isoforms for each suspect carcinogenic gene, respectively. Furthermore, the confirmations are made by comparing the estimated results with Alternative Splicing Database. Finally, the results may be provided to the biologist to make biological confirmations and discover the new isoforms.

Original languageEnglish
Title of host publicationProceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009
DOIs
Publication statusPublished - 2009 Dec 1
Event2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009 - Tianjin, China
Duration: 2009 Oct 172009 Oct 19

Publication series

NameProceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009

Other

Other2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009
CountryChina
CityTianjin
Period09-10-1709-10-19

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering
  • Health Informatics
  • Health Information Management

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  • Cite this

    Ma, M. C., Lin, H. F., & Xu, Y. (2009). Detect the different isoforms using GeneChip human exon 1.0 ST arrays. In Proceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009 [5305187] (Proceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009). https://doi.org/10.1109/BMEI.2009.5305187