TY - GEN
T1 - Detect the different isoforms using GeneChip human exon 1.0 ST arrays
AU - Ma, Mi Chia
AU - Lin, Hsiao Fang
AU - Xu, Ying
N1 - Copyright:
Copyright 2010 Elsevier B.V., All rights reserved.
PY - 2009
Y1 - 2009
N2 - 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.
AB - 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.
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U2 - 10.1109/BMEI.2009.5305187
DO - 10.1109/BMEI.2009.5305187
M3 - Conference contribution
AN - SCOPUS:74049109455
SN - 9781424441341
T3 - Proceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009
BT - Proceedings of the 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009
T2 - 2009 2nd International Conference on Biomedical Engineering and Informatics, BMEI 2009
Y2 - 17 October 2009 through 19 October 2009
ER -
