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Exploiting Dependencies of Patterns in Gene Expression Analysis Using Pairwise Comparisons

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Bioinformatics Research and Applications (ISBRA 2013)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 7875))

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In using pairwise comparisons to analyze gene expression data, researchers have often treated comparison outcomes independently. We now exploit additional dependencies of comparison outcomes to show that those with a certain property cannot be true patterns of genes’ response to treatments. With this result, we leverage p-values obtained from comparison outcomes to predict true patterns of gene response to treatments. Functional validation of gene lists obtained from our method yielded more and better functional enrichment than those obtained from the conventional approach. Consequently, our method promises to be useful in designing cost-effective experiments with small sample sizes.

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Vo, N.S., Phan, V. (2013). Exploiting Dependencies of Patterns in Gene Expression Analysis Using Pairwise Comparisons. In: Cai, Z., Eulenstein, O., Janies, D., Schwartz, D. (eds) Bioinformatics Research and Applications. ISBRA 2013. Lecture Notes in Computer Science(), vol 7875. Springer, Berlin, Heidelberg.

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-38035-8

  • Online ISBN: 978-3-642-38036-5

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