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Parallel Computation and Visualization Tools for Codetermination Analysis of Multivariate Gene Expression Relations

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Computational and Statistical Approaches to Genomics

Summary and conclusions

This chapter presents PAGE, a parallel program for analyzing the codetermination of gene transcriptional states from large-scale simultaneous gene expression measurements with cDNA microarrays, and its application to a large set of genes. Using PAGE, it was possible to compute coefficients of determination for all possible three-predictor sets from 587 genes for 58 targets in a reasonable amount of time. Given the limited samplesizes currently being used for microarray analysis, it is not necessary to go beyond three predictors at this time since the data are insufficient for four-predictor CoD estimation. As shown in Tables 13.1, 13.2, and 13.3, significant speedups are achieved by the parallelization when compared to the sequential version of the program modules.

A related data visualization program, VOGE, helps geneticists navigate, manipulate, and interpret the massive amount of computationally derived information produced by PAGE. Tools provided in VOGE enhance the ability of researchers to interpret and apply the computationally derived information for understanding the functional roles of genes.

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© 2003 Kluwer Academic Publishers

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Suh, E.B. et al. (2003). Parallel Computation and Visualization Tools for Codetermination Analysis of Multivariate Gene Expression Relations. In: Zhang, W., Shmulevich, I. (eds) Computational and Statistical Approaches to Genomics. Springer, Boston, MA. https://doi.org/10.1007/0-306-47825-0_13

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  • DOI: https://doi.org/10.1007/0-306-47825-0_13

  • Publisher Name: Springer, Boston, MA

  • Print ISBN: 978-1-4020-7023-5

  • Online ISBN: 978-0-306-47825-3

  • eBook Packages: Springer Book Archive

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