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Bioinformatics. 2005 Apr 15;21(8):1542-9. Epub 2004 Dec 14.

Boolean relationships among genes responsive to ionizing radiation in the NCI 60 ACDS.

Author information

1
Department of Electrical Engineering, Texas A&M University, College Station, TX 77843, USA.

Abstract

MOTIVATION:

An early use of gene-expression data coming from microarrays was to discover non-linear multivariate intergene relationships. Pursuing this direction, the motivation for this paper is 2-fold: (1) to discover and elucidate multivariate logical predictive relations among gene expressions in a dataset arising from radiation studies using the NCI 60 Anti-Cancer Drug Screen (ACDS) cell lines; and (2) to demonstrate how these logical relations based on coarse quantization reflect corresponding relations in the continuous data.

RESULTS:

Using the coefficient of determination, a large number of logical relationships have been discovered among genes in the NCI 60 ACDS cell lines. Moreover, these relationships can be seen directly in the original continuous data, and many are robust relative to the thresholds used to obtain the logical data from the continuous data. A key observation is that a number of intergene relationships appear to be considerably stronger when p53 is functional as compared to when it is not, which is consistent with earlier findings in the literature.

AVAILABILITY:

The appendix is available at http://gsp.tamu.edu/Publications/supplement.htm

CONTACT:

edward@ee.tamu.edu.

PMID:
15598836
DOI:
10.1093/bioinformatics/bti214
[Indexed for MEDLINE]

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