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Global associations between copy number and transcript mRNA microarray data: an empirical study.

ABSTRACT: With an increasing number of cancer profiling studies assaying both transcript mRNA and copy number expression levels, a natural question then involves the potential to combine information across the two types of genomic data. In this article, we perform a study to assess the nature of association between the two types of data across several experiments. We report on several interesting findings: 1) global correlation between gene expression and copy number is relatively weak but consistent across studies; 2) there is strong evidence for a cis-dosage effect of copy number on gene expression; 3) segmenting the copy number levels helps to improve correlations.

SUBMITTER: Gu W

PROVIDER: S-EPMC2623285 | biostudies-literature | 2008

REPOSITORIES: biostudies-literature

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Global associations between copy number and transcript mRNA microarray data: an empirical study.

Gu Wenjuan W Choi Hyungwon H Ghosh Debashis D

Cancer informatics 20080209

With an increasing number of cancer profiling studies assaying both transcript mRNA and copy number expression levels, a natural question then involves the potential to combine information across the two types of genomic data. In this article, we perform a study to assess the nature of association between the two types of data across several experiments. We report on several interesting findings: 1) global correlation between gene expression and copy number is relatively weak but consistent acro ...[more]

PMID: 19259399

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