Empirical comparison of cross-platform normalization methods for gene expression data.

ABSTRACT:

Background

Simultaneous measurement of gene expression on a genomic scale can be accomplished using microarray technology or by sequencing based methods. Researchers who perform high throughput gene expression assays often deposit their data in public databases, but heterogeneity of measurement platforms leads to challenges for the combination and comparison of data sets. Researchers wishing to perform cross platform normalization face two major obstacles. First, a choice must be made about which method or methods to employ. Nine are currently available, and no rigorous comparison exists. Second, software for the selected method must be obtained and incorporated into a data analysis workflow.

Results

Using two publicly available cross-platform testing data sets, cross-platfo

SUBMITTER: Rudy J 

PROVIDER: S-EPMC3314675 | biostudies-literature | 2011 Dec

REPOSITORIES: biostudies-literature