Evaluation of reference-based two-color methods for measurement of gene expression ratios using spotted cDNA microarrays.

ABSTRACT:

Background

Spotted cDNA microarrays generally employ co-hybridization of fluorescently-labeled RNA targets to produce gene expression ratios for subsequent analysis. Direct comparison of two RNA samples in the same microarray provides the highest level of accuracy; however, due to the number of combinatorial pair-wise comparisons, the direct method is impractical for studies including large number of individual samples (e.g., tumor classification studies). For such studies, indirect comparisons using a common reference standard have been the preferred method. Here we evaluated the precision and accuracy of reconstructed ratios from three indirect methods relative to ratios obtained from direct hybridizations, herein considered as the gold-standard.

Results

We performed hybri

SUBMITTER: Peixoto BR 

PROVIDER: S-EPMC1402275 | biostudies-literature | 2006 Feb

REPOSITORIES: biostudies-literature