An analysis of the use of genomic DNA as a universal reference in two channel DNA microarrays.

ABSTRACT:

Background

DNA microarray is an invaluable tool for gene expression explorations. In the two-dye microarray, fluorescence intensities of two samples, each labeled with a different dye, are compared after hybridization. To compare a large number of samples, the 'reference design' is widely used, in which all RNA samples are hybridized to a common reference. Genomic DNA is an attractive candidate for use as a universal reference, especially for bacterial systems with a low percentage of non-coding sequences. However, genomic DNA, comprising of both the sense and anti-sense strands, is unlike the single stranded cDNA usually used in microarray hybridizations. The presence of the antisense strand in the 'reference' leads to reactions between complementary labeled strands in solution an

SUBMITTER: Gadgil M 

PROVIDER: S-EPMC1142311 | biostudies-literature | 2005 May

REPOSITORIES: biostudies-literature