Illumina WG-6 BeadChip strips should be normalized separately.

ABSTRACT:

Background

Illumina Sentrix-6 Whole-Genome Expression BeadChips are relatively new microarray platforms which have been used in many microarray studies in the past few years. These Chips have a unique design in which each Chip contains six microarrays and each microarray consists of two separate physical strips, posing special challenges for precise between-array normalization of expression values.

Results

None of the normalization strategies proposed so far for this microarray platform allow for the possibility of systematic variation between the two strips comprising each array. That this variation can be substantial is illustrated by a data example. We demonstrate that normalizing at the strip-level rather than at the array-level can effectively remove this between-strip

SUBMITTER: Shi W 

PROVIDER: S-EPMC2780421 | biostudies-literature | 2009 Nov

REPOSITORIES: biostudies-literature