scientificprotocols authored almost 6 years ago
Authors: Hoi-Hung Cheung, Wai-Yee Chan & Tin-Lap Lee
Tiling microarrays integrate the genome in an unbiased fashion and provide a much higher genomic resolution compared to tradition microarrays. Affymetrix tiling microarray platform is one of the most popular tiling array platforms available, and has been widely applied in the studies of transcriptome, transcriptional and epigenetic regulations. Similar to all Affymetrix gene chip families, the tiling microarrays are designed for one time use only.
Various stripping strategies have been described in other microarray platforms. Here we describe a method for reusing the Affymetrix tiling gene chips by simple stripping procedures.
1 hour
The use of fresh probes for re-probing is suggested.
If the scanned image is not clean, repeat the stripping step 3 for another 10 min.
The correlation coefficient between the first hybridization (without stripping) and re-hybridization (stripped) should be above 0.9. The range we have is around 0.96.
Hoi-Hung Cheung, Wai-Yee Chan & Tin-Lap Lee, Section on Developmental Genomics, Laboratory of Clinical Genomics, and Divsion of Information Technology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health.
Source: Protocol Exchange (2008) doi:10.1038/nprot.2008.240. Originally published online 10 December 2008.