Dear list, could anybody with more experiencing in the analysis of Affymetrix exon arrays comment on the need of technical replicates. We would be analyzing around 100 samples from breast cancer patients in search for putative biomarkers and would like to design a robust experiment. Any comments based on previous analysis experience will be greatly appreciated! Cheers! Marcos B. Pinho Programa de Engenharia Química - PEQ Laboratório de Engenharia de Cultivos Celulares- LECC Universidade Federal do Rio de Janeiro - UFRJ Instituto Nacional de Câncer - INCA Rio de Janeiro - Brasil [[alternative HTML version deleted]]

On Fri, Sep 18, 2009 at 12:49 PM, Marcos Pinho <pinho.microarray@gmail.com>wrote: > Dear list, > > could anybody with more experiencing in the analysis of Affymetrix exon > arrays comment on the need of technical replicates. We would be analyzing > around 100 samples from breast cancer patients in search for putative > biomarkers and would like to design a robust experiment. > > This is a general comment and made without any idea of the questions that you want to answer but, in general, technical replicates are not likely to add a lot to your study as technical variation is generally pretty low if the arrays are done under the same conditions (is this going to be true?). However, biological replicates (more samples in your case) will probably be helpful. Sean [[alternative HTML version deleted]]