Hi,

I was trying to analyze some methylation (illumina 27k) data. I have data for 18 
cancer and 18 normal samples. I want to find out if certain regions show 
consistently higher methylation in cancer (as compared to normal). A t-test (and 
then corrected for fdr) for individual probes does not reveal a statistically 
significant difference between samples. 


Is there a way I can use a sliding window approach to see if there are 
consistently differentially methylated regions? Is there a R and/or bioconductor 
package that does it? Or if not, which statistical methods would be most 
appropriate?

Tim

	[[alternative HTML version deleted]]

