Hi, In the new year, I am going to start work on a large aCGH dataset from quite a few different samples. I am new to CGH analysis. What I would like to know the best way to find amplicons or deletions that are shared in the majority of samples (a statistic would be useful). More specifically I would like to find the smallest common differential regions that contain a known gene. Any thoughts? Many thanks Daniel -- ************************************************************** Daniel Brewer, Ph.D. Institute of Cancer Research Molecular Carcinogenesis MUCRC 15 Cotswold Road Sutton, Surrey SM2 5NG United Kingdom

On Wednesday 06 December 2006 10:49, Daniel Brewer wrote: > Hi, > > In the new year, I am going to start work on a large aCGH dataset from > quite a few different samples. I am new to CGH analysis. What I would > like to know the best way to find amplicons or deletions that are shared > in the majority of samples (a statistic would be useful). More > specifically I would like to find the smallest common differential > regions that contain a known gene. Look at the STAC algorithm: pubmed id: 16899652 Also, there is the cghMCR package in the bioconductor repository. Sean