Hi Pierre, thanks for the offer. In the one project, we are looking into genetic causes for Silver-Russel syndrome. So far, we have identified only few recurring CNAs. However, one goal is to screen patients for UPDs (that is, copy number neutral LOH), too; some regions (e.g. chromosome 7) have been described previously in SRS.
We have data from 250k SNP arrays and now from Affymetrix 6.0, too. We usually screen patients only, with optional analysis of the parents in case of "interesting" results. However, parent DNA may not be available for all cases. For UPD analysis, we would be interested to have a package integrating into the aroma.affymetrix data structure. Affy 6.0, and optional 250k SNP would be the target arrays. Goal would be the detection of abnormal LOH runs. I am aware of some software options for UPD analysis, but none of those would plug in directly (at least to my knowledge). As said, any help is appreciated! Kind regards, Michael. On Feb 17, 10:24 pm, Pierre Neuvial <[email protected]> wrote: > Hi Michael, > > I would be happy to try to help you here, but as Henrik suggested it's > hard to answer without knowing what chip type you are using/planning > to use... Can you be more specific ? > > Best, > > Pierre. --~--~---------~--~----~------------~-------~--~----~ When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/aroma-affymetrix?hl=en -~----------~----~----~----~------~----~------~--~---
