[BioC] microarray data and survival analysis
Charles C. Berry
cberry at tajo.ucsd.edu
Wed Feb 21 01:59:07 CET 2007
On Tue, 20 Feb 2007, Dr_Gyorffy_Balazs wrote:
> Dear All!
>
> I have microarray data for cancer patients and I want to correlate the genes with survival.
> One option is the survival analysis of the PAM package. However, only the windows EXCEL version offers this option, but the package for R not. Moreover, the EXCEL version breaks down, so that I can see the successfull classification but I can not see which genes are included in the discriminative signature. Unfortunatelly, the authors of PAM do not respond to my questions.
>
> Questions:
> 1. is there an R version of PAM which I am unaware of?
> 2. is there other pacakge / software I can use to correlate microarray data and patient survival data?
Have you looked at "Semi-Supervised Methods to Predict Patient Survival
from Gene Expression Data"
http://dx.doi.org/10.1371/journal.pbio.0020108
???
The R code Bair and Tibs used is in the supplements.
HTH,
Chuck
Charles C. Berry (858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cberry at tajo.ucsd.edu UC San Diego
http://biostat.ucsd.edu/~cberry/ La Jolla, San Diego 92093-0901
More information about the Bioconductor
mailing list