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...Hunter Chen Chim miR-191* let-7e let-7b miR-126 let-7a let-7g miR-198 let-7f let-7c miR-146a let-7b let-7i miR-22 let-7g miR-1224 miR-16 let-7d miR-130b miR-223 let-7i miR-124 miR-191 let-7f miR-133a miR-296 let7fG15A miR-125a-3pmiR-222 let-7g miR-140 miR-30d miR-101 miR-125b-5pmiR-223 let-7i miR-142-5p miR-370 miR-103 miR-133a miR-24 miR-101 miR-146 miR-486 miR-125a-5pmiR-133b miR-26a miR-103 miR-148a miR-498 miR-126 miR-13...

Hi, I am relatively new to R and Bioconductor and am trying to filter the topTable that I generated of differentially expressed genes from my normlized eset file comprised of ~ 40 HG-133A Affy microarrays . I would like to see if particular probesets are represented in this list. Alternatively I would like to generate a topTable of differentially expressed genes using only specified probesets within my eset file. Can anyone tell me how I would begin to approach this? I have lo...

Dear All: I have a question on using coxph for multiple genes: I have written code to loop through all 22283 genes in the Hgu-133A and apply coxph on survival data. However, I don't know how to work with the result for each gene: survtest<-coxph(Surv(pcc.primary.stg.3.cox[,'fup_interval'],pcc.primary.stg. 3.cox[,'endpoint'])~pcc.primary.stg.3.cox[,'geneid'],pcc.primary.stg.3.cox) each time...

Hello. By way of background, I am running out of memory when attempting to normalize the data from 160 affymetrix microarrays using justRMA (from the affy package). This is despite making 6 gigabytes of swap space available on our sgi irix machine (which has 2 gigabytes of ram). I have seen in various discussions statements such as "you will need at least 6 gigabytes of memory to normalize

Dear All: I have a question on using coxph for multiple genes: I have written code to loop through all 22283 genes in the Hgu-133A and apply coxph on survival data. However, I don't know how to work with the result for each gene: survtest<-coxph(Surv(pcc.primary.stg.3.cox[,'fup_interval'],pcc.primary.stg. 3.cox[,'endpoint'])~pcc.primary.stg.3.cox[,'geneid'],pcc.primary.stg.3.cox) each...