[BioC] Different expression direction between limma microarray data analysis vs quantitative real time PCR result

[jixinwang at tamu.edu]

Dear all,

I use limma package to do microarray data analysis and most of real time PCR validation results are consistent with microarray data in terms of expression direction and statistical significance. However in one set of experiemnts, two DE genes are statistically significant in both of microarray and qRT-PCR result BUT had the different expression direction. (e.g. They are  down regulated in microarray result but real time PCR result showed that they are up regulated)? I don’t know why. Does this occur to anyone before? Many thanks.  


Best regards,

Wang