cufflinks's gene model options

[dolsemtl]

Hi all,

I am going to use cufflinks for gene exprssion profiling in my RNA-seq analysis.
There are two way to work gene expression profiling against known gene model.
1) running cufflinks with -G option
2) running cufflinks without options related to gene model -> running cuffcompare with known gene model

Is there anyone who has exprience of running two workflows and comparing the results of gene expression profiling? I wonder if the results from two workflows are same.
If no, which workflow is showing better result?

Thanks for any comments