Hi there. I am working on a pan-cancer project that contains 12 cancers. The data in use is TCGA RNA-seq data. I have found 37 genes that are involved in survival of patients.I performed a Differential expression between normal and cancer patients. then I have performed a CoxPH model between Dead and Alive Cancer patients on selected genes. dead = 1 and survive= 0.
I calculated LogFC of each gene expression between cancer and normal.
I know that genes with positive LogFC and +1 HR are known as bad prognostic. also genes with negative LogFC and 0<HR<1 are known as good prognostic but my problem is that some genes contain negative Log FC and +1 HR or positive LogFC wirh HR value less than 1.
What does it mean? Thanks
•
written
by
Amir.Asgary •
Hi,
There is no issue here, in my opinion.
Consider the following 3 scenarios:
negative log [base 2]
fold-change). This results in an increased risk of death (HR > 1).positive log [base 2] fold-change). This also results in
an increased risk of death (HR > 1).positive log [base 2] fold change).
This is protective (HR<1).However, as with everything in cancer, there are 'double edged swords' in every which way that we look...
Kevin
Thank you so much. I think so, that some signaling pathways are involved here specially some regulators like Tumor suppressors and oncogenes.
Log in to answer this question.
