The frontline support team will be unavailable to answer questions until May27th 2019. We will be back soon after. Thank you for your patience and we apologize for any inconvenience!

coverage confusion in mutSig. Why there are covered bases with categ=7 and effect="silent/noncoding"

nzhaonzhao Seattle, WAMember

Dear Mutsig Developers,

I am trying to understand the algorithm more.

I used the coverage file from the TCGA Lung Squamous paper provided from the mutSig website. However, the file really confuses me. When I do a cross tabulation, there are many bases with categ = 7 and effect = "silent" or "noncoding". This doesn't make sense to me because I thought all the 7th category (null mutation) should necessarily fall in the coding region and have a non-silent effect (which is true for the maf file). Could someone explain this a little?

Thanks a lot.

Best Answer


Sign In or Register to comment.