I am trying to use CBioportal to find out the mRNA expression between normal vs tumor cases of one gene but could not find any instructions how I can do that. When I use this database I only see option for
Mutation and CNA --Only Mutation ---Only CNA (http://www.cbioportal.org/index.do) when is use the following command in web page
gene: EXP>2 it will allow me selection of normal samples. Could some one at forum may help to understand how should I solve this issue.
Thanks
1 answer
When querying 2 or more studies, cBioPortal only support mutaiton and CNA. After selecting one cancer study, you would see expression profile if available for the selected study. However, most of the expression z-score profiles are calculated based on a reference population of tumor samples. Normal data integration is in the roadmap of cBioProtal and will be available in the near future.
Log in to answer this question.
-
Disease specific mutation database (non cancer)
written by kanwarjag
-
Mutation in one gene in TCGA data
written by rob.costa1234
-
cBioPortal Z-score: value difference between download and web Portal
written by faswad •
-
Fetching mrna values from cBio-Portal Web API
written by pel •
-
cBioPortal survival analysis help
written by doc.golly
-
Using cbioportal gene ontology for new gene/variants discovery
written by MAPK
-
RPKM to FPKM conversion
written by kanwarjag
-
somatic mutations from WGS of CGI
written by kanwarjag
-
Driver And Passenger Mutations In Cancer
written by kanwarjag
-
How To Generate A "Lollipop" Image To Display Mutations Along A Sequence
written by RoyC •
