How TCGA generanker works ?

Question

[Nicolas Rosewick]

Hi,

I found this useful website based on mutliple cancer gene list. I searched, but I cannot find any information on how this tcga-generanker is made ? and which statistics it used to compute the score ? And also it says Gene Ranker: TCGA GBM 6000. Is it only for GBM (Glioblastoma Multiforme) .

Answer 1

[Giovanni M Dall'Olio]

and which statistics it used to compute the score ?

If you look at their TCGA generator sources page, you can see that their list of candidate genes comes from a collection of lists of from other sources. Each list has a specific weight, and from the way it looks, it seems that they attributed scores based on the confidence they had on each list. Then, each gene is ranked with the sum of of the scores of all the lists to which it belongs

Is it only for GBM (Glioblastoma Multiforme) .?

The database contains genes specific to other tissues (e.g. COL11A1 which is specific to Lung cancer), so it seems the database is not only for GBM.

[Nicolas Rosewick]

Ok I understand better. It gives a score for each list. And if a gene is found in several of these lists, the score is the sum of the list score's where the gene is found. Thanks