Question: computing the CNA in the cancer genomes
gravatar for Bogdan
10 months ago by
Palo Alto, CA, USA
Bogdan800 wrote:

Dear all, please may I ask for your opinion :

when analyzing the somatic Copy Number Alterations (CNA) in the cancer genomes (based on whole genome sequencing data), would you recommend using (running) the CNA_calling algorithm :

-- per EACH CHROMOSOME individually, or

-- on ALL CHROMOSOMES at the same time (on a genome-wide scale) ?

I am asking because multiple copies of a chromosome may potentially introduce biases when computing the baseline corresponding to the diploid status of the genome. Thank you !

-- bogdan

cancer cnv copy number cna • 408 views
ADD COMMENTlink modified 10 months ago by Kevin Blighe45k • written 10 months ago by Bogdan800
gravatar for Kevin Blighe
10 months ago by
Kevin Blighe45k
Kevin Blighe45k wrote:

Dear Bogdan, as far as I am aware, ASCAT calculates allele-specific somatic copy number events while adjusting for tumour ploidy.


ADD COMMENTlink written 10 months ago by Kevin Blighe45k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1580 users visited in the last hour