Question: computing the CNA in the cancer genomes
gravatar for Bogdan
19 months ago by
Palo Alto, CA, USA
Bogdan970 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 • 588 views
ADD COMMENTlink modified 19 months ago by Kevin Blighe56k • written 19 months ago by Bogdan970
gravatar for Kevin Blighe
19 months ago by
Kevin Blighe56k
Kevin Blighe56k 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 19 months ago by Kevin Blighe56k
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