How to interpret "pseudo count" in copy number data from CCLE?
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4 months ago

Hi. I have downloaded the corresponding mutation and CNV data from DepMap version 21Q4. For the CNV data (CCLE_gene_cn.csv), the data description is “Gene level copy number data, log2 transformed with a pseudo count of 1. This is generated by mapping genes onto the segment level calls”, which I couldn't understand clearly. What I understand is that the value generated by adding 1 to all the original copy number values and then log2-transformed. Another question is why they add the value of 1 before transforming the copy number data. How to interpret the copy number status (deep deletion, het loss, diploid, gain and amplified) from the CCLE copy number data?

number copy CNV • 360 views
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