Hi,
I was exploring copy number (absolute) data and more specific copy number changes of SUPT1 cells. Manual of these cells tells that they have tetraploid genome, however when I explored data and downloaded the absolute copynumber data, the ploidy of this cells line is ~2. Could you clarify why it is ~2 or have I understand something wrong? Other cell line I explored had correct ploidies.
Thank you in advance!
Best,
Laura
Hi. Can you explain a bit on how you determined tetraploidy in this line? -thanks
Hi jnoorbak,
We have not determided it by ourselves, but we have read it from this references:
https://www.lgcstandards-atcc.org/Products/All/CRL-1942.aspx?geo_country=fi#
https://www.dsmz.de/collection/catalogue/details/culture/ACC-140
The Leukemia-Lymphoma Cell Line FactsBook by Hans G Drexler, page 405
From your data portal I downloaded CCLE_ABSOLUTE_combined_20181227.xlsx, and in its tab called “ABSOLUTE_combined.table” ploidy for sample SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ACH-000953 is 1.98.
Thank you!
looking at the sources you shared it seems like the lines is hypotetraploid, so I’m guessing the overall ploidy should be between 2-4. We rely on ABSOLUTE inferences for these and they are not always accurate. It is possible that the algorithm has missed this case.
