The models were constructed in a semi-automated fashion by seeding with relatively unambiguous copy-profiles. As tumors were added, the use of recurrent karyotypes clearly identified the correct solutions of additional samples, etc. For example, LOH of chr17 occurs in nearly 100% of ovarian carcinoma samples 33, allowing the model to learn that solutions implying LOH of chr17 are likely to be correct. In total, models for 14 disease types were created. Diseases with fewer than 40 samples called by ABSOLUTE were omitted from this procedure. In addition, a “master” model was created by combining called primary cancer profiles. This model was used for diseases with no specific karyotype model.
