Hi guys, I have a question about the BAF pattern I see when looking at SNP array data. I recently found this paper from 2012 that discussed a linear relationship between tumor cellularity and a shift in the BAF pattern. Here is the link: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0045835 Please have a look at this image from the paper. I understand that, in a sample of only healthy cells, the BAF plot shows signals at 0, 1, and 0.5. I also understand that for the pure tumor cell line, in the region of deletion, there is only 0 and 1. But, what I can't make any sense of, is the way the BAF pattern splits in between. If there are healthy cells in the sample, where did their signal at 0.5 go?
Can anybody explain this?