Table 1. Mixture proportions estimated from each sample from the poly-A mRNA data by the reference free methods DeMix and ISOpure. The results for the degraded sample is listed last in each cell in italics and the values closest to the true values are underlined. In each case, DeMix recovers values closest to the true values shown in the bottom row. Pearson correlation coefficients calculated between each of the deconvolved expression profiles mixed samples and the associated pure tumor sample are also shown. The highest correlation coefficients for each sample is underlined. Of the two methods compared, DeMix tends to have higher correlations (closer to 1).

Method	25:75	50:50	75:25
DeMix (estimated proportion)	0.311, 0.294, 0.284, 0.247	0.563, 0.544, 0.518, 0.516	0.759, 0.730, 0.751, 0.733
DeMix (correlation)	0.994, 0.986, 0.989, 0.996	0.987, 0.986, 0.959, 0.956	0.964, 0.998, 0.998, 0.964
ISOpure (estimated proportion)	0.654, 0.673, 0.655, 0.615	0.917, 0.913, 0.908, 0.883	1.00, 1.00, 1.00, 1.00
ISOpure (correlation)	0.975, 0.971, 0.976, 0.965	0.973, 0.968, 0.946, 0.955	0.959, 0.986, 0.987, 0.964
True proportion	0.25	0.5	0.75