Segmentation-based detection of allelic imbalance and loss-of-heterozygosity in cancer cells using whole genome SNP arrays

Table 2 Estimation of tumor cell content from simulated data using segmentation

Tumor	Tumor cells using hemizygous loss (%)*		Tumor cells using single copy gain (%)^†		Tumor cells using copy neutral LOH (%)^‡
cells (%)	Paired	Unpaired	Paired	Unpaired	Paired	Unpaired
0	-	-	-	-	-	-
5	-	-	-	-	-	-
10	-	-	-	-	-	-
15	-	-	-	-	15	15
20	-	-	-	-	21	21
25	26	26	-	-	25	25
30	30	30	31	31	30	30
35	35	35	36	36	35	35
40	40	40	41	41	40	40
45	45	45	45	45	45	45
50	50	50	50	50	49	49
55	55	55	55	55	55	55
60	59	59	60	60	60	61
65	65	65	65	65	64	65
70	70	70	70	70	69	70
75	75	75	75	75	75	75
80	80	80	80	80	80	80
85	85	85	85	85	85	84
90	90	90	90	90	89	86
95	95	93	96	96	94	88
100	99	95	101	101	97	89

*Hemizygous loss on chromosome 10q23.1-q23.33. ^†Mono allelic gain on chromosome 8p. ^‡Copy neutral LOH on 17p13.1-p12. Dashes indicate 'not detected'.