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

Table 4 Estimation of tumor cell sub-clone content by segmentation for hemizygous loss in CLL samples

Sample*	CLL cells (%)^†	Genomic region	Hemizygous loss by FISH (%)	Hemizygous loss by segmentation (%)^‡
8	87	17p13.3-p11.1	73	77
9	90	11q22.1-q23.3	56	58
10	86	17p13.3-p11.2	90	94

*Data set 4. mBAF cut-off for each sample based on the maximum theoretical value for copy neutral LOH for the respective tumor content. ^†Percent CLL cells (CD5⁺/CD23⁺) were estimated by flow cytometry. ^‡The average segmented value for the region was used.