Validation of CNN-LOH in case no. 39. (A) SNP-chip data of chromosome 11 in case no. 39. The samples had CNN-LOH on chromosome 11 (11p-terminal–p14.1, 28.7 Mb). (B) Determination of SNP sequence in 11p CNN-LOH region in case no. 39. 2 SNP sites (rs10500648 and rs7937815) were sequenced. Both SNP sites showed heterozygosity in the complete remission sample, whereas they showed homozygosity in the diagnosis sample. (C) Determination of copy number in the 11p15.4 region. Copy number of 11p15.4 (CNN-LOH region) in case no. 39 at diagnosis was compared with complete remission (CR) sample with quantitative genomic real-time PCR. Levels of the copy number were determined as a ratio between 11p15.4 and the reference genomic DNA, 2p21. Results represent the mean of 3 experiments plus or minus SD.