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acel12053-sup-0001-FiguresS1-S9-TableS1.docWord document4116K

Fig. S1 LOH Over a 24 Mb Region to the End of the Chromosome 7q Arm.

Fig. S2 LOH with Reduction to Hemizygosity. There is a 3.5 Mb deletion on one allele of chromosome 5q in one of four crypt (sample ID = e_9) in a Panels A and B from individual 13. Panels C and D are a crypt that is normal in this region.

Fig. S3 LOH with Reduction to Hemizygosity. There is a 247 kb deletion on one allele of chromosome 16p in one of four crypts (sample ID= e_12 from individual 13)(panels A and B). Panels C and D show a 73 kb deletion in the same region in crypt ID e_3). Panels E and F show one of the other two crypts, which were normal in this region.

Fig. S4 LOH with Reduction to Hemizygosity. There is a 3.3 Mb deletion on one allele of chromosome 9q in one of three crypts (Panels A and B, sample ID = 14a of individual 14). A crypt that has no apparent abnormalities is shown in Panels C and D.

Fig. S5 LOH with Reduction to Hemizygosity. Three of seven crypts from this ulcerative colitis patient (individual 15) have 3 different deletions in a similar region, even though the deletion sizes are different (336 kb, 376 kb, and 403 kb). Panels G and H are one of the crypts that show no apparent abnormalities.

Fig. S6 LOH with Reduction to Hemizygosity. One (sample ID = 56C_1) of 8 crypts from this ulcerative colitis patient (individual 16) had a 12.4 Mb deletion on chromosome 4 (Panels A and B) that is not present in the other seven crypts (normal crypt for this region in Panels C and D).

Fig. S7 LOH with Reduction to Hemizygosity. One (sample ID =4488103574) of four crypts from this ulcerative colitis patient (individual 17) had a 307 kb deletion on chromosome 16 (Panels A and B), which is not present in the other four crypts (Panels C and D shows one).

Fig. S8 Use of Illumina Genome-Wide SNP Array with Various DNA Quantities.

Fig. S9 PCR-Based DNA Sequence Confirmation of Deletion in One Colon Crypt that is Not Present in Other Crypts from the Same Individual.

Table S1 2 × 2 contingency tables

acel12053-sup-0002-Supportimg-Information.docWord document4116K

 

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