Table 1 |
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|
Allele-specific methylation of amplicons among individuals and correlation with genotype |
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|
Genes and amplicons |
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|
|
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|
C21orf81 |
HSF2BP |
RIPK4 |
CBR1 |
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|
|
|
|
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|
23_1 |
23_2 |
262 |
232 |
176_1 |
176_2 |
|
|
|
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|
Length (bp) |
370 |
426 |
400 |
241 |
302 |
476 |
|
CpG sites |
31 |
26 |
42 |
25 |
31 |
44 |
|
SNP (strand) dbsnp build 129 |
A/C (-) rs2297246 |
A/C (+) rs56270809 |
A/G (-) rs2838343 |
A/G (+) rs55860816 |
del/no del (+) rs41563015 |
C/G (+) rs25678 |
|
Individuals studied |
38 |
19 |
33 |
36 |
21 |
21 |
|
Individuals with SNP |
17 |
8 |
20 |
11 |
1 |
8 |
|
Individuals with SNP and ASM |
8 |
7 |
19 |
3 |
1 |
1 |
|
Coupling of ASM and genotype |
Always: C hyper- methylated |
Always: C hyper- methylated |
18 cases: G hyper- methylated in right part of amplicon |
Always: G hyper- methylated |
Always: del hyper- methylated |
Always: C hyper- methylated |
|
1 case: A hyper- methylated in left part of amplicon |
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|
Average allelic methylation difference in ASM cases |
53% |
60% |
54% (G hyper- methylated), 64% (A hyper- methylated) |
39% |
50% |
60% |
|
Individuals with SNP but without ASM |
9 |
1 |
1 |
8 |
0 |
7 |
|
Individuals without SNP |
21 |
11 |
13 |
25 |
20 |
13 |
|
|
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|
ASM, allele-specific methylation; CpG, cytosine-guanine dinucleotide; SNP, single nucleotide polymorphism. |
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|
Zhang et al. Genome Biology 2009 10:R138 doi:10.1186/gb-2009-10-12-r138 |
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