Table 1 |
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|
DER values for T1DM and false positive genes in the top 7 WTCCC T1DM loci |
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|
Loci |
Genea |
Associated?b |
DER |
Correct?c |
|
|
||||
|
4q27 |
TENR |
No |
0.54 |
True negative |
|
|
||||
|
4q27 |
IL2 |
No |
0.48 |
True negative |
|
|
||||
|
4q27 |
IL21 |
No |
0.46 |
True negative |
|
|
||||
|
6p21 |
HLA-DQB1 |
Yes |
0.68 |
True positive |
|
|
||||
|
6p21 |
HLA-DRB1 |
Yes |
0.61 |
True positive |
|
|
||||
|
6p21 |
HLA-B |
Yes |
0.59 |
True positive |
|
|
||||
|
6p21 |
HLA-A |
Yes |
0.59 |
True positive |
|
|
||||
|
6p21 |
HLA-DPB1 |
Yes |
0.54 |
False negative |
|
|
||||
|
6p21 |
TAP2 |
Yes |
0.58 |
True positive |
|
|
||||
|
6p21 |
CFB |
Yes |
0.59 |
True positive |
|
|
||||
|
6p21 |
MICA |
No |
0.5 |
True negative |
|
|
||||
|
6p21 |
MICB |
No |
0.53 |
True negative |
|
|
||||
|
6p21 |
MASIL |
No |
0.35 |
True negative |
|
|
||||
|
6p21 |
UBD |
No |
0.48 |
True negative |
|
|
||||
|
6p21 |
ITPR3 |
No |
0.62 |
False positive |
|
|
||||
|
12p13 |
CLEC2D |
No |
0.51 |
True negative |
|
|
||||
|
12q13 |
ERBB3 |
Yes |
0.63 |
True positive |
|
|
||||
|
12q24 |
C12orf30 |
Yes |
0.52 |
False negative |
|
|
||||
|
12q24 |
SH2B3 |
Yes |
0.58 |
True positive |
|
|
||||
|
16p13 |
KIAA0350 |
Yes |
0.5 |
False negative |
|
|
||||
|
18p11 |
PTPN2 |
Yes |
0.64 |
True positive |
|
|
||||
|
aThe positive candidate genes from WTCCC GWAS with reported validation results. bValidated to be associated or unassociated with T2DM in the high-quality genotyping. cThe predicted result using DER ≥ 0.55. DER, differential expression ratio; GWAS, genome-wide association study; T1DM, type 1 diabetes mellitus; WTCCC, Wellcome Trust Case Control Consortium. |
||||
|
Chen et al. Genome Biology 2008 9:R170 doi:10.1186/gb-2008-9-12-r170 |
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