Table 2.
SNP Details | T2DN | T1DN | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
Reference ID | GeneView (dbSNP) | Chr location | Position on chromosome (bp) | Amino acid change (dbSNP) | Minor allele frequency (dbSNP) | Minor allele frequency (T2DN) (%) | Allelic P value for T2DN | Emprical P perm.genotypemodel T2DN | Genotype method for T1DN | P value for T1DN |
rs1543547 | RAET1L | 6q25.1 | 150388225 | G26R | C > T; C = 7% | 41.58 | 0.00002 | 0.00004 | iPLEX1 | 0.91 |
rs1055061 | HOMEZ | 14q11.2 | 22814772 | Q478R | A > G; A = 3% | 3.22 | 0.0001 | 0.0001 | iPLEX1 | 0.22 |
rs4713438 | No link established | 6p21.3 | 31254825 | A > G; A = 14% | 13.83 | 0.0001 | 0.0002 | TaqMan | 0.36 | |
rs2224391a | FARS2 and LYRM4 | 6p25.1 | 5205935 | A11S | A > C; A = 68/71% | 25.64 | 0.9 | 0.0004 | TaqMan | 0.06 |
rs9468877 | No link established | 6p21.3 | 31250882 | A > G; A = 8/13% | 10.66 | 0.0003 | 0.0004 | TaqMan | 0.72 | |
rs2243380 | ROS1 | 6q22 | 117831072 | G167R | A > G; A = 8% | 8.20 | 0.003 | 0.0004 | iPLEX1 | 0.33 |
rs10751735 | AIM1L | 1p36.11 | 26535949 | N249S | C > T; C = 55% | 46.40 | 0.003 | 0.0006 | iPLEX1 | 0.03 |
rs3825491 | MYO16 | 13q33.3 | 108459360 | A831P | C > G; C = 39/40% | 34.75 | 0.0002 | 0.0006 | iPLEX1 | 0.75 |
rs4930979a | MGC24039 | 12p11.21 | 31540093 | K52R | C > T; T = 40% | 38.40 | 0.4 | 0.0007 | iPLEX1 | 0.13 |
rs12933084 | WFDC1 | 16q24.3 | 82918034 | R217 K | A > G; G = 29/30% | 33.96 | 0.0003 | 0.0007 | iPLEX1 | 0.11 |
rs10502001 | MMP7 | 11q21-q22 | 101903803 | H77R | C > T; T = 18% | 20.86 | 0.02 | 0.0009 | iPLEX1 | 0.73 |
rs2285372 | PLXND1 | 3q21.3 | 130787487 | S617P | A > G; A = 5% | 2.72 | 0.001 | 0.001 | tagSNP | N/A |
rs2301572 | PLXND1 | 3q21.3 | 130788150 | S531G | C > T; T = 5% | 2.72 | 0.001 | 0.001 | iPLEX1 | 0.69 |
rs13143848 | C4orf17 | 4q23 | 100662743 | E64G | A > G; A = 36% | 28.52 | 0.02 | 0.001 | iPLEX1 | 0.15 |
rs10452600 | No link established | 6p22 | 26300481 | A > C; A = 10/12% | 11.81 | 0.002 | 0.001 | iPLEX1 | 0.63 | |
rs2076484 | UBD | 6p21.3 | 29631982 | S51L | C > T; T mono-morphic | 2.96 | 0.002 | 0.001 | TaqMan | 0.03 |
rs9380215 | No link established | 6p21.3 | 31157634 | A > G; G = 7% | 5.11 | 0.001 | 0.001 | TaqMan | 0.03 | |
rs2857596 | No link established | 6p21.3 | 31675401 | A > C; C = 31% | 31.83 | 0.001 | 0.001 | TaqMan | 0.23 | |
rs10825269 | PCDH15 | 10q21.1 | 55625616 | S380G | C > T; T = 8% | 14.22 | 0.001 | 0.001 | iPLEX1 | 0.18 |
rs8141797 | SUSD2 | 22q11-q12 | 22912041 | S466 N | A > G; G = 7/9% | 4.79 | 0.001 | 0.001 | iPLEX1 | 0.85 |
rs1129411 | SP110 | 2q37.1 | 230785969 | R112 W | C > T; T = 14% | 12.81 | 0.002 | 0.002 | iPLEX1 | 0.73 |
rs11753837 | No link established | 6p22 | 26298726 | A > G; A = 7% | 8.63 | 0.002 | 0.002 | iPLEX1 | 0,21 | |
rs11755943 | No link established | 6p22 | 26319347 | A > G; G = 10/13% | 12.04 | 0.002 | 0.002 | tagSNP | N/A | |
rs8005245 | OR4K17 | 14q11.2 | 19655882 | N159 K | C > G; C = 40/43% | 38.76 | 0.009 | 0.002 | iPLEX1 | 0.03 |
rs1788799 | NPC1 | 18q11-q12 | 19378943 | I642 M | A > G; A = 33% | 35.16 | 0.0006 | 0.002 | iPLEX1 | 0.50 |
rs4701997 | DNAH5 | 5p15.2 | 13947894 | L766I | A > T; T = 47% | 48.19 | 0.001 | 0.003 | iPLEX1 | 0.04 |
rs2076487 | UBD | 6p21.3 | 29631838 | G99A | C > G; C = mono-morphic/98% | 2.95 | 0.002 | 0.003 | tagSNP | N/A |
rs2076486 | UBD | 6p21.3 | 29631851 | P95S | C > T; T = mono-morphic | 2.95 | 0.002 | 0.003 | tagSNP | N/A |
rs3793524a | PTPN3 | 9q31 | 111259295 | P90A | C > G; G = 38/39% | 38.74 | 0.9 | 0.003 | iPLEX1 | 0.39 |
rs36012476 | ADCK4 | 19q13.2 | 45897900 | R352T | C > G; G = 17% | 4.67 | 0.0007 | 0.003 | iPLEX1 | 0.46 |
rs6917033 | UBR2 | 6p21.1 | 42735412 | T1095P | A > G; A = 38/48% | 37.03 | 0.001 | 0.004 | iPLEX1 | 0.49 |
rs9552271 | N6AMT2 | 13q12.11 | 20220107 | C > T; T = 43% | 36.57 | 0.002 | 0.006 | TaqMan | 0.71 |
N/A—not directly assessed because tagged by another SNP (r 2 > 0.8)
a HWE for cases,controls: rs2224391 = 0.02, 0.001; rs3793524 = 0.005, 0.01; rs4930979 = 0.004, 0.005