Table 2 Top genetic association and linkage results
From: Genome-wide association of sleep and circadian phenotypes
2a – Top association results from population-based association tests | ||||||
|---|---|---|---|---|---|---|
Phenotype | SNP | Chr | Physical Position | GEE p-value | FBAT p-value | Gene Region |
Sleepiness | rs1823068 | 5 | 58,711,806 | 2.5*10-8 | .069 | PDE4D |
Sleepiness | rs2218488 | 8 | 72,426,510 | 3.2*10-6 | .070 | EYA1 |
Sleepiness | rs2247614 | 21 | 35,553,557 | .000011 | .0045 | Â |
Sleepiness | rs7073579 | 10 | 1,364,007 | .000014 | .0081 | ADARB2 |
Sleepiness | rs9298693 | 9 | 13,891,409 | .000016 | .28 | Â |
Bedtime | rs949175 | 11 | 97,242,217 | 9.7*10-6 | .38 | Â |
Bedtime | rs2288292 | 11 | 12,452,275 | .000017 | .0096 | PARVA |
Bedtime | rs324981 | 7 | 34,591,353 | .000018 | .089 | NPSR1 |
Bedtime | rs10483871 | 14 | 75,141,034 | .000045 | .0065 | C14orf58 |
Bedtime | rs10507551 | 13 | 46,659,884 | .000048 | .032 | Â |
Sleep duration | rs6599077* | 3 | 40,071,622 | 1.4*10-7 | .020 | MYRIP |
Sleep duration | rs10492604 | 13 | 57,802,314 | 4.2*10-6 | .038 | Â |
Sleep duration | rs10489832 | 1 | 155,267,429 | .000028 | .0043 | OR10K1, OR10K2 |
Sleep duration | rs2256551 | 20 | 51,066,908 | .000065 | .11 | TSHZ2 |
Sleep duration | rs2165207 | 12 | 72,418,535 | .000011 | .13 | Â |
2b – Top association results from family-based association tests | ||||||
Phenotype | SNP | Chr | Physical Position | GEE p-value | FBAT p-value | Gene Region |
Sleepiness | rs10510835 | 3 | 60,222,161 | .00054 | .000019 | FHIT |
Sleepiness | rs2189829 | 7 | 49,387,124 | .53 | .000019 | Â |
Sleepiness | rs434052* | 14 | 35,613,399 | .0024 | .000024 | Â |
Sleepiness | rs4896580 | 6 | 142,518,529 | .000096 | .000056 | VTA1 |
Sleepiness | rs10520010 | 4 | 150,482,987 | .013 | .000064 | Â |
Bedtime | rs1940013* | 11 | 131,786,861 | .0026 | 6.1*10-6 | OPCML |
Bedtime | rs2525724 | 7 | 120,203,894 | .33 | .000019 | ING3 |
Bedtime | rs1725021 | 7 | 136,350,575 | .031 | .000022 | PTN |
Bedtime | rs932650 | 10 | 115,337,349 | .37 | .000025 | HABP2 |
Bedtime | rs2985334 | 1 | 29,165,643 | .0099 | .000035 | EPB41 |
Sleep duration | rs481233 | 6 | 126207158 | .85 | .000072 | NCOA7 |
Sleep duration | rs2359894 | 18 | 40309270 | .059 | .00011 | Â |
Sleep duration | rs2061579 | 12 | 73224522 | .13 | .00014 | Â |
Sleep duration | rs10492507 | 13 | 48722291 | .037 | .00021 | CDADC1 |
Sleep duration | rs6974138 | 7 | 74708138 | .20 | .00024 | Â |
2c – Linkage peaks with LOD score >2.0 | ||||||
Phenotype | SNP closest to linkage peak | Chr | Physical location of linkage peak | Maximum LOD score | 1.5 LOD support interval (Mb) | Â |
Bedtime | rs28168 | 16 | 55,508,777 | 2.45 | 48.5 – 62.0 |  |
Bedtime | rs10498313 | 14 | 29,468,627 | 2.33 | 28.7 – 32.6 |  |
Bedtime | rs10503857 | 8 | 29,909,250 | 2.26 | 21.9 – 37.1 |  |
Bedtime | rs10512058 | 9 | 76,736,108 | 2.11 | 10.6 – 107.4 |  |