Table 3. Comparison between ΔF L and the most frequent haplotype-trait association in Group II-A.
| Chr | Pos (Mb) | ΔFL1 | FL | Association2 | Trait2 | Coding region3 | Candidate genes4 |
|---|---|---|---|---|---|---|---|
| 1 | 29.808 | 4.298 | 0.204 | - | - | GBE1 | - |
| 32.739 | 4.269 | 0.202 | - | - | CADM2 | - | |
| 49.533 | 4.717 | 0.159 | 5.9 | Milk | ALCAM | MYH15 | |
| 64.032 | 4.03 | 0.110 | 10.43 | Protein | IGSF11 | B4GALT4 | |
| 2 | 51.035 | 4.049 | 0.090 | 4.28 | Milk | SNRPD1 | - |
| 51.895 | 4.171 | 0.088 | - | - | ZEB2 | GTDC1 | |
| 109.106 | 4.156 | 0.108 | 8.09 | Fat | FN 1 | IGFBP2 | |
| 126.957 | 4.053 | 0.094 | 14.29 | Fat | ARID1A | E2F2, FGR | |
| 7 | 57.334 | 4.146 | 0.133 | 24.72 | Fat | POU4F3 | RBM27 |
| 60.257 | 5.011 | 0.121 | 25.27 | Fat | HTR4 | PPP2R2B | |
| 62.934 | 5.113 | 0.110 | 17.87 | Fat | ANXA6 | ADRB2 | |
| 65.047 | 4.537 | 0.103 | 18.42 | Fat | GLRA1 | GPX3 | |
| 8 | 46.155 | 4.033 | 0.105 | 8.61 | Protein | PTAR1 | PTAR1 |
| 61.915 | 4.024 | 0.137 | 10.45 | Fat | GRHPR | GRHPR | |
| 9 | 87.889 | 4.093 | 0.124 | 14.95 | Protein | PPIL4 | - |
| 88.112 | 4.181 | 0.125 | 5.03 | Protein | LRP11 | - | |
| 10 | 97.708 | 4.374 | 0.125 | 5.92 | Protein | FLRT2 | - |
| 99.331 | 4.307 | 0.136 | 6.26 | Protein | MIR2293 | PIDA6 | |
| 11 | 77.826 | 4.033 | 0.081 | 9.41 | Milk | APOB | GDF7 |
| 79.052 | 4.021 | 0.080 | 5.97 | Fat | TTC32 | OSR1 | |
| 12 | 33.603 | 5.017 | 0.151 | 5.71 | Fat | ATP8A2 | |
| 39.152 | 4.72 | 0.106 | - | - | PCDH9 | MAK1 | |
| 13 | 26.47 | 4.65 | 0.149 | 17.94 | Fat | FZD8 | MYO3A |
| 34.981 | 4.461 | 0.188 | 20.38 | Fat | SVIL | - | |
| 14 | 28.625 | 4.423 | 0.118 | - | - | ASPH | NKAIN3 |
| 33.999 | 4.265 | 0.094 | - | - | PRDM14 | PREX2 | |
| 34.764 | 4.056 | 0.080 | 5.57 | Fat | LACTB2 | - | |
| 16 | 57.715 | 8.156 | 0.159 | 13.39 | Protein | RABGAP1L | RABGAP1L |
| 60.366 | 9.179 | 0.166 | 13.40 | Protein | CACNA1E | - | |
| 20 | 29.899 | 4.899 | 0.231 | 7.69 | Fat | PARP8 | MRPS30 |
| 30.216 | 5.093 | 0.234 | 7.24 | Protein | CCDC115 | FGF10, GHR | |
| 38.675 | 4.291 | 0.240 | - | - | SPEF2 | PLRL | |
| 49.811 | 4.404 | 0.171 | 5.17 | Milk | ZAR1L | CDH 6,9,10 | |
| 21 | 67.458 | 4.201 | 0.076 | 5.03 | Fat | RTL1 | - |
| 67.675 | 4.041 | 0.076 | 13.54 | Fat | Multiple MIRs | Multiple MIRs | |
| 22 | 15.89 | 4.073 | 0.150 | 4.29 | Protein | MIR2368 | VIPR1 |
| 17.578 | 4.667 | 0.143 | 4.76 | Protein | SETD5 | OXTR |
1
Adjusted P=0.01 is equivalent to - log10p = 4.6.
2
These columns represent associations between haplotypes and traits at loci with significant ΔF L. Adjusted P = 0.05 (- log10p ~ 6) and P = 0.01 (- log10p ~ 9) are highlighted in bold. Only - log10p > 4 is shown.
3
Annotated gene located nearest to the candidate loci
4
Positional and functional candidate genes within the candidate region that are suggested by annotation tool (DAVID, http:// http://david.abcc.ncifcrf.gov/). Gene participating in metabolism, signaling, or cell cycle is shown.