| Literature DB >> 27760235 |
.
Abstract
[This corrects the article DOI: 10.1371/journal.pone.0160335.].Entities:
Year: 2016 PMID: 27760235 PMCID: PMC5070847 DOI: 10.1371/journal.pone.0165328
Source DB: PubMed Journal: PLoS One ISSN: 1932-6203 Impact factor: 3.240
Top 20 independent loci from maternal GWAS of gestational age in labor-initiated deliveries.
| Chr | BP | SNP | P | E/R | Mod | nEE | nER | nRR | mEE | mER | mRR | Genes |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 164389165 | rs593254 | 3.32e-6 | A/G | ADD | 76 | 480 | 851 | 260 | 264 | 268 | ||
| 134837980 | rs13410504 | 5.64e-6 | G/A | REC | 7 | 237 | 1163 | 221 | 265 | 267 | ||
| 226209989 | rs17515010 | 1.00e-5 | G/A | REC | 4 | 141 | 1261 | 205 | 264 | 266 | ||
| 81391541 | rs17105699 | 1.03e-5 | G/A | DOM | 6 | 165 | 1232 | 273 | 259 | 267 | ||
| 7618077 | rs6086132 | 1.06e-5 | A/G | DOM | 162 | 649 | 596 | 269 | 268 | 263 | ||
| 10501076 | rs2589658 | 1.15e-5 | C/A | REC | 330 | 684 | 393 | 262 | 267 | 267 | ||
| 103537442 | rs1609798 | 1.48e-5 | A/G | REC | 128 | 601 | 677 | 259 | 266 | 268 | ||
| 130417033 | rs10117075 | 1.55e-5 | A/G | REC | 12 | 190 | 1205 | 237 | 268 | 266 | ||
| 91352234 | rs6575165 | 1.56e-5 | A/G | ADD | 87 | 478 | 842 | 260 | 264 | 268 | ||
| 88336279 | rs2588278 | 1.58e-5 | A/G | ADD | 260 | 680 | 467 | 270 | 266 | 264 | ||
| 36879232 | rs3007217 | 1.81e-5 | G/A | ADD | 150 | 593 | 664 | 270 | 268 | 264 | ||
| 18067234 | rs151699 | 1.86e-5 | C/A | REC | 1 | 133 | 1272 | 161 | 266 | 266 | ||
| 3344618 | rs220381 | 2.12e-5 | G/A | DOM | 159 | 559 | 689 | 270 | 268 | 264 | ||
| 87762136 | rs11201867 | 2.33e-5 | A/G | ADD | 22 | 304 | 1081 | 275 | 270 | 265 | ||
| 22345093 | rs3117048 | 2.49e-5 | A/G | REC | 146 | 633 | 628 | 273 | 266 | 265 | ||
| 112524778 | rs10015214 | 2.60e-5 | A/G | DOM | 312 | 675 | 420 | 266 | 268 | 263 | ||
| 41164005 | rs6915083 | 2.64e-5 | G/A | REC | 197 | 648 | 561 | 261 | 268 | 266 | ||
| 85941774 | rs305080 | 2.67e-5 | A/G | REC | 143 | 586 | 678 | 273 | 266 | 265 | ||
| 88453303 | rs3008465 | 2.67e-5 | C/A | ADD | 71 | 532 | 802 | 272 | 268 | 264 | ||
| 123749752 | rs1343962 | 2.80e-5 | A/G | ADD | 303 | 713 | 390 | 263 | 266 | 269 |
Table 1 was pruned to show only independent loci. BP—physical position on the chromosome in hg19 coordinates, P—the most extreme empirical p-value from three genetic models, E/R—the effect allele and the reference allele, Mod—the most significant genetic model for that SNP, nXX—number of individuals in each genotypic group, mXX—mean gestational age in each genotypic group. Interpretation of mean gestational age values should take into account the bimodal phenotype distribution of genotyped individuals (S1 Fig). Genes were assigned to SNPs based on a 100 kb offset rule. Asterisk (*) indicates a gene family with multiple genes in that locus. No multiple-test correction is applied. Bolded genes are described in the literature-informed analyses. Genes with unknown function (LINC, LOC etc.) are not listed.
Loci of biological relevance from maternal GWAS of gestational age in labor-initiated deliveries.
| Rank | SNP | Chr | BP | P | E/R | Mod | nEE | nER | nRR | mEE | mER | mRR | Genes |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs17515010 | 1 | 226209989 | 1.00e-5 | G/A | REC | 4 | 141 | 1261 | 205 | 264 | 266 | ||
| rs1609798 | 4 | 103537442 | 1.48e-5 | A/G | REC | 128 | 601 | 677 | 259 | 266 | 268 | ||
| rs10117075 | 9 | 130417033 | 1.55e-5 | A/G | REC | 12 | 190 | 1205 | 237 | 268 | 266 | ||
| rs2287116 | 9 | 130420813 | 1.55e-5 | A/C | REC | 12 | 210 | 1185 | 237 | 267 | 266 | ||
| rs220381 | 16 | 3344618 | 2.12e-5 | G/A | DOM | 159 | 559 | 689 | 270 | 268 | 264 | ||
| rs3117048 | 1 | 22345093 | 2.49e-5 | A/G | REC | 146 | 633 | 628 | 273 | 266 | 265 | ||
| rs6915083 | 6 | 41164005 | 2.64e-5 | G/A | REC | 197 | 648 | 561 | 261 | 268 | 266 | ||
| rs305080 | 16 | 85941774 | 2.67e-5 | A/G | REC | 143 | 586 | 678 | 273 | 266 | 265 | ||
| rs4312673 | 3 | 48401307 | 3.67e-5 | A/G | DOM | 1 | 72 | 1332 | 282 | 256 | 267 | ||
| rs634335 | 1 | 36335862 | 5.63e-5 | C/A | DOM | 23 | 310 | 1074 | 266 | 262 | 267 | ||
| rs6718188 | 2 | 174761611 | 5.73e-5 | A/C | ADD | 157 | 611 | 638 | 269 | 268 | 264 | ||
| rs12336969 | 9 | 107679500 | 6.10e-5 | A/C | REC | 7 | 201 | 1199 | 229 | 267 | 266 | ||
| rs2177539 | 7 | 16652523 | 7.24e-5 | G/A | REC | 109 | 566 | 728 | 259 | 267 | 267 | ||
| rs3913369 | 3 | 55481075 | 8.22e-5 | A/C | ADD | 69 | 498 | 840 | 262 | 264 | 268 | ||
| rs12138039 | 1 | 156918137 | 8.29e-5 | A/G | DOM | 6 | 185 | 1214 | 259 | 261 | 267 | ||
| rs4075688 | 3 | 195848264 | 8.30e-5 | G/A | REC | 177 | 668 | 559 | 261 | 266 | 268 | ||
| rs4789863 | 17 | 76897347 | 8.52e-5 | A/G | DOM | 1 | 122 | 1281 | 251 | 259 | 267 | ||
| rs11866271 | 16 | 24881152 | 8.74e-5 | C/A | DOM | 107 | 582 | 713 | 266 | 264 | 268 | ||
| rs3021274 | 22 | 40395084 | 9.22e-5 | A/G | DOM | 230 | 653 | 524 | 269 | 267 | 264 | ||
| rs12202611 | 6 | 154237443 | 1.08e-4 | G/A | REC | 7 | 295 | 1105 | 230 | 266 | 266 | ||
| rs395643 | 14 | 56541638 | 1.12e-4 | G/A | REC | 14 | 310 | 1083 | 242 | 266 | 266 | ||
| rs2301137 | 12 | 7018949 | 1.22e-4 | A/G | DOM | 86 | 536 | 784 | 267 | 263 | 268 | ||
| rs12435366 | 14 | 35838389 | 1.41e-4 | A/G | REC | 97 | 550 | 745 | 259 | 267 | 266 | ||
| rs7045953 | 9 | 120485795 | 1.56e-4 | G/A | ADD | 37 | 379 | 991 | 272 | 269 | 265 | ||
| rs3746512 | 20 | 44592636 | 2.18e-4 | A/G | REC | 34 | 394 | 979 | 253 | 266 | 267 | ||
| rs4849122 | 2 | 113560921 | 2.34e-4 | G/A | REC | 7 | 158 | 1242 | 233 | 266 | 266 | ||
| rs1457776 | 8 | 133360660 | 2.39e-4 | A/G | REC | 52 | 433 | 922 | 256 | 266 | 267 | ||
| rs942364 | 13 | 28896097 | 2.44e-4 | A/G | DOM | 20 | 307 | 1080 | 270 | 262 | 267 |
The SNPs were selected from the top 300 GWAS results, based on their proximity and/or functional relationship with genes biologically relevant to gestational age. Rank—the rank of that SNP among all GWAS results, based on the most significant empirical p-value (P) from three genetic models, BP—physical position on the chromosome (Chr) in hg19 coordinates, E/R—the effect allele and the reference allele, Mod—the most significant genetic model for that SNP, nXX—number of individuals in each genotypic group, mXX—mean of gestational age in each genotypic group. Interpretation of mean gestational age values should take into account the bimodal phenotype distribution of genotyped individuals (S1 Fig). No multiple-test correction is applied.