| Literature DB >> 36212159 |
Weijie Guo1,2, Mengyuan Dai1,2, Zhuoling Zhong1,2, San Zhu2, Guidong Gong1, Mei Chen1, Junling Guo1,3, Yaoyao Zhang1,2.
Abstract
Uterine fibroids (UFs), the most common benign gynecological tumor, can bring severe negative impacts on a woman's life quality. Vitamin D, is thought to play an important role in regulating cell proliferation and differentiation. In recent years, several studies suggested that higher level of vitamin D has a negative effect on the occurrence of UFs, but the results of studies on the relationship between them are conflicting and further evidence needs to be studied. Here in, we used a two-sample Mendelian Randomization (2SMR) study to explore the causal relationship between genetically predicted vitamin D levels and the risk of UFs. The exposure data comes from a genome-wide association study (GWAS) summary dataset consisting of 441,291 individuals, which includes datasets from United Kingdom Biobank, FinnGen Biobank and the corresponding consortia. Single-nucleotide polymorphisms (SNPs) associated with vitamin D at a significant level of p < 5 × 10-8 and low linkage disequilibrium (LD) level (r2 < 0.01) were selected. The outcome data comes from a GWAS dataset of IEU analysis of United Kingdom Biobank phenotypes consisting of 7,122 UFs cases and 455,811 controls. Our inverse-variance weight (IVW) analysis results support the causal association of genetically predicted vitamin D with the risk of UFs (OR = 0.995,95% CI = 0.990-0.999, p = 0.024). In addition, heterogeneity and pleiotropy were not observed in statistical models. In summary, our results indicate that elevated serum vitamin D levels are in strong relationship with reduction of the risk of UFs, which indicates that the clinical treatment of UFs may have a new and excellent option.Entities:
Keywords: GWAS; SNP; mendelian randomization; uterine fibroids; vitamin D
Year: 2022 PMID: 36212159 PMCID: PMC9532761 DOI: 10.3389/fgene.2022.1013192
Source DB: PubMed Journal: Front Genet ISSN: 1664-8021 Impact factor: 4.772
FIGURE 1Overview of the design and three key assumptions of the Mendelian randomization study. IVs, instrument variables; SNPs, single-nucleotide polymorphisms.
Vitamin D SNPs used to construct the instrument variable.
| Chr | Position | SNP | Effect Allele | Other Allele | EAF | Beta | SE | Gene |
| F Statistics |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 41750648 | rs12035012 | A | C | 0.222 | 0.014 | 0.002 | HIVEP3 | 1.00E-200 | 882.53 |
| 1 | 62835936 | rs12145455 | C | T | 0.095 | 0.019 | 0.003 | ATG4C | 1.00E-200 | 296.861 |
| 1 | 24609753 | rs12403824 | G | C | 0.308 | 0.011 | 0.002 | NULL | 1.00E-200 | 1023.579 |
| 1 | 2315680 | rs2843128 | G | A | 0.516 | 0.010 | 0.002 | MORN1 | 1.00E-200 | 1319.309 |
| 1 | 151502427 | rs34834099 | T | C | 0.066 | 0.026 | 0.004 | CGN | 1.00E-200 | 204.06 |
| 1 | 34684617 | rs41266415 | T | A | 0.215 | 0.013 | 0.002 | C1orf94 | 1.00E-200 | 790.3233 |
| 1 | 230293530 | rs4631704 | T | C | 0.608 | 0.011 | 0.002 | GALNT2 | 1.00E-200 | 1295.836 |
| 1 | 150522242 | rs4971020 | C | T | 0.647 | 0.011 | 0.002 | ADAMTSL4 | 1.00E-200 | 1162.396 |
| 1 | 46027355 | rs512083 | C | T | 0.461 | 0.010 | 0.002 | MAST2 | 1.00E-200 | 1309.729 |
| 1 | 62898984 | rs60500353 | T | C | 0.156 | 0.015 | 0.003 | LOC105378768 | 1.00E-200 | 541.4045 |
| 1 | 179423953 | rs61826000 | C | G | 0.338 | 0.011 | 0.002 | AXDND1 | 1.00E-200 | 1136.723 |
| 1 | 109807283 | rs6657811 | T | A | 0.131 | 0.015 | 0.003 | CELSR2 | 1.00E-200 | 425.2116 |
| 1 | 151037707 | rs77152346 | C | T | 0.179 | 0.013 | 0.003 | BNIPL | 1.00E-200 | 583.828 |
| 2 | 21271707 | rs34722314 | A | T | 0.136 | 0.017 | 0.003 | NULL | 1.00E-200 | 480.9317 |
| 2 | 27598097 | rs4665972 | C | T | 0.606 | 0.017 | 0.002 | ZNF512 | 1.00E-200 | 2042.473 |
| 3 | 52321788 | rs13065677 | T | C | 0.051 | 0.023 | 0.004 | DNAH1 | 1.00E-200 | 112.1106 |
| 3 | 153561145 | rs1542926 | C | T | 0.117 | 0.016 | 0.003 | NULL | 1.00E-200 | 359.3695 |
| 3 | 173504091 | rs16830473 | C | T | 0.091 | 0.018 | 0.003 | NLGN1 | 1.00E-200 | 251.7777 |
| 3 | 85002871 | rs1694929 | T | C | 0.430 | 0.010 | 0.002 | CADM2 | 1.00E-200 | 1256.449 |
| 3 | 124687460 | rs1909585 | T | C | 0.346 | 0.011 | 0.002 | KALRN | 1.00E-200 | 1109.83 |
| 3 | 47352998 | rs76183418 | C | T | 0.179 | 0.013 | 0.003 | KLHL18 | 1.00E-200 | 571.6435 |
| 3 | 125118082 | rs7640441 | A | C | 0.241 | 0.013 | 0.002 | SLC12A8 | 1.00E-200 | 922.0544 |
| 3 | 141654685 | rs9861009 | C | T | 0.722 | 0.012 | 0.002 | NULL | 1.00E-200 | 1047.055 |
| 4 | 72501807 | rs112001313 | T | C | 0.060 | 0.040 | 0.004 | ADAMTS3 | 1.00E-200 | 260.385 |
| 4 | 71694520 | rs11724493 | C | T | 0.056 | 0.022 | 0.004 | GRSF1 | 1.00E-200 | 128.7095 |
| 4 | 69475763 | rs12500806 | T | C | 0.613 | 0.012 | 0.002 | NULL | 1.00E-200 | 1064.943 |
| 4 | 100510550 | rs145662623 | A | G | 0.061 | 0.020 | 0.004 | EMCN | 1.00E-200 | 144.4778 |
| 4 | 72179821 | rs146216314 | A | G | 0.098 | 0.020 | 0.003 | SLC4A4 | 1.00E-200 | 316.7743 |
| 4 | 70054650 | rs28633736 | C | T | 0.149 | 0.016 | 0.003 | HTN1 | 1.00E-200 | 531.4226 |
| 4 | 74458987 | rs34169741 | T | C | 0.383 | 0.013 | 0.002 | RASSF6 | 1.00E-200 | 1609.023 |
| 4 | 15892159 | rs4364259 | A | G | 0.205 | 0.016 | 0.002 | NULL | 1.00E-200 | 879.1162 |
| 4 | 73681946 | rs4694548 | G | A | 0.275 | 0.015 | 0.002 | NULL | 1.00E-200 | 1261.403 |
| 4 | 71489270 | rs5020231 | C | T | 0.779 | 0.013 | 0.002 | SLC4A4 | 1.00E-200 | 777.8031 |
| 4 | 72745430 | rs62318873 | T | C | 0.052 | 0.050 | 0.005 | NULL | 1.00E-200 | 240.7028 |
| 4 | 72585683 | rs71601778 | C | T | 0.074 | 0.082 | 0.004 | NULL | 1.00E-200 | 747.2279 |
| 4 | 73266887 | rs72607843 | T | C | 0.329 | 0.012 | 0.002 | ADAMTS3 | 1.00E-200 | 1214.048 |
| 4 | 87982876 | rs7660883 | G | C | 0.378 | 0.012 | 0.002 | SPP1 | 1.00E-200 | 1355.003 |
| 4 | 72396727 | rs7683903 | A | G | 0.154 | 0.014 | 0.003 | ADAMTS3 | 1.00E-200 | 506.9613 |
| 4 | 72599352 | rs843004 | G | A | 0.076 | 0.039 | 0.004 | NULL | 1.00E-200 | 404.4502 |
| 5 | 87940026 | rs10070734 | C | T | 0.704 | 0.012 | 0.002 | LINC00461 | 1.00E-200 | 1097.487 |
| 5 | 118613707 | rs13187496 | G | T | 0.345 | 0.011 | 0.002 | LOC102467225 | 1.00E-200 | 1188.506 |
| 5 | 148007013 | rs2068190 | A | G | 0.437 | 0.010 | 0.002 | HTR4 | 1.00E-200 | 1313.18 |
| 6 | 80014585 | rs13197862 | A | G | 0.130 | 0.015 | 0.003 | TTK | 1.00E-200 | 397.857 |
| 6 | 22755139 | rs4466239 | G | A | 0.624 | 0.011 | 0.002 | NULL | 1.00E-200 | 1261.93 |
| 6 | 121854778 | rs942380 | G | A | 0.595 | 0.011 | 0.002 | NULL | 1.00E-200 | 1407.937 |
| 7 | 106799997 | rs257376 | A | G | 0.542 | 0.010 | 0.002 | PRKAR2B | 1.00E-200 | 1298.439 |
| 7 | 100798274 | rs6970645 | G | C | 0.752 | 0.011 | 0.002 | AP1S1 | 1.00E-200 | 835.7355 |
| 8 | 106470630 | rs10101205 | C | T | 0.840 | 0.014 | 0.003 | OXR1 | 1.00E-200 | 515.8738 |
| 8 | 143587121 | rs12546526 | C | T | 0.859 | 0.015 | 0.003 | EEF1D | 1.00E-200 | 437.9549 |
| 8 | 30835535 | rs2042073 | G | A | 0.604 | 0.010 | 0.002 | TEX15 | 1.00E-200 | 1220.945 |
| 8 | 9168897 | rs62493791 | G | T | 0.242 | 0.012 | 0.002 | NULL | 1.00E-200 | 841.1148 |
| 8 | 59370159 | rs6985620 | C | T | 0.665 | 0.011 | 0.002 | NULL | 1.00E-200 | 1119.15 |
| 9 | 112239077 | rs12554549 | T | C | 0.065 | 0.021 | 0.004 | PTBP3 | 1.00E-200 | 159.146 |
| 9 | 107645674 | rs62568181 | C | T | 0.104 | 0.016 | 0.003 | ABCA1 | 1.00E-200 | 295.9726 |
| 9 | 125605840 | rs7027254 | C | T | 0.147 | 0.014 | 0.003 | MAPKAP1 | 1.00E-200 | 470.4589 |
| 9 | 35766116 | rs7862695 | T | C | 0.411 | 0.010 | 0.002 | NULL | 1.00E-200 | 1245.768 |
| 10 | 5530385 | rs11253202 | C | T | 0.211 | 0.012 | 0.002 | NULL | 1.00E-200 | 708.6447 |
| 10 | 118394551 | rs2286779 | C | G | 0.519 | 0.010 | 0.002 | PNLIPRP2 | 1.00E-200 | 1316.9 |
| 10 | 81965655 | rs7900214 | A | G | 0.279 | 0.012 | 0.002 | NRG3 | 1.00E-200 | 989.5996 |
| 11 | 15182597 | rs1109326 | T | G | 0.542 | 0.014 | 0.002 | INSC | 1.00E-200 | 1859.66 |
| 11 | 13799056 | rs111308232 | A | G | 0.054 | 0.026 | 0.004 | NULL | 1.00E-200 | 135.6992 |
| 11 | 70988410 | rs1118116 | G | A | 0.205 | 0.018 | 0.002 | SHANK2 | 1.00E-200 | 1018.199 |
| 11 | 65581135 | rs11227307 | A | G | 0.647 | 0.012 | 0.002 | EHBP1L1 | 1.00E-200 | 1280.435 |
| 11 | 2176852 | rs11602347 | G | C | 0.407 | 0.010 | 0.002 | INS-IGF2 | 1.00E-200 | 1227.656 |
| 11 | 117008946 | rs504068 | C | T | 0.820 | 0.014 | 0.003 | SIK3 | 1.00E-200 | 605.7437 |
| 11 | 75437630 | rs575976 | G | A | 0.184 | 0.013 | 0.003 | GDPD5 | 1.00E-200 | 612.6741 |
| 11 | 76469378 | rs60651758 | A | G | 0.101 | 0.017 | 0.003 | C11orf30 | 1.00E-200 | 305.5616 |
| 11 | 71849741 | rs652197 | T | C | 0.864 | 0.016 | 0.003 | FOLR3 | 1.00E-200 | 454.6313 |
| 12 | 38692203 | rs1813392 | C | T | 0.537 | 0.010 | 0.002 | CPNE8 | 1.00E-200 | 1368.937 |
| 12 | 111522026 | rs7314285 | G | T | 0.068 | 0.022 | 0.004 | ATXN2 | 1.00E-200 | 181.7633 |
| 12 | 96089917 | rs78117488 | T | C | 0.062 | 0.021 | 0.004 | NTN4 | 1.00E-200 | 145.9469 |
| 12 | 33692179 | rs7958788 | C | T | 0.377 | 0.010 | 0.002 | NULL | 1.00E-200 | 1187.48 |
| 12 | 57979949 | rs8873 | A | G | 0.223 | 0.012 | 0.002 | KIF5A | 1.00E-200 | 756.2545 |
| 13 | 60676803 | rs7981402 | A | G | 0.340 | 0.010 | 0.002 | LINC00378 | 1.00E-200 | 1112.565 |
| 14 | 39356756 | rs17108517 | A | G | 0.056 | 0.021 | 0.004 | LINC00639 | 1.00E-200 | 127.1741 |
| 14 | 103987078 | rs2071408 | A | G | 0.366 | 0.012 | 0.002 | TDRD9 | 1.00E-200 | 1306.471 |
| 15 | 77316131 | rs12913937 | A | G | 0.354 | 0.010 | 0.002 | PEAK1 | 1.00E-200 | 1137.209 |
| 15 | 58671559 | rs1601933 | T | C | 0.468 | 0.014 | 0.002 | ADAM10 | 1.00E-200 | 1793.52 |
| 15 | 90734426 | rs34560261 | T | C | 0.170 | 0.014 | 0.003 | BLM | 1.00E-200 | 542.6187 |
| 15 | 58571401 | rs72739147 | T | A | 0.130 | 0.016 | 0.003 | NULL | 1.00E-200 | 428.8216 |
| 16 | 11901557 | rs11075016 | G | A | 0.285 | 0.012 | 0.002 | GSPT1 | 1.00E-200 | 1053.374 |
| 16 | 72698702 | rs1429435 | G | C | 0.942 | 0.022 | 0.004 | LINC01572 | 1.00E-200 | 127.5589 |
| 16 | 4500544 | rs2304634 | T | C | 0.686 | 0.011 | 0.002 | HMOX2| | 1.00E-200 | 1032.636 |
| 16 | 30878366 | rs2878304 | T | C | 0.726 | 0.011 | 0.002 | BCL7C | 1.00E-200 | 955.8311 |
| 16 | 84734147 | rs56158152 | T | G | 0.355 | 0.011 | 0.002 | USP10 | 1.00E-200 | 1112.916 |
| 16 | 89882826 | rs72631431 | T | C | 0.313 | 0.011 | 0.002 | TCF25 | 1.00E-200 | 1021.177 |
| 16 | 70687185 | rs77194050 | G | A | 0.052 | 0.023 | 0.004 | IL34 | 1.00E-200 | 115.9125 |
| 17 | 66394054 | rs9889884 | C | T | 0.756 | 0.013 | 0.002 | PRKCA | 1.00E-200 | 928.8681 |
| 19 | 11185919 | rs10423733 | C | T | 0.181 | 0.015 | 0.003 | KANK2 | 1.00E-200 | 684.9655 |
| 19 | 54658102 | rs11606 | G | C | 0.426 | 0.011 | 0.002 | CNOT3 | 1.00E-200 | 1333.397 |
| 19 | 53700807 | rs11673357 | C | T | 0.761 | 0.014 | 0.003 | NULL | 1.00E-200 | 797.2597 |
| 19 | 51518297 | rs2075695 | G | A | 0.560 | 0.011 | 0.002 | KLK10 | 1.00E-200 | 1401.33 |
| 19 | 58348570 | rs35805032 | T | C | 0.155 | 0.014 | 0.003 | A1BG | 1.00E-200 | 501.5067 |
| 19 | 19325963 | rs3761077 | T | G | 0.111 | 0.017 | 0.003 | MAU2 | 1.00E-200 | 357.4002 |
| 19 | 48323130 | rs62131912 | T | G | 0.101 | 0.020 | 0.003 | NULL | 1.00E-200 | 351.4042 |
| 20 | 52728499 | rs2616280 | A | G | 0.076 | 0.019 | 0.004 | NULL | 1.00E-200 | 188.9118 |
| 20 | 52687181 | rs6127083 | C | G | 0.152 | 0.015 | 0.003 | BCAS1 | 1.00E-200 | 531.8351 |
| 22 | 41081164 | rs133075 | T | G | 0.553 | 0.010 | 0.002 | NULL | 1.00E-200 | 1306.933 |
| 22 | 31533796 | rs2072193 | C | G | 0.061 | 0.027 | 0.004 | SFI1| | 1.00E-200 | 184.4545 |
Chr, chromosome; SNP, single-nucleotide polymorphism; EAF, effect allele frequency; SE, standard error.
Associations between genetically predicted vitamin D and risk of uterine fibroids.
| Methods | OR (95% CI) |
|
|---|---|---|
| Inverse-variance Weighted | 0.995 (0.999–0.990) | 0.024 |
| MR-Egger | 1.007 (0.996–1.019) | 0.216 |
| Simple mode | 1.010 (0.994–1.026) | 0.225 |
| Weighted median | 1.001 (0.993–1.008) | 0.814 |
| Weighted mode | 1.003 (0.993–1.013) | 0.541 |
OR, odds ratio; CI, confidence interval.
FIGURE 2Scatter plot of SNPs with vitamin D and uterine fibroids and results of different test models; SNP, single-nucleotide polymorphism.
FIGURE 3A leave one-out pleiotropy test was performed for each SNP to determine the robustness of the MR test; SNP, single-nucleotide polymorphism.
Heterogeneity testing of instrumental variables for vitamin D.
| Method | Q | df |
|
|---|---|---|---|
| Inverse-variance weights | 112.125 | 95 | 0.111 |
| MR-egger | 119.101 | 96 | 0.055 |
OR, odds ratio; CI, confidence interval.
Pleiotropy testing of instrumental variables for vitamin D.
| Method | Intercept | SE |
|
|---|---|---|---|
| MR-egger | 2.05e-4 | 8.45e-5 | 0.017 |
SE, standard error.
Pleiotropy testing of instrumental variables for vitamin D using MR-PRESSO.
| Exposure | MR Analysis | Casual Estimate | Sd | T-Stat |
| |
|---|---|---|---|---|---|---|
| Main MR | VD | Raw | −5.27e−3 | 2.39e−3 | −2.20 | 0.03 |
| VD | Outlier-corrected | NA | NA | NA | NA | |
| RSSobs of Global Test in MR-PRESSO results: | 123.669 | |||||
|
| 0.063 | |||||
Sd, standard deviation; T-stat, T-statistics; VD, Vitamin D.