Chronic Periodontitis Genome-wide Association Study in the Hispanic Community Health Study / Study of Latinos

Journal of Dental Research

Volumn 96, Issue 1, 2017, Pages 64-72

  Sanders, A E ^a   Sofer, T ^b   Wong, Q ^b   Kerr, K F ^b   Agler, C ^a   Shaffer, J R ^c   Beck, J D ^a   Offenbacher, S ^a   Salazar, C R ^d   North, K E ^e   Marazita, M L ^c,f,g   Laurie, C C ^b   Singer, R H ^h   Cai, J ^e   Finlayson, T L ⁱ   Divaris, K ^a,e  

^a UNIVERSITY OF NORTH CAROLINA   (United States)

^b UNIVERSITY OF WASHINGTON   (United States)

^c UNIVERSITY OF PITTSBURGH GRADUATE SCHOOL OF PUBLIC HEALTH   (United States)

^d ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

^e IL   (United States)

^f UNIVERSITY OF PITTSBURGH   (United States)

^g UNIVERSITY OF PITTSBURGH SCHOOL OF MEDICINE   (United States)

^h UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

ⁱ SAN DIEGO STATE UNIVERSITY   (United States)

Author keywords

epidemiology; genetics; genomics; observational study; periodontal attachment loss; survey and questionnaires

Indexed keywords

ADOLESCENT; ADULT; AGED; CHRONIC PERIODONTITIS; DNA MICROARRAY; ETHNOLOGY; FEMALE; GENE LOCUS; GENETIC PREDISPOSITION; GENETICS; GENOME-WIDE ASSOCIATION STUDY; HISPANIC; HUMAN; MALE; MIDDLE AGED; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICS AND NUMERICAL DATA; YOUNG ADULT;

ADOLESCENT; ADULT; AGED; CHRONIC PERIODONTITIS; FEMALE; GENETIC LOCI; GENETIC PREDISPOSITION TO DISEASE; GENOME-WIDE ASSOCIATION STUDY; HISPANIC AMERICANS; HUMANS; MALE; MIDDLE AGED; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMORPHISM, SINGLE NUCLEOTIDE; YOUNG ADULT;

EID: 85007247102     PISSN: 00220345     EISSN: 15440591     Source Type: Journal    
DOI: 10.1177/0022034516664509     Document Type: Article

References (37)

1. 1000 Genomes Project Consortium. 2012. An integrated map of genetic variation from 1,092 human genomes. Nature. 491 (7422): 56-65.
2. Albandar JM, Rams TE., 2002. Global epidemiology of periodontal diseases: an overview. Periodontol 2000. 29: 7-10.
3. Boyle AP, Hong EL, Hariharan M, Cheng Y, Schaub MA, Kasowski M, Karczewski KJ, Park J, Hitz BC, Weng S, et al. 2012. Annotation of functional variation in personal genomes using RegulomeDB. Genome Res. 22 (9): 1790-1797.
4. Carlos JP, Brunelle JA, Wolfe MD,. 1987. Attachment loss vs. pocket depth as indicators of periodontal disease: a methodologic note. J Periodontal Res. 22 (6): 524-525.
5. Conomos MP, Laurie CA, Stilp AM, Gogarten SM, McHugh CP, Nelson SC, Sofer T, Fernández-Rhodes L, Justice AE, Graff M, et al. 2016. Genetic diversity and association studies in US Hispanic/Latino populations: applications in the Hispanic Community Health Study/Study of Latinos. Am J Hum Genet. 98 (1): 165-184.
6. Delaneau O, Marchini J, Zagury JF,. 2012. A linear complexity phasing method for thousands of genomes. Nat Methods. 9 (2): 179-181.
7. Divaris K, Monda KL, North KE, Olshan AF, Reynolds LM, Hsueh WC, Lange EM, Moss K, Barros SP, Weyant RJ, et al. 2013. Exploring the genetic basis of chronic periodontitis: a genome-wide association study. Hum Mol Genet. 22 (11): 2312-2324.
8. Eke PI, Dye BA, Wei L, Slade GD, Thornton-Evans GO, Borgnakke WS, Taylor GW, Page RC, Beck JD, Genco RJ., 2015. Update on prevalence of periodontitis in adults in the United States: NHANES 2009 to 2012. J Periodontol. 86 (5): 611-622.
9. Eke PI, Page RC, Wei L, Thornton-Evans G, Genco RJ,. 2012. Update of the case definitions for population-based surveillance of periodontitis. J Periodontol. 83 (12): 1449-1454.
10. Freitag-Wolf S, Dommisch H, Graetz C, Jockel-Schneider Y, Harks I, Staufenbiel I, Meyle J, Eickholz P, Noack B, Bruckmann C, et al. 2014. Genome-wide exploration identifies sex-specific genetic effects of alleles upstream NPY to increase the risk of severe periodontitis in men. J Clin Periodontol. 41 (12): 1115-1121.
11. GTEx Consortium. 2015. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans. Science. 348 (6235): 648-660.
12. Hajishengallis G,. 2015. Periodontitis: from microbial immune subversion to systemic inflammation. Nat Rev Immunol. 15 (1): 30-44.
13. Hong KW, Shin MS, Ahn YB, Lee HJ, Kim HD., 2015. Genomewide association study on chronic periodontitis in Korean population: results from the Yangpyeong health cohort. J Clin Periodontol [epub ahead of print 25 Jul 2015] in press.
14. Howie B, Fuchsberger C, Stephens M, Marchini J, Abecasis GR,. 2012. Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. Nat Genet. 44 (8): 955-959.
15. Howie BN, Donnelly P, Marchini J., 2009. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. PLoS Genet. 5 (6): e1000529.
16. International HapMap 3 Consortium. 2010. Integrating common and rare genetic variation in diverse human populations. Nature. 467 (7311): 52-58.
17. Karimbux NY, Saraiya VM, Elangovan S, Allareddy V, Kinnunen T, Kornman KS, Duff GW,. 2012. Interleukin-1 gene polymorphisms and chronic periodontitis in adult whites: a systematic review and meta-analysis. J Periodontol. 83 (11): 1407-1419.
18. Laurie CC, Doheny KF, Mirel DB, Pugh EW, Bierut LJ, Bhangale T, Boehm F, Caporaso NE, Cornelis MC, Edenberg HJ, et al. 2010. Quality control and quality assurance in genotypic data for genome-wide association studies. Genet Epidemiol. 34 (6): 591-602.
19. Lavange LM, Kalsbeek WD, Sorlie PD, Avilés-Santa LM, Kaplan RC, Barnhart J, Liu K, Giachello A, Lee DJ, Ryan J, et al. 2010. Sample design and cohort selection in the Hispanic Community Health Study/Study of Latinos. Ann Epidemiol. 20 (8): 642-649.
20. Lohmueller KE, Pearce CL, Pike M, Lander ES, Hirschhorn JN,. 2003. Meta-analysis of genetic association studies supports a contribution of common variants to susceptibility to common disease. Nat Genet. 33 (2): 177-182.
21. Machiela MJ, Chanock SJ,. 2015. LDlink: a web-based application for exploring population-specific haplotype structure and linking correlated alleles of possible functional variants. Bioinformatics. 31 (21): 3555-3557.
22. Marth GT, Yu F, Indap AR, Garimella K, Gravel S, Leong WF, Tyler-Smith C, Bainbridge M, Blackwell T, Zheng-Bradley X, et al. 2011. The functional spectrum of low-frequency coding variation. Genome Biol. 12 (9): R84.
23. Michalowicz BS, Diehl SR, Gunsolley JC, Sparks BS, Brooks CN, Koertge TE, Califano JV, Burmeister JA, Schenkein HA,. 2000. Evidence of a substantial genetic basis for risk of adult periodontitis. J Periodontol. 71 (11): 1699-1707.
24. Nikolopoulos GK, Dimou NL, Hamodrakas SJ, Bagos PG,. 2008. Cytokine gene polymorphisms in periodontal disease: a meta-analysis of 53 studies including 4178 cases and 4590 controls. J Clin Periodontol. 35 (9): 754-767.
25. Offenbacher S, Divaris K, Barros SP, Moss KL, Marchesan JT, Morelli T, Zhang S, Kim S, Sun L, Beck JD, et al. 2016. Genome-wide association study of biologically-informed periodontal complex traits offers novel insights into the genetic basis of periodontal disease. Hum Mol Genet. 25 (10): 2113-2129.
26. Panoutsopoulou K, Tachmazidou I, Zeggini E., 2013. In search of low-frequency and rare variants affecting complex traits. Hum Mol Genet. 22 (R1): R16-R21.
27. Rhodin K, Divaris K, North KE, Barros SP, Moss K, Beck JD, Offenbacher S., 2014. Chronic periodontitis genome-wide association studies: gene-centric and gene set enrichment analyses. J Dent Res. 93 (9): 882-890.
28. Salem MR, Toyama T, Wong AY, Jacobs HK, Bennett EJ,. 1978. Haemodynamic responses to induced arterial hypotension in children. Br J Anaesth. 50 (5): 489-494.
29. Shaffer JR, Polk DE, Wang X, Feingold E, Weeks DE, Lee MK, Cuenco KT, Weyant RJ, Crout RJ, McNeil DW, et al. 2014. Genome-wide association study of periodontal health measured by probing depth in adults ages 18-49 years. G3 (Bethesda). 4 (2): 307-314.
30. Shang D, Dong L, Zeng L, Yang R, Xu J, Wu Y, Xu R, Tao H, Zhang N, et al. 2015. Two-stage comprehensive evaluation of genetic susceptibility of common variants in FBXO38, AP3B2 and WHAMM to severe chronic periodontitis. Sci Rep. 5: 17882.
31. Shimizu S, Momozawa Y, Takahashi A, Nagasawa T, Ashikawa K, Terada Y, Izumi Y, Kobayashi H, Tsuji M, Kubo M, et al. 2015. A genome-wide association study of periodontitis in a Japanese population. J Dent Res. 94 (4): 555-561.
32. Shriner D, Adeyemo A, Gerry NP, Herbert A, Chen G, Doumatey A, Huang H, Zhou J, Christman MF, Rotimi CN,. 2009. Transferability and fine-mapping of genome-wide associated loci for adult height across human populations. PLoS One. 4 (12): e8398.
33. Shungin D, Cornelis MC, Divaris K, Holtfreter B, Shaffer JR, Yu YH, Barros SP, Beck JD, Biffar R, Boerwinkle EA, et al. 2015. Using genetics to test the causal relationship of total adiposity and periodontitis: Mendelian randomization analyses in the Gene-Lifestyle Interactions and Dental Endpoints (GLIDE) Consortium. Int J Epidemiol. 44 (2): 638-650.
34. Sorlie PD, Avilés-Santa LM, Wassertheil-Smoller S, Kaplan RC, Daviglus ML, Giachello AL, Schneiderman N, Raij L, Talavera G, Allison M, et al. 2010. Design and implementation of the Hispanic Community Health Study/Study of Latinos. Ann Epidemiol. 20 (8): 629-641.
35. Teumer A, Holtfreter B, Völker U, Petersmann A, Nauck M, Biffar R, Völzke H, Kroemer HK, Meisel P, Homuth G, et al. 2013. Genome-wide association study of chronic periodontitis in a general German population. J Clin Periodontol. 40 (11): 977-985.
36. Wu X, Offenbacher S, López NJ, Chen D, Wang HY, Rogus J, Zhou J, Beck J, Jiang S, Bao X, et al. 2015. Association of interleukin-1 gene variations with moderate to severe chronic periodontitis in multiple ethnicities. J Periodontal Res. 50 (1): 52-61.
37. Zhang W, Gamazon ER, Zhang X, Konkashbaev A, Liu C, Szilágyi KL, Dolan ME, Cox NJ,. 2015. SCAN database: facilitating integrative analyses of cytosine modification and expression QTL. Database (Oxford). 2015. pii:bav025.