Methylome analysis and epigenetic changes associated with menarcheal age

PLoS ONE

Volumn 8, Issue 11, 2013, Pages

  Demetriou, Christiana A ^a,b   Chen, Jia ^c   Polidoro, Silvia ^d   Van Veldhoven, Karin ^b   Cuenin, Cyrille ^e   Campanella, Gianluca ^b   Brennan, Kevin ^b   Clavel Chapelon, Françoise ^f,g   Dossus, Laure ^f,g   Kvaskoff, Marina ^f,g   Drogan, Dagmar ^h   Boeing, Heiner ^h   Kaaks, Rudolf ⁱ   Risch, Angela ⁱ   Trichopoulos, Dimitrios ^j,k,l   Lagiou, Pagona ^j,k,m   Masala, Giovanna ⁿ   Sieri, Sabina ^o   Tumino, Rosario ^p   Panico, Salvatore ^q   Ramon Quiros J ^r   Perez, María José Sánchez ^s,t   Amiano, Pilar ^t,u   Castaño, José María Huerta ^t,v   Ardanaz, Eva ^t,w   Onland Moret, Charlotte ^x   Peeters, Petra ^x   Khaw, Kay Tee ^y   Wareham, Nick ^y   Key, Timothy J ^z   Travis, Ruth C ^z   Romieu, Isabelle ^e   Gallo, Valentina ^b,aa   Gunter, Marc ^b   Herceg, Zdenko ^d   Kyriacou, Kyriacos ^a   Riboli, Elio ^b   Flanagan, James M ^b   Vineis, Paolo ^b   more..

^a CYPRUS INSTITUTE OF NEUROLOGY AND GENETICS   (Cyprus)

^b IMPERIAL COLLEGE LONDON   (United Kingdom)

^c MOUNT SINAI SCHOOL OF MEDICINE   (United States)

^d Human Genetics Foundation   (Italy)

^e INTERNATIONAL AGENCY FOR RESEARCH ON CANCER   (France)

^f INSERM   (France)

^g UNIVERSITÉ PARIS SACLAY   (France)

^h GERMAN INSTITUTE OF HUMAN NUTRITION   (Germany)

ⁱ GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

^j HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

^k BIOMEDICAL RESEARCH FOUNDATION   (Greece)

^l HELLENIC HEALTH FOUNDATION   (Greece)

^m UNIVERSITY OF ATHENS MEDICAL SCHOOL   (Greece)

ⁿ CANCER RESEARCH AND PREVENTION INSTITUTE ISPO   (Italy)

^o NATIONAL CANCER INSTITUTE   (Italy)

^p Civile MP Arezzo Hospital   (Italy)

^q UNIVERSITY OF NAPLES FEDERICO II   (Italy)

^r Public Health and Planning Directorate   (Spain)

^s ANDALUSIAN SCHOOL OF PUBLIC HEALTH   (Spain)

^t CIBER EPIDEMIOLOGÍA Y SALUD PÚBLICA CIBERESP   (Spain)

^u BIODONOSTIA HEALTH RESEARCH INSTITUTE   (Spain)

^v DEPARTMENT OF EPIDEMIOLOGY   (Spain)

^w INSTITUTO DE SALUD PÚBLICA DE NAVARRA   (Spain)

^x UNIVERSITY MEDICAL CENTER UTRECHT   (Netherlands)

^y UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^z UNIVERSITY OF OXFORD   (United Kingdom)

^aa QUEEN MARY UNIVERSITY OF LONDON   (United Kingdom)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ADULT; AGED; CPG ISLANDS; DNA METHYLATION; EPIGENESIS, GENETIC; FEMALE; HUMANS; MENARCHE; MIDDLE AGED; PROSPECTIVE STUDIES;

EID: 84894263959     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0079391     Document Type: Article

References (43)

1. Jones PA, Baylin SB (2007) The epigenomics of cancer. Cell 128: 683-692. doi:10.1016/j.cell.2007.01.029. (Pubitemid 46273572)
2. Jovanovic J, Rønneberg JA, Tost J, Kristensen V (2010) The epigenetics of breast cancer. Mol Oncol 4: 242-254. doi:10.1016/j.molonc.2010. 04.002.
3. Esteller M, Corn PG, Baylin SB, Herman JG (2001) A gene hypermethylation profile of human cancer. Cancer Res 61: 3225-3229. (Pubitemid 32695003)
4. Esteller M, Herman JG (2002) Cancer as an epigenetic disease: DNA methylation and chromatin alterations in human tumours. J Pathol 196: 1-7. doi:10.1002/path.1024.
5. Portela A, Esteller M (2010) Epigenetic modifications and human disease. Nat Biotech 28: 1057-1068. doi:10.1038/nbt.1685.
6. Veeck J, Esteller M (2010) Breast cancer epigenetics: from DNA methylation to microRNAs. J Mammary Gland Biol Neoplasia 15: 5-17. doi:10.1007/s10911-010-9165-1.
7. Cho YH, Yazici H, Wu HC, Terry MB, Gonzalez K, et al. (2010) Aberrant promoter hypermethylation and genomic hypomethylation in tumor, adjacent normal tissues and blood from breast cancer patients. Anticancer Res 30: 2489-2496.
8. Choi JY, James SR, Link PA, McCann SE, Hong CC, et al. (2009) Association between global DNA hypomethylation in leukocytes and risk of breast cancer. Carcinogenesis 30: 1889-1897. doi:10.1093/carcin/bgp143.
9. Lim U, Flood A, Choi S, Albanes D, Cross AJ, et al. (2008) Genomic Methylation of Leukocyte DNA in Relation to Colorectal Adenoma Among Asymptomatic Women. Gastroenterology 134: 47-55. doi:10.1053/j.gastro.2007.10. 013. (Pubitemid 350309318)
10. Pufulete M, Al-Ghnaniem R, Leather AJM, Appleby P, Gout S, et al. (2003) Folate status, genomic DNA hypomethylation, and risk of colorectal adenoma and cancer: a case control study. Gastroenterology 124: 1240-1248. (Pubitemid 36531800)
11. Hou L (2010) Blood leukocyte DNA hypomethylation and gastric cancer risk in a high-risk Polish population. International Journal of Cancer Journal International Du Cancer 127: 1866-1874. doi:10.1002/ijc.25190.
12. Hsiung DT, Marsit CJ, Houseman EA, Eddy K, Furniss CS, et al. (2007) Global DNA methylation level in whole blood as a biomarker in head and neck squamous cell carcinoma. Cancer Epidemiol Biomarkers Prev 16: 108-114. doi:10.1158/1055-9965.EPI-06-0636. (Pubitemid 46174272)
13. Moore LE, Pfeiffer RM, Poscablo C, Real FX, Kogevinas M, et al. (2008) Genomic DNA hypomethylation as a biomarker for bladder cancer susceptibility in the Spanish Bladder Cancer Study: a case-control study. Lancet Oncol 9: 359-366. doi:10.1016/S1470-2045(08)70038-X.
14. Brennan K, Flanagan JM (2012) Is there a link between genome-wide hypomethylation in blood and cancer risk? Cancer Prev Res (Phila) 5: 1345-1357. doi:10.1158/1940-6207.CAPR-12-0316.
15. Xu X, Gammon MD, Hernandez-Vargas H, Herceg Z, Wetmur JG, et al. (2012) DNA methylation in peripheral blood measured by LUMA is associated with breast cancer in a population-based study. FASEB J 26: 2657-2666. doi:10.1096/fj.11- 197251.
16. Bird A (2002) DNA methylation patterns and epigenetic memory. Genes Dev 16: 6-21. doi:10.1101/gad.947102.
17. Barouki R, Gluckman PD, Grandjean P, Hanson M, Heindel JJ (2012) Developmental origins of non-communicable disease: implications for research and public health. Environ Health 11: 42. doi:10.1186/1476-069X-11-42.
18. Terry MB, Ferris JS, Pilsner R, Flom JD, Tehranifar P, et al. (2008) Genomic DNA Methylation among Women in a Multiethnic New York City Birth Cohort. Cancer Epidemiology Biomarkers & Prevention 17: 2306-2310. doi:10.1158/1055-9965.EPI-08-0312.
19. Terry MB, Delgado-Cruzata L, Vin-Raviv N, Wu HC, Santella RM (2011) DNA methylation in white blood cells: association with risk factors in epidemiologic studies. Epigenetics 6: 828-837.
20. Scoccianti C, Ricceri F, Ferrari P, Cuenin C, Sacerdote C, et al. (2011) Methylation patterns in sentinel genes in peripheral blood cells of heavy smokers: Influence of cruciferous vegetables in an intervention study. epigenetics 6: 1114-1119. doi:10.4161/epi.6.9.16515.
21. Herceg Z (2007) Epigenetics and cancer: towards an evaluation of the impact of environmental and dietary factors. Mutagenesis 22: 91-103. doi:10.1093/mutage/gel068.
22. Zhang FF, Morabia A, Carroll J, Gonzalez K, Fulda K, et al. (2011) Dietary patterns are associated with levels of global genomic DNA methylation in a cancer-free population. J Nutr 141: 1165-1171. doi:10.3945/jn.110.134536.
23. Piyathilake C, Badiga S, Johanning G, Alvarez R, Partridge E (2011) Predictors and Health Consequences of Epigenetic Changes Associated with Excess Body Weight in Women of Child-bearing Age. Cancer Epidemiol Biomarkers Prev 20: 719-719. doi:10.1158/1055-9965.EPI-11-0094.
24. Christensen BC, Kelsey KT, Zheng S, Houseman EA, Marsit CJ, et al. (2010) Breast Cancer DNA Methylation Profiles Are Associated with Tumor Size and Alcohol and Folate Intake. PLoS Genet 6: e1001043. doi:10.1371/journal.pgen. 1001043.
25. Teegarden D, Romieu I, Lelièvre SA (2012) Redefining the impact of nutrition on breast cancer incidence: is epigenetics involved? Nutr Res Rev 25: 68-95. doi:10.1017/S0954422411000199.
26. Widschwendter M, Jones PA (2002) DNA methylation and breast carcinogenesis. Oncogene 21: 5462-5482. doi:10.1038/sj.onc.1205606. (Pubitemid 34983482)
27. Karimi M, Johansson S, Stach D, Corcoran M, Grandér D, et al. (2006) LUMA (LUminometric Methylation Assay)-a high throughput method to the analysis of genomic DNA methylation. Exp Cell Res 312: 1989-1995. doi:10.1016/j.yexcr.2006.03.006. (Pubitemid 43850924)
28. Ehrlich M (2002) DNA methylation in cancer: too much, but also too little. Oncogene 21: 5400-5413. doi:10.1038/sj.onc.1205651.
29. Wilson AS, Power BE, Molloy PL (2007) DNA hypomethylation and human diseases. Biochim Biophys Acta 1775: 138-162. doi:10.1016/j.bbcan.2006.08.007. (Pubitemid 44881198)
30. Feber A, Wilson GA, Zhang L, Presneau N, Idowu B, et al. (2011) Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors. Genome Res 21: 515-524. doi:10.1101/gr.109678.110.
31. Flanagan JM, Cocciardi S, Waddell N, Johnstone CN, Marsh A, et al. (2010) DNA methylome of familial breast cancer identifies distinct profiles defined by mutation status. Am J Hum Genet 86: 420-433. doi:10.1016/j.ajhg.2010.02.008.
32. Starlard-Davenport A, Tryndyak VP, James SR, Karpf AR, Latendresse JR, et al. (2010) Mechanisms of epigenetic silencing of the Rassf1a gene during estrogen-induced breast carcinogenesis in ACI rats. Carcinogenesis 31: 376-381. doi:10.1093/carcin/bgp304.
33. Tanner JM (1973) Trend towards Earlier Menarche in London, Oslo, Copenhagen, the Netherlands and Hungary., Published online: 11 May 1973; | doi:101038/243095a0 243: 95-96. doi:10.1038/243095a0.
34. Ahmed ML, Ong KK, Dunger DB (2009) Childhood obesity and the timing of puberty. Trends Endocrinol Metab 20: 237-242. doi:10.1016/j.tem.2009.02.004.
35. Riboli E, Hunt KJ, Slimani N, Ferrari P, Norat T, et al. (2002) European Prospective Investigation into Cancer and Nutrition (EPIC): study populations and data collection. Public Health Nutr 5: 1113-1124. doi:10.1079/PHN2002394. (Pubitemid 36313608)
36. Karimi M, Johansson S, Ekström TJ (2006) Using LUMA: a Luminometric-based assay for global DNA-methylation. Epigenetics 1: 45-48.
37. Bjornsson HT, Sigurdsson MI, Fallin MD, Irizarry RA, Aspelund T, et al. (2008) Intra-individual change over time in DNA methylation with familial clustering. JAMA 299: 2877-2883. doi:10.1001/jama.299.24.2877. (Pubitemid 351930887)
38. Triche TJ, Weisenberger DJ, Berg DVD, Laird PW, Siegmund KD (2013) Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucl Acids Res. Available: http://nar.oxfordjournals.org/content/early/2013/03/09/nar. gkt090. Accessed 2013 May 11.
39. Dedeurwaerder S, Defrance M, Calonne E, Denis H, Sotiriou C, et al. (2011) Evaluation of the Infinium Methylation 450 K technology. Epigenomics 3: 771-784. doi:10.2217/epi.11.105.
40. Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, et al. (2010) Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews Genetics 11: 733-739. doi:10.1038/nrg2825.
41. Bock C (2012) Analysing and interpreting DNA methylation data. Nature Reviews Genetics 13: 705-719. doi:10.1038/nrg3273.
42. Du P, Zhang X, Huang CC, Jafari N, Kibbe WA, et al. (2010) Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinformatics 11: 587. doi:10.1186/1471-2105-11-587.
43. Shenker NS, Polidoro S, van Veldhoven K, Sacerdote C, Ricceri F, et al. (2012) Epigenome-wide association study in the European Prospective Investigation into Cancer and Nutrition (EPIC-Turin) identifies novel genetic loci associated with smoking. Hum Mol Genet. doi:10.1093/hmg/dds488.