Lee KWK, Pausova Z. Cigarette smoking and DNA methylation. Front Epigenomics Epigenetics. 2013;4:132.
CAS
Google Scholar
Milagro FI, Mansego ML, De Miguel C, Martínez JA. Dietary factors, epigenetic modifications and obesity outcomes: progresses and perspectives. Mol Asp Med. 2013;34:782–812.
Article
CAS
Google Scholar
Li X, Wang Y, Zhang Z, Yao X, Ge J, Zhao Y. Correlation of MLH1 and MGMT methylation levels between peripheral blood leukocytes and colorectal tissue DNA samples in colorectal cancer patients. Oncol Lett. 2013;6:1370–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Ronn T, Volkov P, Gillberg L, Kokosar M, Perfilyev A, Jacobsen AL, et al. Impact of age, BMI and HbA1c levels on the genome-wide DNA methylation and mRNA expression patterns in human adipose tissue and identification of epigenetic biomarkers in blood. Hum Mol Genet. 2015;24:3792–813.
PubMed
Google Scholar
Van Bemmel D, Lenz P, Liao LM, Baris D, Sternberg LR, Warner A, et al. Correlation of LINE-1 methylation levels in patient-matched buffy coat, serum, buccal cell, and bladder tumor tissue DNA samples. Cancer Epidemiol Biomark Prev. 2012;21:1143–8.
Article
CAS
Google Scholar
Walton E, Hass J, Liu J, Roffman JL, Bernardoni F, Roessner V, et al. Correspondence of DNA methylation between blood and brain tissue and its application to schizophrenia research. Schizophr Bull. 2016;42:406–14.
Article
PubMed
Google Scholar
Zhang FF, Cardarelli R, Carroll J, Fulda KG, Kaur M, Gonzalez K, et al. Significant differences in global genomic DNA methylation by gender and race/ethnicity in peripheral blood. Epigenetics. 2011;6:623–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Boks MP, Derks EM, Weisenberger DJ, Strengman E, Janson E, Sommer IE, et al. The relationship of DNA methylation with age, gender and genotype in twins and healthy controls. PLoS One. 2009;4:e6767.
Article
PubMed
PubMed Central
CAS
Google Scholar
Liu J, Morgan M, Hutchison K, Calhoun VD. A study of the influence of sex on genome wide methylation. PLoS One. 2010;5:e10028.
Article
PubMed
PubMed Central
CAS
Google Scholar
Horvath S, Zhang Y, Langfelder P, Kahn RS, Boks MPM, van Eijk K, et al. Aging effects on DNA methylation modules in human brain and blood tissue. Genome Biol. 2012;13:R97.
Article
CAS
PubMed
PubMed Central
Google Scholar
Bell CG, Xia Y, Yuan W, Gao F, Ward K, Roos L, et al. Novel regional age-associated DNA methylation changes within human common disease-associated loci. Genome Biol. 2016;17:193.
Article
PubMed
PubMed Central
CAS
Google Scholar
Rodríguez-Rodero S, Fernández-Morera JL, Fernandez AF, Menéndez-Torre E, Fraga MF. Epigenetic regulation of aging. Discov Med. 2010;10:225–33.
PubMed
Google Scholar
Mugatroyd C, Wu Y, Bockmühl Y, Spengler D. The janus face of DNA methylation in aging. Aging (Albany NY). 2010;2:107–10.
Article
Google Scholar
Teschendorff AE, Menon U, Gentry-Maharaj A, Ramus SJ, Weisenberger DJ, Shen H, et al. Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer. Genome Res. 2010;20:440–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Bollati V, Schwartz J, Wright R, Litonjua A, Tarantini L, Suh H, et al. Decline in genomic DNA methylation through aging in a cohort of elderly subjects. Mech Ageing Dev. 2009;130:234–9.
Article
CAS
PubMed
Google Scholar
Christensen BC, Houseman EA, Marsit CJ, Zheng S, Wrensch MR, Wiemels JL, et al. Aging and environmental exposures alter tissue-specific DNA methylation dependent upon CPG island context. PLoS Genet. 2009;5:e1000602.
Article
PubMed
PubMed Central
CAS
Google Scholar
Fraga MF, Esteller M. Epigenetics and aging: the targets and the marks. Trends Genet. 2007;23:413–8.
Article
CAS
PubMed
Google Scholar
Fraga MF, Agrelo R, Esteller M. Cross-talk between aging and cancer: The epigenetic language. Ann N Y Acad Sci. 2007;1100:60–74.
Article
CAS
PubMed
Google Scholar
Banister CE, Koestler DC, Maccani MA, Padbury JF, Andres Houseman E, Marsit CJ. Infant growth restriction is associated with distinct patterns of DNA methylation in human placentas. Epigenetics. 2011;6:920–7.
Article
CAS
PubMed
PubMed Central
Google Scholar
Ehrlich M. DNA methylation in cancer: too much, but also too little. Oncogene. 2002;21:5400–13.
Article
CAS
PubMed
Google Scholar
Toperoff G, Aran D, Kark JD, Rosenberg M, Dubnikov T, Nissan B, et al. Genome-wide survey reveals predisposing diabetes type 2-related DNA methylation variations in human peripheral blood. Hum Mol Genet. 2012;21:371–83.
Article
CAS
PubMed
Google Scholar
Post W. Methylation of the estrogen receptor gene is associated with aging and atherosclerosis in the cardiovascular system. Cardiovasc Res. 1999;43:985–91.
Article
CAS
PubMed
Google Scholar
Richardson B. Impact of aging on DNA methylation. Ageing Res Rev. 2003;2:245–61.
Article
CAS
PubMed
Google Scholar
Fraga M, Ballestar E, Paz M, Ropero S, Setien F. From the cover: epigenetic differences arise during the lifetime of monozygotic twins. Proc Natl Acad Sci. 2004;102:10604–9.
Article
CAS
Google Scholar
Ribel-Madsen R, Fraga MF, Jacobsen S, Bork-Jensen J, Lara E, Calvanese V, et al. Genome-wide analysis of DNA methylation differences in muscle and fat from monozygotic twins discordant for type 2 diabetes. PLoS One. 2012;7:e51302.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kaminsky ZA, Tang T, Wang S-C, Ptak C, Oh GHT, Wong AHC, et al. DNA methylation profiles in monozygotic and dizygotic twins. Nat Genet. 2009;41:240–5.
Article
CAS
PubMed
Google Scholar
Nilsson E, Jansson PA, Perfilyev A, Volkov P, Pedersen M, Svensson MK, et al. Altered DNA methylation and differential expression of genes influencing metabolism and inflammation in adipose tissue from subjects with type 2 diabetes. Diabetes. 2014;63:2962–76.
Article
PubMed
Google Scholar
Brøns C, Jensen CB, Storgaard H, Alibegovic A, Jacobsen S, Nilsson E, et al. Mitochondrial function in skeletal muscle is normal and unrelated to insulin action in young men born with low birth weight. J Clin Endocrinol Metab. 2008;93:3885–92.
Article
PubMed
CAS
Google Scholar
Barker DJP. Maternal nutrition, fetal nutrition, and disease in later life. Nutrition. 1997;13:807–13.
Article
CAS
PubMed
Google Scholar
Xu Z, Taylor JA. Genome-wide age-related DNA methylation changes in blood and other tissues relate to histone modification, expression and cancer. Carcinogenesis. 2014;35:356–64.
Article
CAS
PubMed
Google Scholar
Jones PA. Functions of DNA methylation: islands, start sites, gene bodies and beyond. Nat Rev Genet. 2012;13:484–92.
Article
CAS
PubMed
Google Scholar
Numata S, Ye T, Hyde TM, Guitart-Navarro X, Tao R, Wininger M, et al. DNA methylation signatures in development and aging of the human prefrontal cortex. Am J Hum Genet. 2012;90:260–72.
Article
CAS
PubMed
PubMed Central
Google Scholar
Koch CM, Wagner W. Epigenetic-aging-signature to determine age in different tissues. Aging (Albany NY). 2011;3:1018–27.
Article
CAS
Google Scholar
Hernandez DG, Nalls MA, Gibbs JR, Arepalli S, van der Brug M, Chong S, et al. Distinct DNA methylation changes highly correlated with chronological age in the human brain. Hum Mol Genet. 2011;20:1164–72.
Article
CAS
PubMed
PubMed Central
Google Scholar
Rakyan VK, Down TA, Maslau S, Andrew T, Yang TP, Beyan H, et al. Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains. Genome Res. 2010;20:434–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Florath I, Butterbach K, Müller H, Bewerunge-hudler M, Brenner H. Cross-sectional and longitudinal changes in DNA methylation with age: an epigenome-wide analysis revealing over 60 novel age-associated CpG sites. Hum Mol Genet. 2014;23:1186–201.
Article
CAS
PubMed
Google Scholar
Johansson Å, Enroth S, Gyllensten U. Continuous aging of the human DNA Methylome throughout the human lifespan. PLoS One. 2013;8:e67378.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hannum G, Guinney J, Zhao L, Zhang L, Hughes G, Sadda S, et al. Genome-wide methylation profiles reveal quantitative views of human aging rates. Mol Cell. 2013;49:359–67.
Article
CAS
PubMed
Google Scholar
Bocklandt S, Lin W, Sehl ME, Sánchez FJ, Sinsheimer JS, Horvath S, et al. Epigenetic predictor of age. PLoS One. 2011;6:e14821.
Article
CAS
PubMed
PubMed Central
Google Scholar
Horvath S. DNA methylation age of human tissues and cell types DNA methylation age of human tissues and cell types; 2013.
Google Scholar
Ling C, Groop L. Epigenetics: A molecular link between environmental factors and type 2 diabetes. Diabetes. 2009;58:2718–25.
Article
CAS
PubMed
PubMed Central
Google Scholar
Marioni RE, Shah S, McRae AF, Ritchie SJ, Muniz-Terrera G, Harris SE, et al. The epigenetic clock is correlated with physical and cognitive fitness in the Lothian birth cohort 1936. Int J Epidemiol. 2015;44:1388–96.
Article
PubMed
PubMed Central
Google Scholar
Marioni RE, Shah S, McRae AF, Chen BH, Colicino E, Harris SE, et al. DNA methylation age of blood predicts all-cause mortality in later life. Genome Biol. 2015;16:25.
Article
PubMed
PubMed Central
CAS
Google Scholar
Sandoval J, Heyn HA, Moran S, Serra-Musach J, Pujana MA, Bibikova M, et al. Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome. Epigenetics. 2011;6:692–702.
Article
CAS
PubMed
Google Scholar
Argos M, Rahman M, Parvez F, Dignam J, Islam T, Quasem I, et al. Baseline comorbidities in a skin cancer prevention trial in Bangladesh. Eur J Clin Investig. 2013;43:579–88.
Article
CAS
Google Scholar
Argos M, Chen L, Jasmine F, Tong L, Pierce BL, Roy S, et al. Gene-specific differential DNA methylation and chronic arsenic exposure in an epigenome-wide association study of adults in Bangladesh. Environ Health Perspect. 2015;123:64–71.
Article
CAS
PubMed
Google Scholar
Houseman EA, Molitor J, Marsit CJ. Reference-free cell mixture adjustments in analysis of DNA methylation data. Bioinformatics. 2014;30:1431–9.
Article
CAS
PubMed
PubMed Central
Google Scholar
Houseman EA, Accomando WP, Koestler DC, Christensen BC, Marsit CJ, Nelson HH, et al. DNA methylation arrays as surrogate measures of cell mixture distribution. BMC Bioinformatics. 2012;13:86.
Article
PubMed
PubMed Central
Google Scholar
R Core Team. R: A Language and Environment for Statistical Computing. Vienna: R Found. Stat. Comput; 2016.
Google Scholar
Ahsan H, Chen Y, Parvez F, Argos M, Hussain AI, Momotaj H, et al. Health effects of arsenic longitudinal study (HEALS): description of a multidisciplinary epidemiologic investigation. J Expo Sci Environ Epidemiol. 2006;16:191–205.
Article
CAS
PubMed
Google Scholar
Horvath S, Raj K. DNA methylation-based biomarkers and the epigenetic clock theory of ageing. Nat Rev Genet. 2018;19(6):371-84. https://doi.org/10.1038/s41576-018-0004-3.
Article
CAS
PubMed
Google Scholar
Zampieri M, Ciccarone F, Calabrese R, Franceschi C, Bürkle A, Caiafa P. Reconfiguration of DNA methylation in aging. Mech Ageing Dev. 2015;151:1–11 Elsevier Ireland Ltd.
Article
CAS
Google Scholar
Steegenga WT, Boekschoten MV, Lute C, Hooiveld GJ, De Groot PJ, Morris TJ, et al. Genome-wide age-related changes in DNA methylation and gene expression in human PBMCs. Age (Omaha). 2014;36:1523–40.
Article
CAS
Google Scholar
Kinoshita M, Numata S, Tajima A, Ohi K, Hashimoto R, Shimodera S, et al. Aberrant DNA methylation of blood in schizophrenia by adjusting for estimated cellular proportions. NeuroMolecular Med. 2014;16:697–703.
Article
CAS
PubMed
Google Scholar
Liu Y, Aryee MJ, Padyukov L, Fallin MD, Hesselberg E, Runarsson A, et al. Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis. Nat Biotechnol. 2013;31:142–7.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lam LL, Emberly E, Fraser HB, Neumann SM, Chen E, Miller GE, et al. Factors underlying variable DNA methylation in a human community cohort. Proc Natl Acad Sci. 2012;109:17253–60.
Article
CAS
PubMed
PubMed Central
Google Scholar
Jaffe AE, Irizarry RA. Accounting for cellular heterogeneity is critical in epigenome-wide association studies. Genome Biol. 2014;15:R31.
Article
PubMed
PubMed Central
Google Scholar
Guintivano J, Aryee MJ, Kaminsky ZA. A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression. Epigenetics. 2013;8:290–302.
Article
CAS
PubMed
PubMed Central
Google Scholar
Adalsteinsson BT, Gudnason H, Aspelund T, Harris TB, Launer LJ, Eiriksdottir G, et al. Heterogeneity in white blood cells has potential to confound DNA methylation measurements. PLoS One. 2012;7:e46705.
Article
CAS
PubMed
PubMed Central
Google Scholar
Reinius LE, Acevedo N, Joerink M, Pershagen G, Dahlén S-E, Greco D, et al. Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility. PLoS One. 2012;7:1–13.
Article
CAS
Google Scholar
Guo H, Zhu P, Yan L, Li R, Hu B, Lian Y, et al. The DNA methylation landscape of human early embryos. Nature. 2014;511:606–10.
Article
CAS
PubMed
Google Scholar
Sun L, Lin J, Du H, Hu C, Huang Z, Lv Z, et al. Gender-specific DNA methylome analysis of a Han Chinese longevity population. Biomed Res Int. 2014;2014:1–9.
Google Scholar
Xu H, Wang F, Liu Y, Yu Y, Gelernter J, Zhang H. Sex-biased methylome and transcriptome in human prefrontal cortex. Hum Mol Genet. 2014;23:1260–70.
Article
CAS
PubMed
Google Scholar
Masser DR, Hadad N, Hunter L, Mangold CA, Unnikrishnan A, Ford MM, et al. Sexually divergent DNA methylation patterns with hippocampal aging. Aging Cell. 2017;6:1342–52.
Article
CAS
Google Scholar
Yousefi P, Huen K, Davé V, Barcellos L, Eskenazi B, Holland N. Sex differences in DNA methylation assessed by 450 K BeadChip in newborns. BMC Genomics. 2015;16:911.
Article
PubMed
PubMed Central
CAS
Google Scholar
Van DJ, Nivard MG, Willemsen G, Hottenga J, Helmer Q, Dolan CV, et al. Genetic and environmental influences interact with age and sex in shaping the human methylome. Nat Commun. 2016;7:1–13 Nat Publ Group.
Google Scholar
Naumova AK, Al Tuwaijri A, Morin A, Vaillancout VT, Madore A-M, Berlivet S, et al. Sex- and age-dependent DNA methylation at the 17q12-q21 locus associated with childhood asthma. Hum Genet. 2013;132:811–22.
Article
CAS
PubMed
Google Scholar
Zhu T, Zheng SC, Paul DS, Horvath S, Teschendorff AE. Cell and tissue type independent age-associated DNA methylation changes are not rare but common. Aging (Albany NY). 2018;10:3541–57.
Article
Google Scholar
GTEx Consortium TGte. The Genotype-Tissue Expression (GTEx) project. Nat Genet. 2013;45:580–5 NIH Public Access.
Article
CAS
Google Scholar
Mansego M, Milagro F, Zulet M, Moreno-Aliaga M, Martínez J. Differential DNA methylation in relation to age and health risks of obesity. Int J Mol Sci. 2015;16:16816–32.
Article
CAS
PubMed
PubMed Central
Google Scholar
Almén MS, Nilsson EK, Jacobsson JA, Kalnina I, Klovins J, Fredriksson R, et al. Genome-wide analysis reveals DNA methylation markers that vary with both age and obesity. Gene. 2014;548:61–7.
Article
PubMed
CAS
Google Scholar
Habano W, Kawamura K, Iizuka N, Terashima J, Sugai T, Ozawa S. Analysis of DNA methylation landscape reveals the roles of DNA methylation in the regulation of drug metabolizing enzymes. Clin Epigenetics. 2015;7:105.
Article
PubMed
PubMed Central
CAS
Google Scholar
Slieker RC, van Iterson M, Luijk R, Beekman M, Zhernakova DV, Moed MH, et al. Age-related accrual of methylomic variability is linked to fundamental ageing mechanisms. Genome Biol. 2016;17:191 BioMed Central.
Article
PubMed
PubMed Central
CAS
Google Scholar
Horvath S, Garagnani P, Bacalini MG, Pirazzini C, Salvioli S, Gentilini D, et al. Accelerated epigenetic aging in Down syndrome. Aging Cell. 2015;14:491–5.
Article
CAS
PubMed
PubMed Central
Google Scholar
Dugué P-A, Bassett JK, Joo JE, Jung C-H, Ming Wong E, Moreno-Betancur M, et al. DNA methylation-based biological aging and cancer risk and survival: pooled analysis of seven prospective studies. Int J Cancer. 2017;142(8):1611–9.
Article
PubMed
CAS
Google Scholar
Evert J, Lawler E, Bogan H, Perls T. Morbidity profiles of centenarians: survivors, delayers, and escapers. J Gerontol Med Sci. 2003;58:232–7.
Article
Google Scholar
Xiao F-H, He Y-H, Li Q-G, Wu H, Luo L-H, Kong Q-P. A genome-wide scan reveals important roles of DNA methylation in human longevity by regulating age-related disease genes. PLoS One. 2015;10:e0120388.
Article
PubMed
PubMed Central
CAS
Google Scholar
van Dongen J, Nivard MG, Willemsen G, Hottenga J-J, Helmer Q, Dolan CV, et al. Genetic and environmental influences interact with age and sex in shaping the human methylome. Nat Commun. 2016;7:11115.
Article
PubMed
PubMed Central
CAS
Google Scholar
Marioni RE, Harris SE, Shah S, Mcrae AF, Zglinicki T Von, Martin-ruiz C, et al. Original article The epigenetic clock and telomere length are independently associated with chronological age and mortality. Int J Epidemiol. 2016;45(2):424–32. https://doi.org/10.1093/ije/dyw041.
Article
PubMed Central
PubMed
Google Scholar
Inoshita M, Numata S, Tajima A, Kinoshita M, Umehara H, Yamamori H, et al. Sex differences of leukocytes DNA methylation adjusted for estimated cellular proportions. Biol Sex Differ. 2015;6:11.
Article
PubMed
PubMed Central
CAS
Google Scholar
Koestler DC, Avissar-Whiting M, Andres Houseman E, Karagas MR, Marsit CJ. Differential DNA methylation in umbilical cord blood of infants exposed to low levels of arsenic in utero. Environ Health Perspect. 2013;121:971–7.
Article
PubMed
PubMed Central
Google Scholar
Koestler DC, Christensen BC, Karagas MR, Marsit CJ, Langevin SM, Kelsey KT, et al. Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis. Epigenetics. 2013;8:816–26.
Article
CAS
PubMed
PubMed Central
Google Scholar