TY - JOUR AU - Feinberg, A. P. AU - Vogelstein, B. PY - 1983 DA - 1983// TI - Hypomethylation distinguishes genes of some human cancers from their normal counterparts JO - Nature VL - 301 UR - https://doi.org/10.1038/301089a0 DO - 10.1038/301089a0 ID - Feinberg1983 ER - TY - JOUR AU - Feinberg, A. P. AU - Vogelstein, B. PY - 1983 DA - 1983// TI - Hypomethylation of ras oncogenes in primary human cancers JO - Biochem Biophys Res Commun VL - 111 UR - https://doi.org/10.1016/S0006-291X(83)80115-6 DO - 10.1016/S0006-291X(83)80115-6 ID - Feinberg1983 ER - TY - JOUR AU - Gama-Sosa, M. A. AU - Slagel, V. A. AU - Trewyn, R. W. AU - Oxenhandler, R. AU - Kuo, K. C. AU - Gehrke, C. W. PY - 1983 DA - 1983// TI - The 5-methylcytosine content of DNA from human tumors JO - Nucleic Acids Res VL - 11 UR - https://doi.org/10.1093/nar/11.19.6883 DO - 10.1093/nar/11.19.6883 ID - Gama-Sosa1983 ER - TY - JOUR AU - Cheung, H. H. AU - Lee, T. L. AU - Rennert, O. M. AU - Chan, W. Y. PY - 2009 DA - 2009// TI - DNA methylation of cancer genome JO - Birth Defects Research Part C: Embryo Today VL - 87 UR - https://doi.org/10.1002/bdrc.20163 DO - 10.1002/bdrc.20163 ID - Cheung2009 ER - TY - JOUR AU - Esteller, M. PY - 2005 DA - 2005// TI - Dormant hypermethylated tumour suppressor genes: questions and answers JO - J Pathol VL - 205 UR - https://doi.org/10.1002/path.1707 DO - 10.1002/path.1707 ID - Esteller2005 ER - TY - JOUR AU - Ehrlich, M. PY - 2009 DA - 2009// TI - DNA hypomethylation in cancer cells JO - Epigenomics VL - 1 UR - https://doi.org/10.2217/epi.09.33 DO - 10.2217/epi.09.33 ID - Ehrlich2009 ER - TY - JOUR AU - Nishiyama, R. AU - Qi, L. AU - Tsumagari, K. AU - Weissbecker, K. AU - Dubeau, L. AU - Champagne, M. PY - 2005 DA - 2005// TI - A DNA repeat, NBL2, is hypermethylated in some cancers but hypomethylated in others JO - Cancer Biology & Therapy VL - 4 UR - https://doi.org/10.4161/cbt.4.4.1622 DO - 10.4161/cbt.4.4.1622 ID - Nishiyama2005 ER - TY - JOUR AU - Grunau, C. AU - Brun, M. E. AU - Rivals, I. AU - Selves, J. AU - Hindermann, W. AU - Favre-Mercuret, M. PY - 2008 DA - 2008// TI - BAGE hypomethylation, a new epigenetic biomarker for colon cancer detection JO - Cancer Epidemiol Biomark Prev VL - 17 UR - https://doi.org/10.1158/1055-9965.EPI-07-2656 DO - 10.1158/1055-9965.EPI-07-2656 ID - Grunau2008 ER - TY - JOUR AU - Lindsey, J. C. AU - Lusher, M. E. AU - Anderton, J. A. AU - Gilbertson, R. J. AU - Ellison, D. W. AU - Clifford, S. C. PY - 2007 DA - 2007// TI - Epigenetic deregulation of multiple S100 gene family members by differential hypomethylation and hypermethylation events in medulloblastoma JO - Br J Cancer VL - 97 UR - https://doi.org/10.1038/sj.bjc.6603852 DO - 10.1038/sj.bjc.6603852 ID - Lindsey2007 ER - TY - JOUR AU - Wasson, G. R. AU - McGlynn, A. P. AU - McNulty, H. AU - O’Reilly, S. L. AU - McKelvey-Martin, V. J. AU - McKerr, G. PY - 2006 DA - 2006// TI - Global DNA and p53 region-specific hypomethylation in human colonic cells is induced by folate depletion and reversed by folate supplementation JO - The Journal of Nutrition VL - 136 ID - Wasson2006 ER - TY - JOUR AU - Hansen, K. D. AU - Timp, W. AU - Bravo, H. C. AU - Sabunciyan, S. AU - Langmead, B. AU - McDonald, O. G. PY - 2011 DA - 2011// TI - Increased methylation variation in epigenetic domains across cancer types JO - Nat Genet VL - 43 UR - https://doi.org/10.1038/ng.865 DO - 10.1038/ng.865 ID - Hansen2011 ER - TY - JOUR AU - Irizarry, R. A. AU - Ladd-Acosta, C. AU - Wen, B. AU - Wu, Z. AU - Montano, C. AU - Onyango, P. PY - 2009 DA - 2009// TI - The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores JO - Nat Genet VL - 41 UR - https://doi.org/10.1038/ng.298 DO - 10.1038/ng.298 ID - Irizarry2009 ER - TY - JOUR AU - Sandoval, J. AU - Heyn, H. AU - Moran, S. AU - Serra-Musach, J. AU - Pujana, M. A. AU - Bibikova, M. PY - 2011 DA - 2011// TI - Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome JO - Epigenetics VL - 6 UR - https://doi.org/10.4161/epi.6.6.16196 DO - 10.4161/epi.6.6.16196 ID - Sandoval2011 ER - TY - JOUR AU - Cho, Y. H. AU - Yazici, H. AU - Wu, H. C. AU - Terry, M. B. AU - Gonzalez, K. AU - Qu, M. PY - 2010 DA - 2010// TI - Aberrant promoter hypermethylation and genomic hypomethylation in tumor, adjacent normal tissues and blood from breast cancer patients JO - Anticancer Res VL - 30 ID - Cho2010 ER - TY - JOUR AU - Choi, J. Y. AU - James, S. R. AU - Link, P. A. AU - McCann, S. E. AU - Hong, C. C. AU - Davis, W. PY - 2009 DA - 2009// TI - Association between global DNA hypomethylation in leukocytes and risk of breast cancer JO - Carcinogenesis VL - 30 UR - https://doi.org/10.1093/carcin/bgp143 DO - 10.1093/carcin/bgp143 ID - Choi2009 ER - TY - JOUR AU - Brennan, K. AU - Garcia-Closas, M. AU - Orr, N. AU - Fletcher, O. AU - Jones, M. AU - Ashworth, A. PY - 2012 DA - 2012// TI - Intragenic ATM methylation in peripheral blood DNA as a biomarker of breast cancer risk JO - Cancer Res VL - 72 UR - https://doi.org/10.1158/0008-5472.CAN-11-3157 DO - 10.1158/0008-5472.CAN-11-3157 ID - Brennan2012 ER - TY - JOUR AU - Iwamoto, T. AU - Yamamoto, N. AU - Taguchi, T. AU - Tamaki, Y. AU - Noguchi, S. PY - 2011 DA - 2011// TI - BRCA1 promoter methylation in peripheral blood cells is associated with increased risk of breast cancer with BRCA1 promoter methylation JO - Breast Cancer Res Treat VL - 129 UR - https://doi.org/10.1007/s10549-010-1188-1 DO - 10.1007/s10549-010-1188-1 ID - Iwamoto2011 ER - TY - JOUR AU - Wong, E. M. AU - Southey, M. C. AU - Fox, S. B. AU - Brown, M. A. AU - Dowty, J. G. AU - Jenkins, M. A. PY - 2011 DA - 2011// TI - Constitutional methylation of the BRCA1 promoter is specifically associated with BRCA1 mutation-associated pathology in early-onset breast cancer JO - Cancer Prevention Research VL - 4 UR - https://doi.org/10.1158/1940-6207.CAPR-10-0212 DO - 10.1158/1940-6207.CAPR-10-0212 ID - Wong2011 ER - TY - JOUR AU - Brennan, K. AU - Flanagan, J. M. PY - 2012 DA - 2012// TI - Is there a link between genome-wide hypomethylation in blood and cancer risk? JO - Cancer Prevention Research VL - 5 UR - https://doi.org/10.1158/1940-6207.CAPR-12-0316 DO - 10.1158/1940-6207.CAPR-12-0316 ID - Brennan2012 ER - TY - JOUR AU - Li, L. AU - Choi, J. Y. AU - Lee, K. M. AU - Sung, H. AU - Park, S. K. AU - Oze, I. PY - 2012 DA - 2012// TI - DNA methylation in peripheral blood: a potential biomarker for cancer molecular epidemiology JO - Journal of Epidemiology VL - 22 UR - https://doi.org/10.2188/jea.JE20120003 DO - 10.2188/jea.JE20120003 ID - Li2012 ER - TY - JOUR AU - Rakyan, V. K. AU - Down, T. A. AU - Balding, D. J. AU - Beck, S. PY - 2011 DA - 2011// TI - Epigenome-wide association studies for common human diseases JO - Nat Rev Genet VL - 12 UR - https://doi.org/10.1038/nrg3000 DO - 10.1038/nrg3000 ID - Rakyan2011 ER - TY - JOUR AU - Verma, M. PY - 2012 DA - 2012// TI - Epigenome-wide association studies (EWAS) in cancer JO - Current Genomics VL - 13 UR - https://doi.org/10.2174/138920212800793294 DO - 10.2174/138920212800793294 ID - Verma2012 ER - TY - JOUR AU - Severi, G. AU - Southey, M. C. AU - English, D. R. AU - Jung, C. H. AU - Lonie, A. AU - McLean, C. PY - 2014 DA - 2014// TI - Epigenome-wide methylation in DNA from peripheral blood as a marker of risk for breast cancer JO - Breast Cancer Res Treat VL - 148 UR - https://doi.org/10.1007/s10549-014-3209-y DO - 10.1007/s10549-014-3209-y ID - Severi2014 ER - TY - JOUR AU - Xu, Z. AU - Bolick, S. C. AU - DeRoo, L. A. AU - Weinberg, C. R. AU - Sandler, D. P. AU - Taylor, J. A. PY - 2013 DA - 2013// TI - Epigenome-wide association study of breast cancer using prospectively collected sister study samples JO - J Natl Cancer Inst VL - 105 UR - https://doi.org/10.1093/jnci/djt045 DO - 10.1093/jnci/djt045 ID - Xu2013 ER - TY - JOUR AU - Deroo, L. A. AU - Bolick, S. C. AU - Xu, Z. AU - Umbach, D. M. AU - Shore, D. AU - Weinberg, C. R. PY - 2014 DA - 2014// TI - Global DNA methylation and one-carbon metabolism gene polymorphisms and the risk of breast cancer in the Sister Study JO - Carcinogenesis VL - 35 UR - https://doi.org/10.1093/carcin/bgt342 DO - 10.1093/carcin/bgt342 ID - Deroo2014 ER - TY - JOUR AU - Nelson, H. H. AU - Marsit, C. J. AU - Kelsey, K. T. PY - 2011 DA - 2011// TI - Global methylation in exposure biology and translational medical science JO - Environ Health Perspect VL - 119 UR - https://doi.org/10.1289/ehp.1103423 DO - 10.1289/ehp.1103423 ID - Nelson2011 ER - TY - JOUR AU - Shenker, N. S. AU - Polidoro, S. AU - Veldhoven, K. AU - Sacerdote, C. AU - Ricceri, F. AU - Birrell, M. A. PY - 2013 DA - 2013// TI - Epigenome-wide association study in the European Prospective Investigation into Cancer and Nutrition (EPIC-Turin) identifies novel genetic loci associated with smoking JO - Hum Mol Genet VL - 22 UR - https://doi.org/10.1093/hmg/dds488 DO - 10.1093/hmg/dds488 ID - Shenker2013 ER - TY - JOUR AU - Anjum, S. AU - Fourkala, E. O. AU - Zikan, M. AU - Wong, A. AU - Gentry-Maharaj, A. AU - Jones, A. PY - 2014 DA - 2014// TI - A BRCA1-mutation associated DNA methylation signature in blood cells predicts sporadic breast cancer incidence and survival JO - Genome Medicine VL - 6 UR - https://doi.org/10.1186/gm567 DO - 10.1186/gm567 ID - Anjum2014 ER - TY - JOUR AU - Chu, M. AU - Siegmund, K. D. AU - Hao, Q. L. AU - Crooks, G. M. AU - Tavare, S. AU - Shibata, D. PY - 2008 DA - 2008// TI - Inferring relative numbers of human leucocyte genome replications JO - Br J Haematol VL - 141 UR - https://doi.org/10.1111/j.1365-2141.2008.07142.x DO - 10.1111/j.1365-2141.2008.07142.x ID - Chu2008 ER - TY - JOUR AU - Ruike, Y. AU - Imanaka, Y. AU - Sato, F. AU - Shimizu, K. AU - Tsujimoto, G. PY - 2010 DA - 2010// TI - Genome-wide analysis of aberrant methylation in human breast cancer cells using methyl-DNA immunoprecipitation combined with high-throughput sequencing JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-137 DO - 10.1186/1471-2164-11-137 ID - Ruike2010 ER - TY - JOUR AU - Stolzenberg-Solomon, R. Z. AU - Chang, S. C. AU - Leitzmann, M. F. AU - Johnson, K. A. AU - Johnson, C. AU - Buys, S. S. PY - 2006 DA - 2006// TI - Folate intake, alcohol use, and postmenopausal breast cancer risk in the prostate, lung, colorectal, and ovarian cancer screening trial JO - Am J Clin Nutr VL - 83 ID - Stolzenberg-Solomon2006 ER - TY - JOUR AU - Christensen, B. C. AU - Kelsey, K. T. AU - Zheng, S. AU - Houseman, E. A. AU - Marsit, C. J. AU - Wrensch, M. R. PY - 2010 DA - 2010// TI - Breast cancer DNA methylation profiles are associated with tumor size and alcohol and folate intake JO - PLoS Genet VL - 6 UR - https://doi.org/10.1371/journal.pgen.1001043 DO - 10.1371/journal.pgen.1001043 ID - Christensen2010 ER - TY - JOUR AU - Palli, D. AU - Berrino, F. AU - Vineis, P. AU - Tumino, R. AU - Panico, S. AU - Masala, G. PY - 2003 DA - 2003// TI - A molecular epidemiology project on diet and cancer: the EPIC-Italy prospective study. Design and baseline characteristics of participants JO - Tumori VL - 89 ID - Palli2003 ER - TY - JOUR AU - Lund, E. AU - Kumle, M. AU - Braaten, T. AU - Hjartaker, A. AU - Bakken, K. AU - Eggen, E. PY - 2003 DA - 2003// TI - External validity in a population-based national prospective study—the Norwegian Women and Cancer Study (NOWAC) JO - Cancer Causes Control VL - 14 UR - https://doi.org/10.1023/B:CACO.0000007982.18311.2e DO - 10.1023/B:CACO.0000007982.18311.2e ID - Lund2003 ER - TY - JOUR AU - Swerdlow, A. J. AU - Jones, M. E. AU - Schoemaker, M. J. AU - Hemming, J. AU - Thomas, D. AU - Williamson, J. PY - 2011 DA - 2011// TI - The breakthrough generations study: design of a long-term UK cohort study to investigate breast cancer aetiology JO - Br J Cancer VL - 105 UR - https://doi.org/10.1038/bjc.2011.337 DO - 10.1038/bjc.2011.337 ID - Swerdlow2011 ER - TY - JOUR AU - Troyanskaya, O. AU - Cantor, M. AU - Sherlock, G. AU - Brown, P. AU - Hastie, T. AU - Tibshirani, R. PY - 2001 DA - 2001// TI - Missing value estimation methods for DNA microarrays JO - Bioinformatics VL - 17 UR - https://doi.org/10.1093/bioinformatics/17.6.520 DO - 10.1093/bioinformatics/17.6.520 ID - Troyanskaya2001 ER - TY - JOUR AU - Johnson, W. E. AU - Li, C. AU - Rabinovic, A. PY - 2007 DA - 2007// TI - Adjusting batch effects in microarray expression data using empirical Bayes methods JO - Biostatistics VL - 8 UR - https://doi.org/10.1093/biostatistics/kxj037 DO - 10.1093/biostatistics/kxj037 ID - Johnson2007 ER - TY - JOUR AU - Dedeurwaerder, S. AU - Defrance, M. AU - Calonne, E. AU - Denis, H. AU - Sotiriou, C. AU - Fuks, F. PY - 2011 DA - 2011// TI - Evaluation of the Infinium Methylation 450K technology JO - Epigenomics VL - 3 UR - https://doi.org/10.2217/epi.11.105 DO - 10.2217/epi.11.105 ID - Dedeurwaerder2011 ER - TY - JOUR AU - Teschendorff, A. E. AU - Marabita, F. AU - Lechner, M. AU - Bartlett, T. AU - Tegner, J. AU - Gomez-Cabrero, D. PY - 2013 DA - 2013// TI - A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data JO - Bioinformatics VL - 29 UR - https://doi.org/10.1093/bioinformatics/bts680 DO - 10.1093/bioinformatics/bts680 ID - Teschendorff2013 ER - TY - JOUR AU - Adalsteinsson, B. T. AU - Gudnason, H. AU - Aspelund, T. AU - Harris, T. B. AU - Launer, L. J. AU - Eiriksdottir, G. PY - 2012 DA - 2012// TI - Heterogeneity in white blood cells has potential to confound DNA methylation measurements JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0046705 DO - 10.1371/journal.pone.0046705 ID - Adalsteinsson2012 ER - TY - JOUR AU - Reinius, L. E. AU - Acevedo, N. AU - Joerink, M. AU - Pershagen, G. AU - Dahlen, S. E. AU - Greco, D. PY - 2012 DA - 2012// TI - Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0041361 DO - 10.1371/journal.pone.0041361 ID - Reinius2012 ER - TY - JOUR AU - Houseman, E. A. AU - Accomando, W. P. AU - Koestler, D. C. AU - Christensen, B. C. AU - Marsit, C. J. AU - Nelson, H. H. PY - 2012 DA - 2012// TI - DNA methylation arrays as surrogate measures of cell mixture distribution JO - BMC Bioinformatics VL - 13 UR - https://doi.org/10.1186/1471-2105-13-86 DO - 10.1186/1471-2105-13-86 ID - Houseman2012 ER - TY - JOUR AU - Houseman, E. A. AU - Molitor, J. AU - Marsit, C. J. PY - 2014 DA - 2014// TI - Reference-free cell mixture adjustments in analysis of DNA methylation data JO - Bioinformatics VL - 30 UR - https://doi.org/10.1093/bioinformatics/btu029 DO - 10.1093/bioinformatics/btu029 ID - Houseman2014 ER - TY - CHAP AU - Johnson, M. D. AU - Mueller, M. AU - Game, L. AU - Aitman, T. J. ED - Ausube, F. M. PY - 2012 DA - 2012// TI - Single nucleotide analysis of cytosine methylation by whole-genome shotgun bisulfite sequencing BT - Current protocols in molecular biology ID - Johnson2012 ER - TY - JOUR AU - Cox, M. P. AU - Peterson, D. A. AU - Biggs, P. J. PY - 2010 DA - 2010// TI - SolexaQA: at-a-glance quality assessment of Illumina second-generation sequencing data JO - BMC Bioinformatics VL - 11 UR - https://doi.org/10.1186/1471-2105-11-485 DO - 10.1186/1471-2105-11-485 ID - Cox2010 ER - TY - JOUR AU - Krueger, F. AU - Andrews, S. R. PY - 2011 DA - 2011// TI - Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications JO - Bioinformatics VL - 27 UR - https://doi.org/10.1093/bioinformatics/btr167 DO - 10.1093/bioinformatics/btr167 ID - Krueger2011 ER - TY - JOUR AU - Gardiner-Garden, M. AU - Frommer, M. PY - 1987 DA - 1987// TI - CpG islands in vertebrate genomes JO - J Mol Biol VL - 196 UR - https://doi.org/10.1016/0022-2836(87)90689-9 DO - 10.1016/0022-2836(87)90689-9 ID - Gardiner-Garden1987 ER - TY - JOUR AU - Bibikova, M. AU - Barnes, B. AU - Tsan, C. AU - Ho, V. AU - Klotzle, B. AU - Le, J. M. PY - 2011 DA - 2011// TI - High density DNA methylation array with single CpG site resolution JO - Genomics VL - 98 UR - https://doi.org/10.1016/j.ygeno.2011.07.007 DO - 10.1016/j.ygeno.2011.07.007 ID - Bibikova2011 ER - TY - JOUR AU - Ferrari, S. L. P. AU - Cribari-Neto, F. PY - 2004 DA - 2004// TI - Beta regression for modelling rates and proportions JO - J Appl Stat VL - 31 UR - https://doi.org/10.1080/0266476042000214501 DO - 10.1080/0266476042000214501 ID - Ferrari2004 ER - TY - JOUR AU - Whitehead, J. PY - 1980 DA - 1980// TI - Fitting Cox’s regression model to survival data using GLIM JO - J R Stat Soc: Ser C: Appl Stat VL - 29 ID - Whitehead1980 ER -