DNA methylation loss in late-replicating domains is linked to mitotic cell division
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Hui Shen | Zachary Ramjan | Wanding Zhou | Benjamin P Berman | Peter W Laird | P. Laird | D. Weisenberger | B. Berman | Hui Shen | Z. Ramjan | Wanding Zhou | Huy Q. Dinh | C. Nicolet | Huy Q Dinh | Daniel J Weisenberger | Charles M Nicolet | Zachary H. Ramjan
[1] A. Feinberg,et al. Hypomethylation of DNA from benign and malignant human colon neoplasms. , 1985, Science.
[2] Wendy P Robinson,et al. The human placenta methylome , 2013, Proceedings of the National Academy of Sciences.
[3] P. Laird,et al. DNA Methyltransferase Deficiency Modifies Cancer Susceptibility in Mice Lacking DNA Mismatch Repair , 2002, Molecular and Cellular Biology.
[4] K. Hansen,et al. Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data , 2015, Genome Biology.
[5] N. Reich,et al. DNA binding discrimination of the murine DNA cytosine-C5 methyltransferase. , 1998, Journal of molecular biology.
[6] Andrew Menzies,et al. Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes , 2014, Science.
[7] M. Stratton,et al. Clock-like mutational processes in human somatic cells , 2015, Nature Genetics.
[8] Peter W. Laird,et al. Multiscale Representation of Genomic Signals , 2014, Nature Methods.
[9] Ronald P. Schuyler,et al. Whole-genome fingerprint of the DNA methylome during human B cell differentiation , 2015, Nature Genetics.
[10] T. Bestor,et al. Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L , 2004, Nature.
[11] Lukas Burger,et al. Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation , 2015, Nature.
[12] David T. W. Jones,et al. Decoding the regulatory landscape of medulloblastoma using DNA methylation sequencing , 2014, Nature.
[13] Andrew F. Neuwald,et al. Natural Mutagenesis of Human Genomes by Endogenous Retrotransposons , 2010, Cell.
[14] Hao Wu,et al. Reversing DNA Methylation: Mechanisms, Genomics, and Biological Functions , 2014, Cell.
[15] C. Walsh,et al. Transcription of IAP endogenous retroviruses is constrained by cytosine methylation , 1998, Nature Genetics.
[16] B. Vogelstein,et al. Variation in cancer risk among tissues can be explained by the number of stem cell divisions , 2015, Science.
[17] Wei Li,et al. BSMAP: whole genome bisulfite sequence MAPping program , 2009, BMC Bioinformatics.
[18] Roland Eils,et al. Atypical Teratoid/Rhabdoid Tumors Are Comprised of Three Epigenetic Subgroups with Distinct Enhancer Landscapes. , 2016, Cancer cell.
[19] Anne H. O'Donnell,et al. Chromatin and sequence features that define the fine and gross structure of genomic methylation patterns. , 2010, Genome research.
[20] Tyler H. Garvin,et al. A Reference Methylome Database and Analysis Pipeline to Facilitate Integrative and Comparative Epigenomics , 2013, PloS one.
[21] A. Feinberg,et al. Increased methylation variation in epigenetic domains across cancer types , 2011, Nature Genetics.
[22] A. Feinberg,et al. Large-scale hypomethylated blocks associated with Epstein-Barr virus–induced B-cell immortalization , 2014, Genome research.
[23] Peter W. Laird,et al. Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes , 2016, Nucleic acids research.
[24] Morris A. Swertz,et al. Age-related accrual of methylomic variability is linked to fundamental ageing mechanisms , 2016, Genome Biology.
[25] H. Leonhardt,et al. Dynamics of Dnmt1 interaction with the replication machinery and its role in postreplicative maintenance of DNA methylation , 2007, Nucleic acids research.
[26] K. Brennan,et al. Is There a Link Between Genome-Wide Hypomethylation in Blood and Cancer Risk? , 2012, Cancer Prevention Research.
[27] A. Feinberg,et al. Hypomethylation distinguishes genes of some human cancers from their normal counterparts , 1983, Nature.
[28] S. Horvath,et al. An epigenetic clock for gestational age at birth based on blood methylation data , 2016, Genome Biology.
[29] Winston Timp,et al. Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors , 2014, Genome Medicine.
[30] D. Aran,et al. Replication timing-related and gene body-specific methylation of active human genes. , 2011, Human molecular genetics.
[31] N. Friedman,et al. Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells , 2014, Nature.
[32] F. Burnet. A modification of jerne's theory of antibody production using the concept of clonal selection , 1976, CA: a cancer journal for clinicians.
[33] Peter A. Jones,et al. Rethinking how DNA methylation patterns are maintained , 2009, Nature Reviews Genetics.
[34] Giulia Basile,et al. Intragenic DNA methylation prevents spurious transcription initiation , 2017, Nature.
[35] R. Stewart,et al. Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells , 2011, Nature.
[36] Adrian Bird,et al. Do short, frequent DNA sequence motifs mould the epigenome? , 2016, Nature Reviews Molecular Cell Biology.
[37] M. Ehrlich,et al. Amount and distribution of 5-methylcytosine in human DNA from different types of tissues of cells. , 1982, Nucleic acids research.
[38] Gangning Liang,et al. Cooperativity between DNA Methyltransferases in the Maintenance Methylation of Repetitive Elements , 2002, Molecular and Cellular Biology.
[39] M. Ehrlich,et al. 5-Methylcytosine in eukaryotic DNA. , 1981, Science.
[40] R. Jaenisch,et al. Chromosomal Instability and Tumors Promoted by DNA Hypomethylation , 2003, Science.
[41] Lovelace J. Luquette,et al. Landscape of Somatic Retrotransposition in Human Cancers , 2012, Science.
[42] W. Lam,et al. Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells , 2005, Nature Genetics.
[43] Ho-Ryun Chung,et al. Epigenomic Profiling of Human CD4+ T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development. , 2016, Immunity.
[44] Matthew D. Schultz,et al. Global Epigenomic Reconfiguration During Mammalian Brain Development , 2013, Science.
[45] M. Ehrlich. DNA hypomethylation in cancer cells. , 2009, Epigenomics.
[46] Dylan M. Marchione,et al. Impaired H3K36 methylation defines a subset of head and neck squamous cell carcinomas , 2017, Nature Genetics.
[47] S. Baylin,et al. Altered methylation patterns in cancer cell genomes: cause or consequence? , 2002, Cancer cell.
[48] Howard Cedar,et al. DNA methylation dynamics in health and disease , 2013, Nature Structural &Molecular Biology.
[49] Zohar Mukamel,et al. Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues , 2012, Nature Genetics.
[50] Nicola D. Roberts,et al. Pan-cancer analysis of whole genomes reveals driver rearrangements promoted by LINE-1 retrotransposition in human tumours , 2017, bioRxiv.
[51] T. Ideker,et al. Genome-wide methylation profiles reveal quantitative views of human aging rates. , 2013, Molecular cell.
[52] Rudolf Jaenisch,et al. Targeted mutation of the DNA methyltransferase gene results in embryonic lethality , 1992, Cell.
[53] L. Wessels,et al. Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions , 2008, Nature.
[54] P. Jones,et al. The DNA methylation paradox. , 1999, Trends in genetics : TIG.
[55] Aaron R. Quinlan,et al. Bioinformatics Applications Note Genome Analysis Bedtools: a Flexible Suite of Utilities for Comparing Genomic Features , 2022 .
[56] Thomas Lengauer,et al. DNA Methylation Dynamics of Human Hematopoietic Stem Cell Differentiation , 2016, Cell stem cell.
[57] P. Laird,et al. Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data , 2012, Genome Biology.
[58] H. Kazazian,et al. Pathogenic orphan transduction created by a nonreference LINE‐1 retrotransposon , 2012, Human mutation.
[59] M. Ehrlich,et al. The 5-methylcytosine content of DNA from human tumors. , 1983, Nucleic acids research.
[60] R. Jaenisch,et al. Activation and transposition of endogenous retroviral elements in hypomethylation induced tumors in mice , 2008, Oncogene.
[61] A. Jeltsch,et al. Mechanistic details of the DNA recognition by the Dnmt1 DNA methyltransferase , 2012, FEBS letters.
[62] Lars Juhl Jensen,et al. Cyclebase 3.0: a multi-organism database on cell-cycle regulation and phenotypes , 2014, Nucleic Acids Res..
[63] P. Laird,et al. Low-level processing of Illumina Infinium DNA Methylation BeadArrays , 2013, Nucleic acids research.
[64] B. Steensel,et al. Nuclear lamins are not required for lamina‐associated domain organization in mouse embryonic stem cells , 2015, EMBO reports.
[65] A. McKenna,et al. Absolute quantification of somatic DNA alterations in human cancer , 2012, Nature Biotechnology.
[66] Dustin E. Schones,et al. Distinct roles of DNMT1-dependent and DNMT1-independent methylation patterns in the genome of mouse embryonic stem cells , 2015, Genome Biology.
[67] Matthew D. Schultz,et al. Human Body Epigenome Maps Reveal Noncanonical DNA Methylation Variation , 2015, Nature.
[68] Michael O Dorschner,et al. Sequencing newly replicated DNA reveals widespread plasticity in human replication timing , 2009, Proceedings of the National Academy of Sciences.
[69] Gad Getz,et al. Somatic retrotransposition in human cancer revealed by whole-genome and exome sequencing , 2014, Genome research.
[70] Lee E. Edsall,et al. Human DNA methylomes at base resolution show widespread epigenomic differences , 2009, Nature.
[71] P. Laird,et al. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina–associated domains , 2011, Nature Genetics.
[72] Albert Jeltsch,et al. The Dnmt1 DNA-(cytosine-C5)-methyltransferase Methylates DNA Processively with High Preference for Hemimethylated Target Sites* , 2004, Journal of Biological Chemistry.
[73] Xin Li,et al. Age and sun exposure-related widespread genomic blocks of hypomethylation in nonmalignant skin , 2015, Genome Biology.
[74] S. Horvath. DNA methylation age of human tissues and cell types , 2013, Genome Biology.
[75] Michael B. Stadler,et al. DNA Sequence Explains Seemingly Disordered Methylation Levels in Partially Methylated Domains of Mammalian Genomes , 2014, PLoS genetics.
[76] Bernadett Papp,et al. Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis. , 2010, Genome research.