TET enzymes, TDG and the dynamics of DNA demethylation

[1]  K. Hochedlinger,et al.  Chromatin dynamics during cellular reprogramming , 2013, Nature.

[2]  O. Elemento,et al.  AID stabilizes stem cell phenotype by removing epigenetic memory of pluripotency genes , 2013, Nature.

[3]  L. Aravind,et al.  Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX , 2013, Nature.

[4]  Yi Zhang,et al.  Genome-wide Analysis Reveals TET- and TDG-Dependent 5-Methylcytosine Oxidation Dynamics , 2013, Cell.

[5]  P. Jin,et al.  Genome-wide Profiling of 5-Formylcytosine Reveals Its Roles in Epigenetic Priming , 2013, Cell.

[6]  M. Pellegrini,et al.  Stage-specific roles for tet1 and tet2 in DNA demethylation in primordial germ cells. , 2013, Cell stem cell.

[7]  T. Cai,et al.  Replacement of Oct4 by Tet1 during iPSC induction reveals an important role of DNA methylation and hydroxymethylation in reprogramming. , 2013, Cell stem cell.

[8]  Benjamin L. Ebert,et al.  (R)-2-Hydroxyglutarate Is Sufficient to Promote Leukemogenesis and Its Effects Are Reversible , 2013, Science.

[9]  Xiaodong Cheng,et al.  Selective excision of 5-carboxylcytosine by a thymine DNA glycosylase mutant. , 2013, Journal of molecular biology.

[10]  A. H. Smits,et al.  Dynamic Readers for 5-(Hydroxy)Methylcytosine and Its Oxidized Derivatives , 2013, Cell.

[11]  Kun Zhang,et al.  Dynamics of 5-methylcytosine and 5-hydroxymethylcytosine during germ cell reprogramming , 2013, Cell Research.

[12]  Frank Lyko,et al.  Combined deficiency of Tet1 and Tet2 causes epigenetic abnormalities but is compatible with postnatal development. , 2013, Developmental cell.

[13]  R. Jaenisch,et al.  Different Roles for Tet1 and Tet2 Proteins in Reprogramming-Mediated Erasure of Imprints Induced by EGC Fusion , 2013, Molecular cell.

[14]  Z. Ling,et al.  Tumor development is associated with decrease of TET gene expression and 5-methylcytosine hydroxylation , 2013, Oncogene.

[15]  W. Reik,et al.  Nanog-dependent function of Tet1 and Tet2 in establishment of pluripotency , 2013, Nature.

[16]  T. Down,et al.  Germline DNA Demethylation Dynamics and Imprint Erasure Through 5-Hydroxymethylcytosine , 2013, Science.

[17]  K. Kurimoto,et al.  Replication‐coupled passive DNA demethylation for the erasure of genome imprints in mice , 2012, The EMBO journal.

[18]  W. Reik,et al.  The Dynamics of Genome-wide DNA Methylation Reprogramming in Mouse Primordial Germ Cells , 2012, Molecular cell.

[19]  N. Heintz,et al.  MeCP2 binds to 5hmc enriched within active genes and accessible chromatin in the nervous system , 2012, Cell.

[20]  X. Shirley Liu,et al.  Tet3 CXXC Domain and Dioxygenase Activity Cooperatively Regulate Key Genes for Xenopus Eye and Neural Development , 2012, Cell.

[21]  Rui Liu,et al.  Tet1 controls meiosis by regulating meiotic gene expression , 2012, Nature.

[22]  G. Bhagat,et al.  Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2 , 2012, Nature.

[23]  A. Bellacosa,et al.  DNA demethylation by TDG. , 2012, Epigenomics.

[24]  Svend K. Petersen-Mahrt,et al.  AID Enzymatic Activity Is Inversely Proportional to the Size of Cytosine C5 Orbital Cloud , 2012, PloS one.

[25]  Yinsheng Wang,et al.  A density functional theory study on the kinetics and thermodynamics of N-glycosidic bond cleavage in 5-substituted 2'-deoxycytidines. , 2012, Biochemistry.

[26]  D. Carrell,et al.  Dynamic alterations in the paternal epigenetic landscape following fertilization , 2012, Front. Gene..

[27]  Huijue Jia,et al.  AID/APOBEC deaminases disfavor modified cytosines implicated in DNA demethylation , 2012, Nature chemical biology.

[28]  T. Carell,et al.  Mechanism and stem-cell activity of 5-carboxycytosine decarboxylation determined by isotope tracing. , 2012, Angewandte Chemie.

[29]  Y. Shinkai,et al.  PGC7 binds histone H3K9me2 to protect against conversion of 5mC to 5hmC in early embryos , 2012, Nature.

[30]  J. Torchia,et al.  TGF-β-dependent active demethylation and expression of the p15ink4b tumor suppressor are impaired by the ZNF217/CoREST complex. , 2012, Molecular cell.

[31]  M. Surani,et al.  Parallel mechanisms of epigenetic reprogramming in the germline. , 2012, Trends in genetics : TIG.

[32]  C. Niehrs,et al.  Active DNA demethylation by Gadd45 and DNA repair. , 2012, Trends in cell biology.

[33]  Zachary D. Smith,et al.  A unique regulatory phase of DNA methylation in the early mammalian embryo , 2012, Nature.

[34]  Chuan He,et al.  Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA , 2012, Nature chemical biology.

[35]  Rahul M Kohli,et al.  The curious chemical biology of cytosine: deamination, methylation, and oxidation as modulators of genomic potential. , 2012, ACS chemical biology.

[36]  Sailu Yellaboina,et al.  Acute depletion of Tet1-dependent 5-hydroxymethylcytosine levels impairs LIF/Stat3 signaling and results in loss of embryonic stem cell identity , 2011, Nucleic acids research.

[37]  Qing Dai,et al.  Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation development , 2011, Cell Research.

[38]  Feng-Chun Yang,et al.  Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies. , 2011, Blood.

[39]  Yi Zhang,et al.  Replication-Dependent Loss of 5-Hydroxymethylcytosine in Mouse Preimplantation Embryos , 2011, Science.

[40]  Peter A. Jones,et al.  A decade of exploring the cancer epigenome — biological and translational implications , 2011, Nature Reviews Cancer.

[41]  Z. Deng,et al.  The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes , 2011, Nature.

[42]  H. Blau,et al.  DNA Demethylation Dynamics , 2011, Cell.

[43]  O. Abdel-Wahab,et al.  TET family proteins and their role in stem cell differentiation and transformation. , 2011, Cell stem cell.

[44]  Chuan He,et al.  Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine , 2011, Science.

[45]  Yang Wang,et al.  Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA , 2011, Science.

[46]  A. Maiti,et al.  Thymine DNA Glycosylase Can Rapidly Excise 5-Formylcytosine and 5-Carboxylcytosine , 2011, The Journal of Biological Chemistry.

[47]  K. Rajewsky,et al.  Ten-Eleven-Translocation 2 (TET2) negatively regulates homeostasis and differentiation of hematopoietic stem cells in mice , 2011, Proceedings of the National Academy of Sciences.

[48]  D. Page,et al.  Tet1 is dispensable for maintaining pluripotency and its loss is compatible with embryonic and postnatal development. , 2011, Cell stem cell.

[49]  P. Opolon,et al.  TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. , 2011, Cancer cell.

[50]  O. Abdel-Wahab,et al.  Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation. , 2011, Cancer cell.

[51]  A. Klein-Szanto,et al.  Thymine DNA Glycosylase Is Essential for Active DNA Demethylation by Linked Deamination-Base Excision Repair , 2011, Cell.

[52]  G. Ming,et al.  Hydroxylation of 5-Methylcytosine by TET1 Promotes Active DNA Demethylation in the Adult Brain , 2011, Cell.

[53]  Juri Rappsilber,et al.  TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity , 2011, Nature.

[54]  Keji Zhao,et al.  Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells , 2011, Nature.

[55]  W. Reik,et al.  5-Hydroxymethylcytosine in the mammalian zygote is linked with epigenetic reprogramming. , 2011, Nature communications.

[56]  A. Bird,et al.  Embryonic lethal phenotype reveals a function of TDG in maintaining epigenetic stability , 2011, Nature.

[57]  G. Pfeifer,et al.  Reprogramming of the paternal genome upon fertilization involves genome-wide oxidation of 5-methylcytosine , 2011, Proceedings of the National Academy of Sciences.

[58]  Riitta Lahesmaa,et al.  Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. , 2011, Cell stem cell.

[59]  Bin Wang,et al.  Oncometabolite 2-hydroxyglutarate is a competitive inhibitor of α-ketoglutarate-dependent dioxygenases. , 2011, Cancer cell.

[60]  P. Jin,et al.  Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine , 2011, Nature Biotechnology.

[61]  C. Schofield,et al.  Physiological and biochemical aspects of hydroxylations and demethylations catalyzed by human 2-oxoglutarate oxygenases. , 2011, Trends in biochemical sciences.

[62]  Kairong Cui,et al.  Dual functions of Tet 1 in transcriptional regulation in mouse embryonic stem cells , 2011 .

[63]  D. Page,et al.  Tet 1 Is Dispensable for Maintaining Pluripotency and Its Loss Is Compatible with Embryonic and Postnatal Development , 2011 .

[64]  M. Biel,et al.  Tissue Distribution of 5-Hydroxymethylcytosine and Search for Active Demethylation Intermediates , 2010, PloS one.

[65]  J. Licht,et al.  Leukemic IDH1 and IDH2 mutations result in a hypermethylation phenotype, disrupt TET2 function, and impair hematopoietic differentiation. , 2010, Cancer cell.

[66]  Haikuo Zhang,et al.  TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine , 2010, Cell Research.

[67]  L. Aravind,et al.  Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2 , 2010, Nature.

[68]  Yi Zhang,et al.  Active DNA demethylation: many roads lead to Rome , 2010, Nature Reviews Molecular Cell Biology.

[69]  Yi Zhang,et al.  Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification , 2010, Nature.

[70]  G. Garcia-Manero,et al.  Therapy with azanucleosides for myelodysplastic syndromes , 2010, Nature Reviews Clinical Oncology.

[71]  M. Surani,et al.  Genome-Wide Reprogramming in the Mouse Germ Line Entails the Base Excision Repair Pathway , 2010, Science.

[72]  H. Schöler,et al.  Dynamic link of DNA demethylation, DNA strand breaks and repair in mouse zygotes , 2010, The EMBO journal.

[73]  M. Pellegrini,et al.  Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency , 2010, Nature.

[74]  Helen M. Blau,et al.  Reprogramming towards pluripotency requires AID-dependent DNA demethylation , 2010, Nature.

[75]  M. Surani,et al.  Epigenetic reprogramming of mouse germ cells toward totipotency. , 2010, Cold Spring Harbor symposia on quantitative biology.

[76]  Albert Jeltsch,et al.  Cyclical DNA methylation of a transcriptionally active promoter , 2008, Nature.

[77]  J. Soulier,et al.  Mutation in TET2 in myeloid cancers. , 2009, The New England journal of medicine.

[78]  Jian‐Kang Zhu.  Active DNA demethylation mediated by DNA glycosylases. , 2009, Annual review of genetics.

[79]  A. Hagemeijer,et al.  Acquired mutations in TET2 are common in myelodysplastic syndromes , 2009, Nature Genetics.

[80]  Z. Liutkevičiūtė,et al.  Cytosine-5-methyltransferases add aldehydes to DNA. , 2009, Nature chemical biology.

[81]  L. Aravind,et al.  Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids , 2009, Cell cycle.

[82]  G. Ming,et al.  DNA excision repair proteins and Gadd45 as molecular players for active DNA demethylation , 2009, Cell cycle.

[83]  David R. Liu,et al.  Conversion of 5-Methylcytosine to 5- Hydroxymethylcytosine in Mammalian DNA by the MLL Partner TET1 , 2009 .

[84]  N. Heintz,et al.  The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain , 2009, Science.

[85]  S. Henikoff,et al.  DNA demethylation by DNA repair. , 2009, Trends in genetics : TIG.

[86]  B. Cairns,et al.  DNA Demethylation in Zebrafish Involves the Coupling of a Deaminase, a Glycosylase, and Gadd45 , 2008, Cell.

[87]  P. Borst,et al.  Base J: discovery, biosynthesis, and possible functions. , 2008, Annual review of microbiology.

[88]  T. Bestor,et al.  The Colorful History of Active DNA Demethylation , 2008, Cell.

[89]  Vladimir Benes,et al.  Transient cyclical methylation of promoter DNA , 2008, Nature.

[90]  G. Pfeifer,et al.  GADD45A Does Not Promote DNA Demethylation , 2008, PLoS genetics.

[91]  C. Kunz,et al.  The enigmatic thymine DNA glycosylase. , 2007, DNA repair.

[92]  Christof Niehrs,et al.  Gadd45a promotes epigenetic gene activation by repair-mediated DNA demethylation , 2007, Nature.

[93]  M. Rodgers,et al.  Specificity of human thymine DNA glycosylase depends on N-glycosidic bond stability. , 2006, Journal of the American Chemical Society.

[94]  A. Bird,et al.  Genomic DNA methylation: the mark and its mediators. , 2006, Trends in biochemical sciences.

[95]  T. Bestor,et al.  Eukaryotic cytosine methyltransferases. , 2005, Annual review of biochemistry.

[96]  J. Smiley,et al.  Genes of the thymidine salvage pathway: thymine-7-hydroxylase from a Rhodotorula glutinis cDNA library and iso-orotate decarboxylase from Neurospora crassa. , 2005, Biochimica et biophysica acta.

[97]  J. Błasiak,et al.  [Base excision repair]. , 2005, Postepy biochemii.

[98]  T. Bestor,et al.  Transposon silencing and imprint establishment in mammalian germ cells. , 2004, Cold Spring Harbor symposia on quantitative biology.

[99]  A. Bird,et al.  Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals , 2003, Nature Genetics.

[100]  W. Edelmann,et al.  Mbd4 inactivation increases C→T transition mutations and promotes gastrointestinal tumor formation , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[101]  Y. Hayashi,et al.  LCX, leukemia-associated protein with a CXXC domain, is fused to MLL in acute myeloid leukemia with trilineage dysplasia having t(10;11)(q22;q23). , 2002, Cancer research.

[102]  W. Reik,et al.  Active demethylation of the paternal genome in the mouse zygote , 2000, Current Biology.

[103]  J. Walter,et al.  Embryogenesis: Demethylation of the zygotic paternal genome , 2000, Nature.

[104]  M. T. Abbott,et al.  Catalysis of three sequential dioxygenase reactions by thymine 7-hydroxylase. , 1973, Archives of biochemistry and biophysics.

[105]  K. Bojanowski,et al.  The presence of 5-hydroxymethylcytosine in animal deoxyribonucleic acid. , 1972, The Biochemical journal.

[106]  C Lanz,et al.  [Many roads lead to Rome]. , 1969, Zeitschrift fur Krankenpflege. Revue suisse des infirmieres.