A sensitive mass spectrometry method for simultaneous quantification of DNA methylation and hydroxymethylation levels in biological samples
Tài liệu tham khảo
Cross, 1997, A component of the transcriptional repressor MeCP1 shares a motif with DNA methyltransferase and HRX proteins, Nat. Genet., 16, 256, 10.1038/ng0797-256
Nan, 1997, MeCP2 is a transcriptional repressor with abundant binding sites in genomic chromatin, Cell, 88, 471, 10.1016/S0092-8674(00)81887-5
Jones, 1998, Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription, Nat. Genet., 19, 187, 10.1038/561
Nan, 1998, Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex, Nature, 393, 386, 10.1038/30764
Martinowich, 2003, DNA methylation-related chromatin remodeling in activity-dependent BDNF gene regulation, Science, 302, 890, 10.1126/science.1090842
Fan, 2005, DNA methylation controls the timing of astrogliogenesis through regulation of JAK–STAT signaling, Development, 132, 3345, 10.1242/dev.01912
Fan, 2001, DNA hypomethylation perturbs the function and survival of CNS neurons in postnatal animals, J. Neurosci., 21, 788, 10.1523/JNEUROSCI.21-03-00788.2001
Hutnick, 2009, DNA hypomethylation restricted to the murine forebrain induces cortical degeneration and impairs postnatal neuronal maturation, Hum. Mol. Genet., 18, 2875, 10.1093/hmg/ddp222
Feng, 2010, Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons, Nat. Neurosci., 13, 423, 10.1038/nn.2514
Tahiliani, 2009, Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1, Science, 324, 930, 10.1126/science.1170116
Penn, 1972, The presence of 5-hydroxymethylcytosine in animal deoxyribonucleic acid, Biochem. J., 126, 781, 10.1042/bj1260781
Kriaucionis, 2009, The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain, Science, 324, 929, 10.1126/science.1169786
Ito, 2010, Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal, and inner cell mass specification, Nature, 466, 1129, 10.1038/nature09303
Privat, 1996, Photochemical deamination and demethylation of 5-methylcytosine, Chem. Res. Toxicol., 9, 745, 10.1021/tx950182o
Liutkeviciute, 2009, Cytosine-5-methyltransferases add aldehydes to DNA, Nat. Chem. Biol., 5, 400, 10.1038/nchembio.172
Huang, 2010, The behaviour of 5-hydroxymethylcytosine in bisulfite sequencing, PLoS ONE, 5, e8888, 10.1371/journal.pone.0008888
Szwagierczak, 2010, Sensitive enzymatic quantification of 5-hydroxymethylcytosine in genomic DNA, Nucleic Acids Res., 38, e181, 10.1093/nar/gkq684
Flusberg, 2010, Direct detection of DNA methylation during single-molecule, real-time sequencing, Nat. Methods, 7, 461, 10.1038/nmeth.1459
Burke, 2009, Accurate measurement of DNA methylation that is traceable to the international system of units, Anal. Chem., 81, 7294, 10.1021/ac901116f
Kok, 2007, Global DNA methylation measured by liquid chromatography–tandem mass spectrometry: analytical technique, reference values, and determinants in healthy subjects, Clin. Chem. Lab. Med., 45, 903, 10.1515/CCLM.2007.137
Liu, 2007, Characterization of in vitro and in vivo hypomethylating effects of decitabine in acute myeloid leukemia by a rapid, specific, and sensitive LC–MS/MS method, Nucleic Acids Res., 35, e31, 10.1093/nar/gkl1156
Liu, 2009, Quantification of regional DNA methylation by liquid chromatography/tandem mass spectrometry, Anal. Biochem., 391, 106, 10.1016/j.ab.2009.05.012
Quinlivan, 2008, DNA methylation determination by liquid chromatography–tandem mass spectrometry using novel biosynthetic [U-15N]deoxycytidine and [U-15N]methyldeoxycytidine internal standards, Nucleic Acids Res., 36, e119, 10.1093/nar/gkn534
Song, 2005, Specific method for the determination of genomic DNA methylation by liquid chromatography–electrospray ionization tandem mass spectrometry, Anal. Chem., 77, 504, 10.1021/ac0489420
Yang, 2009, An international comparability study on quantification of total methyl cytosine content, Anal. Biochem., 384, 288, 10.1016/j.ab.2008.09.036
Takahashi, 2007, Induction of pluripotent stem cells from adult human fibroblasts by defined factors, Cell, 131, 861, 10.1016/j.cell.2007.11.019
Jackson, 2004, Severe global DNA hypomethylation blocks differentiation and induces histone hyperacetylation in embryonic stem cells, Mol. Cell. Biol., 24, 8862, 10.1128/MCB.24.20.8862-8871.2004
Popp, 2010, Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency, Nature, 463, 1101, 10.1038/nature08829
Deng, 2009, Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming, Nat. Biotechnol., 27, 353, 10.1038/nbt.1530
Doi, 2009, Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells, and fibroblasts, Nat. Genet., 41, 1350, 10.1038/ng.471
Kim, 2010, Epigenetic memory in induced pluripotent stem cells, Nature, 467, 285, 10.1038/nature09342
Pick, 2009, Clone- and gene-specific aberrations of parental imprinting in human induced pluripotent stem cells, Stem cells, 27, 2686, 10.1002/stem.205
Stadtfeld, 2010, Aberrant silencing of imprinted genes on chromosome 12qF1 in mouse induced pluripotent stem cells, Nature, 465, 175, 10.1038/nature09017
Mikkelsen, 2008, Dissecting direct reprogramming through integrative genomic analysis, Nature, 454, 49, 10.1038/nature07056