The Most Redundant Sequences in Human CpG Island Library Are Derived from Mitochondrial Genome

Genomics, Proteomics & Bioinformatics - Tập 8 - Trang 81-91 - 2010
Ximiao He1,2, Shu Tao1,2, Jing Jin3, Songnian Hu1, Jun Yu1
1CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China
2Graduate University of Chinese Academy of Sciences, Beijing 100049, China
3Department of Biology, University of Science and Technology of China, Hefei 230027, China

Tài liệu tham khảo

Clark, 2002, DNA methylation and gene silencing in cancer: which is the guilty party?, Oncogene, 21, 5380, 10.1038/sj.onc.1205598

Futscher, 2002, Role for DNA methylation in the control of cell type specific maspin expression, Nat. Genet., 31, 175, 10.1038/ng886

Bird, 1999, Methylation-induced repression—belts, braces, and chromatin, Cell, 99, 451, 10.1016/S0092-8674(00)81532-9

Bird, 2002, DNA methylation patterns and epigenetic memory, Genes Dev., 16, 6, 10.1101/gad.947102

Jaenisch, 2003, Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals, Nat. Genet., 33, 245, 10.1038/ng1089

Li, 1992, Targeted mutation of the DNA methyltransferase gene results in embryonic lethality, Cell, 69, 915, 10.1016/0092-8674(92)90611-F

Ferguson-Smith, 2001, Imprinting and the epigenetic asymmetry between parental genomes, Science, 293, 1086, 10.1126/science.1064020

Reik, 2001, Genomic imprinting: parental influence on the genome, Nat. Rev. Genet., 2, 21, 10.1038/35047554

Walsh, 1999, Cytosine methylation and mammalian development, Genes Dev., 13, 26, 10.1101/gad.13.1.26

Bird, 1978, Use of restriction enzymes to study eukaryotic DNA methylation: II. The symmetry of methylated sites supports semi-conservative copying of the methylation pattern, J. Mol. Biol., 118, 49, 10.1016/0022-2836(78)90243-7

Gruenbaum, 1981, Methylation of CpG sequences in eukaryotic DNA, FEBS Lett., 124, 67, 10.1016/0014-5793(81)80055-5

Bird, 1986, CpG-rich islands and the function of DNA methylation, Nature, 321, 209, 10.1038/321209a0

Gardiner-Garden, 1987, CpG islands in vertebrate genomes, J. Mol. Biol., 196, 261, 10.1016/0022-2836(87)90689-9

Takai, 2002, Comprehensive analysis of CpG islands in human chromosomes 21 and 22, Proc. Natl. Acad. Sci. USA, 99, 3740, 10.1073/pnas.052410099

Jones, 2002, The fundamental role of epigenetic events in cancer, Nat. Rev. Genet., 3, 415, 10.1038/nrg816

Cross, 1994, Purification of CpG islands using a methylated DNA binding column, Nat. Genet., 6, 236, 10.1038/ng0394-236

Heisler, 2005, CpG Island microarray probe sequences derived from a physical library are representative of CpG Islands annotated on the human genome, Nucleic Acids Res., 33, 2952, 10.1093/nar/gki582

Jones, 2007, The epigenomics of cancer, Cell, 128, 683, 10.1016/j.cell.2007.01.029

Esteller, 2007, Cancer epigenomics: DNA methylomes and histone-modification maps, Nat. Rev. Genet., 8, 286, 10.1038/nrg2005

He, 2008, MethyCancer: the database of human DNA methylation and cancer, Nucleic Acids Res., 36, D836, 10.1093/nar/gkm730

Lopez, 1994, Numt, a recent transfer and tandem amplification of mitochondrial DNA to the nuclear genome of the domestic cat, J. Mol. Evol., 39, 174, 10.1007/BF00163806

Richly, 2004, NUMTs in sequenced eukaryotic genomes, Mol. Biol. Evol., 21, 1081, 10.1093/molbev/msh110

Xie, 2007, Mitochondrial regulation of cancer associated nuclear DNA methylation, Biochem. Biophys. Res. Commun., 364, 656, 10.1016/j.bbrc.2007.10.047

Smiraglia, 2008, A novel role for mitochondria in regulating epigenetic modification in the nucleus, Cancer Biol. Ther., 7, 1182, 10.4161/cbt.7.8.6215

Cross, 1999, Isolation of CpG islands from large genomic clones, Nucleic Acids Res., 27, 2099, 10.1093/nar/27.10.2099

Altschul, 1990, Basic local alignment search tool, J. Mol. Biol., 215, 403, 10.1016/S0022-2836(05)80360-2

Takai, 2003, The CpG island searcher: a new WWW resource, In Silico Biol., 3, 235

Tourmen, 2002, Structure and chromosomal distribution of human mitochondrial pseudogenes, Genomics, 80, 71, 10.1006/geno.2002.6798

Cedar, 2009, Linking DNA methylation and histone modification: patterns and paradigms, Nat. Rev. Genet., 10, 295, 10.1038/nrg2540

Maekawa, 2004, Methylation of mitochondrial DNA is not a useful marker for cancer detection, Clin. Chem., 50, 1480, 10.1373/clinchem.2004.035139

Thompson, 2002, Multiple Sequence Alignment using ClustalW and ClustalX, 10.1002/0471250953.bi0203s00

Kumar, 2004, MEGA3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment, Brief. Bioinform., 5, 150, 10.1093/bib/5.2.150

Thông tin
Thông tin xuất bản

Genomics, Proteomics & Bioinformatics

Tập 8

81-91

Thông tin tác giả