Searching journal content for articles similar to Ponger et al. 11 (11): 1854.

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  1. LETTER: A Comprehensive Analysis of Allelic Methylation Status of CpG Islands on Human Chromosome 21q
    • Yoichi Yamada,
    • Hidemi Watanabe,
    • Fumihito Miura,
    • Hidenobu Soejima,
    • Michiko Uchiyama,
    • Tsuyoshi Iwasaka,
    • Tsunehiro Mukai,
    • Yoshiyuki Sakaki,
    • and Takashi Ito
    Genome Res. February 2004 14: 247-266; doi:10.1101/gr.1351604
    ...A Comprehensive Analysis of Allelic Methylation Status of CpG Islands on Human Chromosome 21q Yoichi Yamada 1 , 2 , Hidemi Watanabe 3 , 4 , Fumihito Miura 1 , 2 , Hidenobu Soejima 5 , Michiko Uchiyama 6 , Tsuyoshi Iwasaka 6...
  2. LETTER: CpG methylation is targeted to transcription units in an invertebrate genome
    • Miho M. Suzuki,
    • Alastair R.W. Kerr,
    • Dina De Sousa,
    • and Adrian Bird
    Genome Res. May 2007 17: 625-631; Published in Advance April 9, 2007, doi:10.1101/gr.6163007
    ...) Determinants of CpG islands: expression in early embryo and isochore structure . Genome Res. 11 : 1854 – 1860 . ↵ Rabinowicz, P.D. , Palmer, L.E. , May, B.P. , Hemann, M.T. , Lowe, S.W. , McCombie, W.R. , Martienssen, R.A. ( 2003 ) Genes and transposons are differentially methylated in plants...
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  3. Research: DNA-methylation effect on cotranscriptional splicing is dependent on GC architecture of the exon–intron structure
    • Sahar Gelfman,
    • Noa Cohen,
    • Ahuvi Yearim,
    • and Gil Ast
    Genome Res. May 2013 23: 789-799; Published in Advance March 15, 2013, doi:10.1101/gr.143503.112
    ...between exon and introns, the mCpG/ CpG level drops significantly in the intronic regions close to the splice sites. We then extended our analysis to look at the full human exome through ‘‘GC-content goggles’’ in the form of isochore maps (Costantini et al. 2006) and found the same patterns of epigenetic...
  4. Research: Nucleotide composition-linked divergence of vertebrate core promoter architecture
    • Simon J. van Heeringen,
    • Waseem Akhtar,
    • Ulrike G. Jacobi,
    • Robert C. Akkers,
    • Yutaka Suzuki,
    • and Gert Jan C. Veenstra
    Genome Res. March 2011 21: 410-421; Published in Advance January 10, 2011, doi:10.1101/gr.111724.110
    ...description and parameters, see Methods). We first determined the CpG content of the promoters and divided them into CpG-rich and non-CpG subsets according to the overlap of the core promoter (#2;60 to +40 relative to the TSS), with CpG islands as predicted according to the method of Gardiner...
  5. Methods: Comparative isoschizomer profiling of cytosine methylation: The HELP assay
    • Batbayar Khulan,
    • Reid F. Thompson,
    • Kenny Ye,
    • Melissa J. Fazzari,
    • Masako Suzuki,
    • Edyta Stasiek,
    • Maria E. Figueroa,
    • Jacob L. Glass,
    • Quan Chen,
    • Cristina Montagna,
    • Eli Hatchwell,
    • Rebecca R. Selzer,
    • Todd A. Richmond,
    • Roland D. Green,
    • Ari Melnick,
    • and John M. Greally
    Genome Res. August 2006 16: 1046-1055; Published in Advance June 29, 2006, doi:10.1101/gr.5273806
    ...of hypomethylated loci, usually but not exclusively at promoters and CpG islands. Intergenomic comparison found marked differences in cytosine methylation between spermatogenic and brain cells, identifying 223 new candidate tissue-specific differentially methylated regions (T-DMRs). Bisulfite pyrosequencing...
  6. Methods: Dragon Gene Start Finder: An Advanced System for Finding Approximate Locations of the Start of Gene Transcriptional Units
    • Vladimir B. Bajic and
    • Seng Hong Seah
    Genome Res. August 2003 13: 1923-1929; Published in Advance July 17, 2003, doi:10.1101/gr.869803
    ...., and Mouchiroud, D. 2001 . Determination of CpG islands: Expression in early embryo and isochore structure. Genome Res. 11 : 1854 -1860. ↵ Prestridge, D.S. 2000 . Computer software for eukaryotic promoter analysis. Review. Methods Mol. Biol. 130 : 265 -295. ↵ Scherf, M., Klingenhoff, A., and Werner, T. 2000...
  7. LETTER: Neutral Substitutions Occur at a Faster Rate in Exons Than in Noncoding DNA in Primate Genomes
    • Sankar Subramanian and
    • Sudhir Kumar
    Genome Res. May 1, 2003 13: 838-844; doi:10.1101/gr.1152803
    .... Genetics 156 : 297 – 304 . ↵ Nei M. , Kumar S. ( 2000 ) Molecular evolution and phylogenetics. ( Oxford University Press , New York, NY ). ↵ Ponger L. , Duret L. , Mouchiroud D. ( 2001 ) Determinants of CpG islands: Expression in early embryo and isochore structure. Genome Res. 11 : 1854 – 1860...
  8. LETTER: Comparative Sequence Analysis of the X-Inactivation Center Region in Mouse, Human, and Bovine
    • Corinne Chureau,
    • Marine Prissette,
    • Agnès Bourdet,
    • Valérie Barbe,
    • Laurence Cattolico,
    • Louis Jones,
    • André Eggen,
    • Philip Avner,
    • and Laurent Duret
    Genome Res. June 1, 2002 12: 894-908; Published in Advance November 21, 2000, doi:10.1101/gr.152902
    ..., including the Xist gene. These comparisons have revealed conserved genes, both coding and noncoding, conserved CpG islands and, more surprisingly, conserved pseudogenes. The distribution of repeated elements, especially LINE repeats, in the mouse Xic region when compared to the rest of the genome does...
  9. LETTER: Characterization and predictive discovery of evolutionarily conserved mammalian alternative promoters
    • Daehyun Baek,
    • Colleen Davis,
    • Brent Ewing,
    • David Gordon,
    • and Phil Green
    Genome Res. February 2007 17: 145-155; Published in Advance January 8, 2007, doi:10.1101/gr.5872707
    .... ( 1933 ) On the problem of the most efficient tests of statistical hypotheses . Philos. Trans. R. Soc. Lond. Ser. A 231 : 289 – 337 . ↵ Ponger, L. , Duret, L. , Mouchiroud, D. ( 2001 ) Determinants of CpG islands: Expression in early embryo and isochore structure . Genome Res. 11 : 1854 – 1860...
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  10. REPORT: Eleven Densely Clustered Genes, Six of them Novel, in 176 kb of Mouse t-complex DNA
    • George J. Kargul,
    • Ramaiah Nagaraja,
    • Tokihiko Shimada,
    • Marija J. Grahovac,
    • Meng K. Lim,
    • Hiroshi Nakashima,
    • Paul Waeltz,
    • Peter Ma,
    • Ellson Chen,
    • David Schlessinger,
    • and Minoru S.H. Ko
    Genome Res. July 1, 2000 10: 916-923; doi:10.1101/gr.10.7.916
    ...content of genes in the region ( Saccone et al. 1997 ). This notion is supported by the presence of eight putative CpG islands as well as by the analysis of EST/gene content (Fig. 1 ). Predicted genes that do not have significant matches to known genes are named t -complex expressed genes ( Tce...
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