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Items: 1 to 20 of 79

1.

Statistical modelling of CG interdistance across multiple organisms.

A M, Valle I FD, G C, D R.

BMC Bioinformatics. 2018 Oct 15;19(Suppl 10):355. doi: 10.1186/s12859-018-2303-2.

2.

Characterization of DNA methylation as a function of biological complexity via dinucleotide inter-distances.

Paci G, Cristadoro G, Monti B, Lenci M, Degli Esposti M, Castellani GC, Remondini D.

Philos Trans A Math Phys Eng Sci. 2016 Mar 13;374(2063). pii: 20150227. doi: 10.1098/rsta.2015.0227.

PMID:
26857665
3.

Methylated Cytosines Mutate to Transcription Factor Binding Sites that Drive Tetrapod Evolution.

He X, Tillo D, Vierstra J, Syed KS, Deng C, Ray GJ, Stamatoyannopoulos J, FitzGerald PC, Vinson C.

Genome Biol Evol. 2015 Oct 27;7(11):3155-69. doi: 10.1093/gbe/evv205.

4.

Human nucleosomes: special role of CG dinucleotides and Alu-nucleosomes.

Bettecken T, Frenkel ZM, Trifonov EN.

BMC Genomics. 2011 May 31;12(1):273. doi: 10.1186/1471-2164-12-273.

5.

Predicting DNA Methylation State of CpG Dinucleotide Using Genome Topological Features and Deep Networks.

Wang Y, Liu T, Xu D, Shi H, Zhang C, Mo YY, Wang Z.

Sci Rep. 2016 Jan 22;6:19598. doi: 10.1038/srep19598.

6.

A pipeline for the quantitative analysis of CG dinucleotide methylation using mass spectrometry.

Thompson RF, Suzuki M, Lau KW, Greally JM.

Bioinformatics. 2009 Sep 1;25(17):2164-70. doi: 10.1093/bioinformatics/btp382. Epub 2009 Jun 26.

7.

GlaI digestion of mouse gamma-satellite DNA: study of primary structure and ACGT sites methylation.

Abdurashitov MA, Chernukhin VA, Gonchar DA, Degtyarev SKh.

BMC Genomics. 2009 Jul 17;10:322. doi: 10.1186/1471-2164-10-322.

8.

CpG dinucleotide frequencies reveal the role of host methylation capabilities in parvovirus evolution.

Upadhyay M, Samal J, Kandpal M, Vasaikar S, Biswas B, Gomes J, Vivekanandan P.

J Virol. 2013 Dec;87(24):13816-24. doi: 10.1128/JVI.02515-13. Epub 2013 Oct 9.

9.

CG dinucleotide clustering is a species-specific property of the genome.

Glass JL, Thompson RF, Khulan B, Figueroa ME, Olivier EN, Oakley EJ, Van Zant G, Bouhassira EE, Melnick A, Golden A, Fazzari MJ, Greally JM.

Nucleic Acids Res. 2007;35(20):6798-807. Epub 2007 Oct 10.

10.

[PCR-based evaluation of sequence specificity of DNA fragmentation by ultrasound].

Garafutdinov RR, Galimova AA, Sakhabutdinova AR, Chemeris AV.

Mol Biol (Mosk). 2016 Mar-Apr;50(2):272-8. doi: 10.7868/S0026898416020051. Russian.

11.

Genomic CG dinucleotide deficiencies associated with transposable element hypermutation in Basidiomycetes, some lower fungi, a moss and a clubmoss.

Clutterbuck AJ.

Fungal Genet Biol. 2017 Jul;104:16-28. doi: 10.1016/j.fgb.2017.04.005. Epub 2017 Apr 21.

PMID:
28438577
12.

Guanine quadruplex DNA structure restricts methylation of CpG dinucleotides genome-wide.

Halder R, Halder K, Sharma P, Garg G, Sengupta S, Chowdhury S.

Mol Biosyst. 2010 Dec;6(12):2439-47. doi: 10.1039/c0mb00009d. Epub 2010 Sep 29.

PMID:
20877913
13.

Complexity measures for the evolutionary categorization of organisms.

Provata A, Nicolis C, Nicolis G.

Comput Biol Chem. 2014 Dec;53 Pt A:5-14. doi: 10.1016/j.compbiolchem.2014.08.004. Epub 2014 Aug 28.

PMID:
25216557
14.

Biochemical analysis of histone deacetylase-independent transcriptional repression by MeCP2.

Theisen JW, Gucwa JS, Yusufzai T, Khuong MT, Kadonaga JT.

J Biol Chem. 2013 Mar 8;288(10):7096-104. doi: 10.1074/jbc.M112.438697. Epub 2013 Jan 24.

15.

Distinct Trends of DNA Methylation Patterning in the Innate and Adaptive Immune Systems.

Schuyler RP, Merkel A, Raineri E, Altucci L, Vellenga E, Martens JHA, Pourfarzad F, Kuijpers TW, Burden F, Farrow S, Downes K, Ouwehand WH, Clarke L, Datta A, Lowy E, Flicek P, Frontini M, Stunnenberg HG, Martín-Subero JI, Gut I, Heath S.

Cell Rep. 2016 Nov 15;17(8):2101-2111. doi: 10.1016/j.celrep.2016.10.054.

16.

Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions.

Bastos CA, Afreixo V, Pinho AJ, Garcia SP, Rodrigues JM, Ferreira PJ.

J Integr Bioinform. 2011 Sep 15;8(3):172. doi: 10.2390/biecoll-jib-2011-172.

PMID:
21926435
17.

Visible periodicity of strong nucleosome DNA sequences.

Salih B, Tripathi V, Trifonov EN.

J Biomol Struct Dyn. 2015;33(1):1-9. doi: 10.1080/07391102.2013.855143. Epub 2013 Nov 22.

PMID:
24266748
18.

The tendency to recreate ancestral CG dinucleotides in the human genome.

Li M, Chen SS.

BMC Evol Biol. 2011 Jan 5;11:3. doi: 10.1186/1471-2148-11-3.

19.

Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).

Foffi G, Pastore A, Piazza F, Temussi PA.

Phys Biol. 2013 Aug;10(4):040301. Epub 2013 Aug 2.

PMID:
23912807
20.

Cytosine methylation effects on the repair of O6-methylguanines within CG dinucleotides.

Guza R, Ma L, Fang Q, Pegg AE, Tretyakova N.

J Biol Chem. 2009 Aug 21;284(34):22601-10. doi: 10.1074/jbc.M109.000919. Epub 2009 Jun 15.

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