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Selective Whole-Genome Amplification Is a Robust Method That Enables Scalable Whole-Genome Sequencing of Plasmodium vivax from Unprocessed Clinical Samples.

Cowell AN, Loy DE, Sundararaman SA, Valdivia H, Fisch K, Lescano AG, Baldeviano GC, Durand S, Gerbasi V, Sutherland CJ, Nolder D, Vinetz JM, Hahn BH, Winzeler EA.

MBio. 2017 Feb 7;8(1). pii: e02257-16. doi: 10.1128/mBio.02257-16.


Expression and purification of the modification-dependent restriction enzyme BisI and its homologous enzymes.

Xu SY, Klein P, Degtyarev SKh, Roberts RJ.

Sci Rep. 2016 Jun 29;6:28579. doi: 10.1038/srep28579.


An epigenetic switch regulates de novo DNA methylation at a subset of pluripotency gene enhancers during embryonic stem cell differentiation.

Petell CJ, Alabdi L, He M, San Miguel P, Rose R, Gowher H.

Nucleic Acids Res. 2016 Sep 19;44(16):7605-17. doi: 10.1093/nar/gkw426.


DNA Methylation Analysis: Choosing the Right Method.

Kurdyukov S, Bullock M.

Biology (Basel). 2016 Jan 6;5(1). pii: E3. doi: 10.3390/biology5010003. Review.


MethylRAD: a simple and scalable method for genome-wide DNA methylation profiling using methylation-dependent restriction enzymes.

Wang S, Lv J, Zhang L, Dou J, Sun Y, Li X, Fu X, Dou H, Mao J, Hu X, Bao Z.

Open Biol. 2015 Nov;5(11). pii: 150130. doi: 10.1098/rsob.150130.


The Mechanisms of Generation, Recognition, and Erasure of DNA 5-Methylcytosine and Thymine Oxidations.

Hashimoto H, Zhang X, Vertino PM, Cheng X.

J Biol Chem. 2015 Aug 21;290(34):20723-33. doi: 10.1074/jbc.R115.656884. Review.


Florigen-Encoding Genes of Day-Neutral and Photoperiod-Sensitive Maize Are Regulated by Different Chromatin Modifications at the Floral Transition.

Mascheretti I, Turner K, Brivio RS, Hand A, Colasanti J, Rossi V.

Plant Physiol. 2015 Aug;168(4):1351-63. doi: 10.1104/pp.15.00535.


Structure-guided sequence specificity engineering of the modification-dependent restriction endonuclease LpnPI.

Sasnauskas G, ZagorskaitÄ— E, KauneckaitÄ— K, Tamulaitiene G, Siksnys V.

Nucleic Acids Res. 2015 Jul 13;43(12):6144-55. doi: 10.1093/nar/gkv548.


A simple method for semi-random DNA amplicon fragmentation using the methylation-dependent restriction enzyme MspJI.

Shinozuka H, Cogan NO, Shinozuka M, Marshall A, Kay P, Lin YH, Spangenberg GC, Forster JW.

BMC Biotechnol. 2015 Apr 11;15:25. doi: 10.1186/s12896-015-0139-7.


Modification-dependent restriction endonuclease, MspJI, flips 5-methylcytosine out of the DNA helix.

Horton JR, Wang H, Mabuchi MY, Zhang X, Roberts RJ, Zheng Y, Wilson GG, Cheng X.

Nucleic Acids Res. 2014 Oct 29;42(19):12092-101. doi: 10.1093/nar/gku871.


Structural basis for the substrate selectivity of PvuRts1I, a 5-hydroxymethylcytosine DNA restriction endonuclease.

Shao C, Wang C, Zang J.

Acta Crystallogr D Biol Crystallogr. 2014 Sep;70(Pt 9):2477-86. doi: 10.1107/S139900471401606X.


Chemical methods for decoding cytosine modifications in DNA.

Booth MJ, Raiber EA, Balasubramanian S.

Chem Rev. 2015 Mar 25;115(6):2240-54. doi: 10.1021/cr5002904. Review. No abstract available.


Structural basis of the methylation specificity of R.DpnI.

Mierzejewska K, Siwek W, Czapinska H, Kaus-Drobek M, Radlinska M, Skowronek K, Bujnicki JM, Dadlez M, Bochtler M.

Nucleic Acids Res. 2014 Jul;42(13):8745-54. doi: 10.1093/nar/gku546.


Structure of 5-hydroxymethylcytosine-specific restriction enzyme, AbaSI, in complex with DNA.

Horton JR, Borgaro JG, Griggs RM, Quimby A, Guan S, Zhang X, Wilson GG, Zheng Y, Zhu Z, Cheng X.

Nucleic Acids Res. 2014 Jul;42(12):7947-59. doi: 10.1093/nar/gku497.


Expanded genetic codes in next generation sequencing enable decontamination and mitochondrial enrichment.

McKernan KJ, Spangler J, Zhang L, Tadigotla V, McLaughlin S, Warner J, Zare A, Boles RG.

PLoS One. 2014 May 2;9(5):e96492. doi: 10.1371/journal.pone.0096492.


Structure and mutagenesis of the DNA modification-dependent restriction endonuclease AspBHI.

Horton JR, Nugent RL, Li A, Mabuchi MY, Fomenkov A, Cohen-Karni D, Griggs RM, Zhang X, Wilson GG, Zheng Y, Xu SY, Cheng X.

Sci Rep. 2014 Mar 7;4:4246. doi: 10.1038/srep04246.


The other face of restriction: modification-dependent enzymes.

Loenen WA, Raleigh EA.

Nucleic Acids Res. 2014 Jan;42(1):56-69. doi: 10.1093/nar/gkt747. Review.


Interindividual Variability in Stress Susceptibility: A Role for Epigenetic Mechanisms in PTSD.

Zovkic IB, Meadows JP, Kaas GA, Sweatt JD.

Front Psychiatry. 2013 Jun 26;4:60. doi: 10.3389/fpsyt.2013.00060.


High-throughput sequencing of methylated cytosine enriched by modification-dependent restriction endonuclease MspJI.

Huang X, Lu H, Wang JW, Xu L, Liu S, Sun J, Gao F.

BMC Genet. 2013 Jun 18;14:56. doi: 10.1186/1471-2156-14-56.


The MASTER (methylation-assisted tailorable ends rational) ligation method for seamless DNA assembly.

Chen WH, Qin ZJ, Wang J, Zhao GP.

Nucleic Acids Res. 2013 Apr;41(8):e93. doi: 10.1093/nar/gkt122.

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