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Items: 1 to 20 of 37

1.

Complete genome sequence of the halophilic and highly halotolerant Chromohalobacter salexigens type strain (1H11(T)).

Copeland A, O'Connor K, Lucas S, Lapidus A, Berry KW, Detter JC, Del Rio TG, Hammon N, Dalin E, Tice H, Pitluck S, Bruce D, Goodwin L, Han C, Tapia R, Saunders E, Schmutz J, Brettin T, Larimer F, Land M, Hauser L, Vargas C, Nieto JJ, Kyrpides NC, Ivanova N, Göker M, Klenk HP, Csonka LN, Woyke T.

Stand Genomic Sci. 2011 Dec 31;5(3):379-88. doi: 10.4056/sigs.2285059. Epub 2011 Dec 30.

2.

Going beyond five bases in DNA sequencing.

Korlach J, Turner SW.

Curr Opin Struct Biol. 2012 Jun;22(3):251-61. doi: 10.1016/j.sbi.2012.04.002. Epub 2012 May 9. Review.

PMID:
22575758
3.

Characterization of DNA methyltransferase specificities using single-molecule, real-time DNA sequencing.

Clark TA, Murray IA, Morgan RD, Kislyuk AO, Spittle KE, Boitano M, Fomenkov A, Roberts RJ, Korlach J.

Nucleic Acids Res. 2012 Feb;40(4):e29. doi: 10.1093/nar/gkr1146. Epub 2011 Dec 7.

4.

Database resources of the National Center for Biotechnology Information.

Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Federhen S, Feolo M, Fingerman IM, Geer LY, Helmberg W, Kapustin Y, Krasnov S, Landsman D, Lipman DJ, Lu Z, Madden TL, Madej T, Maglott DR, Marchler-Bauer A, Miller V, Karsch-Mizrachi I, Ostell J, Panchenko A, Phan L, Pruitt KD, Schuler GD, Sequeira E, Sherry ST, Shumway M, Sirotkin K, Slotta D, Souvorov A, Starchenko G, Tatusova TA, Wagner L, Wang Y, Wilbur WJ, Yaschenko E, Ye J.

Nucleic Acids Res. 2012 Jan;40(Database issue):D13-25. doi: 10.1093/nar/gkr1184. Epub 2011 Dec 2.

5.

Characterization of type II and III restriction-modification systems from Bacillus cereus strains ATCC 10987 and ATCC 14579.

Xu SY, Nugent RL, Kasamkattil J, Fomenkov A, Gupta Y, Aggarwal A, Wang X, Li Z, Zheng Y, Morgan R.

J Bacteriol. 2012 Jan;194(1):49-60. doi: 10.1128/JB.06248-11. Epub 2011 Oct 28.

6.

Merging taxonomy with ecological population prediction in a case study of Vibrionaceae.

Preheim SP, Timberlake S, Polz MF.

Appl Environ Microbiol. 2011 Oct;77(20):7195-206. doi: 10.1128/AEM.00665-11. Epub 2011 Aug 26.

7.

Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine.

Ito S, Shen L, Dai Q, Wu SC, Collins LB, Swenberg JA, He C, Zhang Y.

Science. 2011 Sep 2;333(6047):1300-3. doi: 10.1126/science.1210597. Epub 2011 Jul 21.

8.

MEME-ChIP: motif analysis of large DNA datasets.

Machanick P, Bailey TL.

Bioinformatics. 2011 Jun 15;27(12):1696-7. doi: 10.1093/bioinformatics/btr189. Epub 2011 Apr 12.

9.

COMBREX: a project to accelerate the functional annotation of prokaryotic genomes.

Roberts RJ, Chang YC, Hu Z, Rachlin JN, Anton BP, Pokrzywa RM, Choi HP, Faller LL, Guleria J, Housman G, Klitgord N, Mazumdar V, McGettrick MG, Osmani L, Swaminathan R, Tao KR, Letovsky S, Vitkup D, Segrè D, Salzberg SL, Delisi C, Steffen M, Kasif S.

Nucleic Acids Res. 2011 Jan;39(Database issue):D11-4. doi: 10.1093/nar/gkq1168. Epub 2010 Nov 21.

10.

A flexible and efficient template format for circular consensus sequencing and SNP detection.

Travers KJ, Chin CS, Rank DR, Eid JS, Turner SW.

Nucleic Acids Res. 2010 Aug;38(15):e159. doi: 10.1093/nar/gkq543. Epub 2010 Jun 22.

11.

Direct detection of DNA methylation during single-molecule, real-time sequencing.

Flusberg BA, Webster DR, Lee JH, Travers KJ, Olivares EC, Clark TA, Korlach J, Turner SW.

Nat Methods. 2010 Jun;7(6):461-5. doi: 10.1038/nmeth.1459. Epub 2010 May 9.

12.

Engineering clostridium strain to accept unmethylated DNA.

Dong H, Zhang Y, Dai Z, Li Y.

PLoS One. 2010 Feb 9;5(2):e9038. doi: 10.1371/journal.pone.0009038.

13.

The phasevarion: phase variation of type III DNA methyltransferases controls coordinated switching in multiple genes.

Srikhanta YN, Fox KL, Jennings MP.

Nat Rev Microbiol. 2010 Mar;8(3):196-206. doi: 10.1038/nrmicro2283. Epub 2010 Feb 8. Review.

PMID:
20140025
14.

REBASE--a database for DNA restriction and modification: enzymes, genes and genomes.

Roberts RJ, Vincze T, Posfai J, Macelis D.

Nucleic Acids Res. 2010 Jan;38(Database issue):D234-6. doi: 10.1093/nar/gkp874. Epub 2009 Oct 21.

15.

Rational engineering of type II restriction endonuclease DNA binding and cleavage specificity.

Morgan RD, Luyten YA.

Nucleic Acids Res. 2009 Aug;37(15):5222-33. doi: 10.1093/nar/gkp535. Epub 2009 Jun 30.

16.

The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain.

Kriaucionis S, Heintz N.

Science. 2009 May 15;324(5929):929-30. doi: 10.1126/science.1169786. Epub 2009 Apr 16.

17.

Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1.

Tahiliani M, Koh KP, Shen Y, Pastor WA, Bandukwala H, Brudno Y, Agarwal S, Iyer LM, Liu DR, Aravind L, Rao A.

Science. 2009 May 15;324(5929):930-5. doi: 10.1126/science.1170116. Epub 2009 Apr 16.

18.

Enzymatic assembly of DNA molecules up to several hundred kilobases.

Gibson DG, Young L, Chuang RY, Venter JC, Hutchison CA 3rd, Smith HO.

Nat Methods. 2009 May;6(5):343-5. doi: 10.1038/nmeth.1318. Epub 2009 Apr 12.

PMID:
19363495
19.

Roles of DNA adenine methylation in host-pathogen interactions: mismatch repair, transcriptional regulation, and more.

Marinus MG, Casadesus J.

FEMS Microbiol Rev. 2009 May;33(3):488-503. doi: 10.1111/j.1574-6976.2008.00159.x. Epub 2009 Jan 19. Review.

20.

Real-time DNA sequencing from single polymerase molecules.

Eid J, Fehr A, Gray J, Luong K, Lyle J, Otto G, Peluso P, Rank D, Baybayan P, Bettman B, Bibillo A, Bjornson K, Chaudhuri B, Christians F, Cicero R, Clark S, Dalal R, Dewinter A, Dixon J, Foquet M, Gaertner A, Hardenbol P, Heiner C, Hester K, Holden D, Kearns G, Kong X, Kuse R, Lacroix Y, Lin S, Lundquist P, Ma C, Marks P, Maxham M, Murphy D, Park I, Pham T, Phillips M, Roy J, Sebra R, Shen G, Sorenson J, Tomaney A, Travers K, Trulson M, Vieceli J, Wegener J, Wu D, Yang A, Zaccarin D, Zhao P, Zhong F, Korlach J, Turner S.

Science. 2009 Jan 2;323(5910):133-8. doi: 10.1126/science.1162986. Epub 2008 Nov 20.

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