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Items: 43

1.

SMRT-Cappable-seq reveals complex operon variants in bacteria.

Yan B, Boitano M, Clark TA, Ettwiller L.

Nat Commun. 2018 Sep 10;9(1):3676. doi: 10.1038/s41467-018-05997-6.

2.

Corrigendum: Discovery and genotyping of structural variation from long-read haploid genome sequence data.

Huddleston J, Chaisson MJP, Steinberg KM, Warren W, Hoekzema K, Gordon D, Graves-Lindsay TA, Munson KM, Kronenberg ZN, Vives L, Peluso P, Boitano M, Chin CS, Korlach J, Wilson RK, Eichler EE.

Genome Res. 2018 Jan;28(1):144. doi: 10.1101/gr.233007.117. No abstract available.

3.

Methylomic and phenotypic analysis of the ModH5 phasevarion of Helicobacter pylori.

Srikhanta YN, Gorrell RJ, Power PM, Tsyganov K, Boitano M, Clark TA, Korlach J, Hartland EL, Jennings MP, Kwok T.

Sci Rep. 2017 Nov 23;7(1):16140. doi: 10.1038/s41598-017-15721-x.

4.

Complete Genome Sequence of Moraxella catarrhalis Strain CCRI-195ME, Isolated from the Middle Ear.

Tan A, Blakeway LV, Bakaletz LO, Boitano M, Clark TA, Korlach J, Jennings MP, Peak IR, Seib KL.

Genome Announc. 2017 May 25;5(21). pii: e00384-17. doi: 10.1128/genomeA.00384-17.

5.

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly.

Schneider VA, Graves-Lindsay T, Howe K, Bouk N, Chen HC, Kitts PA, Murphy TD, Pruitt KD, Thibaud-Nissen F, Albracht D, Fulton RS, Kremitzki M, Magrini V, Markovic C, McGrath S, Steinberg KM, Auger K, Chow W, Collins J, Harden G, Hubbard T, Pelan S, Simpson JT, Threadgold G, Torrance J, Wood JM, Clarke L, Koren S, Boitano M, Peluso P, Li H, Chin CS, Phillippy AM, Durbin R, Wilson RK, Flicek P, Eichler EE, Church DM.

Genome Res. 2017 May;27(5):849-864. doi: 10.1101/gr.213611.116. Epub 2017 Apr 10.

6.

Correction: Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding.

Vij S, Kuhl H, Kuznetsova IS, Komissarov A, Yurchenko AA, Van Heusden P, Singh S, Thevasagayam NM, Prakki SR, Purushothaman K, Saju JM, Jiang J, Mbandi SK, Jonas M, Hin Yan Tong A, Mwangi S, Lau D, Ngoh SY, Liew WC, Shen X, Hon LS, Drake JP, Boitano M, Hall R, Chin CS, Lachumanan R, Korlach J, Trifonov V, Kabilov M, Tupikin A, Green D, Moxon S, Garvin T, Sedlazeck FJ, Vurture GW, Gopalapillai G, Katneni VK, Noble TH, Scaria V, Sivasubbu S, Jerry DR, O'Brien SJ, Schatz MC, Dalmay T, Turner SW, Lok S, Christoffels A, Orbán L.

PLoS Genet. 2016 Dec 9;12(12):e1006500. doi: 10.1371/journal.pgen.1006500. eCollection 2016 Dec.

7.

Discovery and genotyping of structural variation from long-read haploid genome sequence data.

Huddleston J, Chaisson MJP, Steinberg KM, Warren W, Hoekzema K, Gordon D, Graves-Lindsay TA, Munson KM, Kronenberg ZN, Vives L, Peluso P, Boitano M, Chin CS, Korlach J, Wilson RK, Eichler EE.

Genome Res. 2017 May;27(5):677-685. doi: 10.1101/gr.214007.116. Epub 2016 Nov 28. Erratum in: Genome Res. 2018 Jan;28(1):144.

8.

Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding.

Vij S, Kuhl H, Kuznetsova IS, Komissarov A, Yurchenko AA, Van Heusden P, Singh S, Thevasagayam NM, Prakki SR, Purushothaman K, Saju JM, Jiang J, Mbandi SK, Jonas M, Hin Yan Tong A, Mwangi S, Lau D, Ngoh SY, Liew WC, Shen X, Hon LS, Drake JP, Boitano M, Hall R, Chin CS, Lachumanan R, Korlach J, Trifonov V, Kabilov M, Tupikin A, Green D, Moxon S, Garvin T, Sedlazeck FJ, Vurture GW, Gopalapillai G, Kumar Katneni V, Noble TH, Scaria V, Sivasubbu S, Jerry DR, O'Brien SJ, Schatz MC, Dalmay T, Turner SW, Lok S, Christoffels A, Orbán L.

PLoS Genet. 2016 Apr 15;12(4):e1005954. doi: 10.1371/journal.pgen.1005954. eCollection 2016 Apr. Erratum in: PLoS Genet. 2016 Dec 9;12 (12 ):e1006500.

9.

Complete Genome Sequence of Streptomyces sp. Strain CCM_MD2014, Isolated from Topsoil in Woods Hole, Massachusetts.

Mariita RM, Bhatnagar S, Hanselmann K, Hossain MJ, Korlach J, Boitano M, Roberts RJ, Liles MR, Moss AG, Leadbetter JR, Newman DK, Dawson SC.

Genome Announc. 2015 Dec 31;3(6). pii: e01506-15. doi: 10.1128/genomeA.01506-15.

10.

Complete Genome Sequence of Curtobacterium sp. Strain MR_MD2014, Isolated from Topsoil in Woods Hole, Massachusetts.

Mariita RM, Bhatnagar S, Hanselmann K, Hossain MJ, Korlach J, Boitano M, Roberts RJ, Liles MR, Moss AG, Leadbetter JR, Newman DK, Dawson SC.

Genome Announc. 2015 Dec 31;3(6). pii: e01504-15. doi: 10.1128/genomeA.01504-15.

11.

A biphasic epigenetic switch controls immunoevasion, virulence and niche adaptation in non-typeable Haemophilus influenzae.

Atack JM, Srikhanta YN, Fox KL, Jurcisek JA, Brockman KL, Clark TA, Boitano M, Power PM, Jen FE, McEwan AG, Grimmond SM, Smith AL, Barenkamp SJ, Korlach J, Bakaletz LO, Jennings MP.

Nat Commun. 2015 Jul 28;6:7828. doi: 10.1038/ncomms8828.

12.

Complete Genome Sequence Analysis of Bacillus subtilis T30.

Xu SY, Boitano M, Clark TA, Vincze T, Fomenkov A, Kumar S, Too PH, Gonchar D, Degtyarev SK, Roberts RJ.

Genome Announc. 2015 May 7;3(3). pii: e00395-15. doi: 10.1128/genomeA.00395-15.

13.

Genome-wide methylation patterns in Salmonella enterica Subsp. enterica Serovars.

Pirone-Davies C, Hoffmann M, Roberts RJ, Muruvanda T, Timme RE, Strain E, Luo Y, Payne J, Luong K, Song Y, Tsai YC, Boitano M, Clark TA, Korlach J, Evans PS, Allard MW.

PLoS One. 2015 Apr 10;10(4):e0123639. doi: 10.1371/journal.pone.0123639. eCollection 2015.

14.

Specificity of the ModA11, ModA12 and ModD1 epigenetic regulator N(6)-adenine DNA methyltransferases of Neisseria meningitidis.

Seib KL, Jen FE, Tan A, Scott AL, Kumar R, Power PM, Chen LT, Wu HJ, Wang AH, Hill DM, Luyten YA, Morgan RD, Roberts RJ, Maiden MC, Boitano M, Clark TA, Korlach J, Rao DN, Jennings MP.

Nucleic Acids Res. 2015 Apr 30;43(8):4150-62. doi: 10.1093/nar/gkv219. Epub 2015 Apr 6.

15.

Defining the sequence requirements for the positioning of base J in DNA using SMRT sequencing.

Genest PA, Baugh L, Taipale A, Zhao W, Jan S, van Luenen HG, Korlach J, Clark T, Luong K, Boitano M, Turner S, Myler PJ, Borst P.

Nucleic Acids Res. 2015 Feb 27;43(4):2102-15. doi: 10.1093/nar/gkv095. Epub 2015 Feb 6.

16.

A comparative analysis of methylome profiles of Campylobacter jejuni sheep abortion isolate and gastroenteric strains using PacBio data.

Mou KT, Muppirala UK, Severin AJ, Clark TA, Boitano M, Plummer PJ.

Front Microbiol. 2015 Jan 14;5:782. doi: 10.3389/fmicb.2014.00782. eCollection 2014.

17.

Resolving the complexity of the human genome using single-molecule sequencing.

Chaisson MJ, Huddleston J, Dennis MY, Sudmant PH, Malig M, Hormozdiari F, Antonacci F, Surti U, Sandstrom R, Boitano M, Landolin JM, Stamatoyannopoulos JA, Hunkapiller MW, Korlach J, Eichler EE.

Nature. 2015 Jan 29;517(7536):608-11. doi: 10.1038/nature13907. Epub 2014 Nov 10.

18.

A random six-phase switch regulates pneumococcal virulence via global epigenetic changes.

Manso AS, Chai MH, Atack JM, Furi L, De Ste Croix M, Haigh R, Trappetti C, Ogunniyi AD, Shewell LK, Boitano M, Clark TA, Korlach J, Blades M, Mirkes E, Gorban AN, Paton JC, Jennings MP, Oggioni MR.

Nat Commun. 2014 Sep 30;5:5055. doi: 10.1038/ncomms6055.

19.

Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae.

Conlan S, Thomas PJ, Deming C, Park M, Lau AF, Dekker JP, Snitkin ES, Clark TA, Luong K, Song Y, Tsai YC, Boitano M, Dayal J, Brooks SY, Schmidt B, Young AC, Thomas JW, Bouffard GG, Blakesley RW; NISC Comparative Sequencing Program, Mullikin JC, Korlach J, Henderson DK, Frank KM, Palmore TN, Segre JA.

Sci Transl Med. 2014 Sep 17;6(254):254ra126. doi: 10.1126/scitranslmed.3009845.

20.

ModM DNA methyltransferase methylome analysis reveals a potential role for Moraxella catarrhalis phasevarions in otitis media.

Blakeway LV, Power PM, Jen FE, Worboys SR, Boitano M, Clark TA, Korlach J, Bakaletz LO, Jennings MP, Peak IR, Seib KL.

FASEB J. 2014 Dec;28(12):5197-207. doi: 10.1096/fj.14-256578. Epub 2014 Sep 2.

PMID:
25183669
21.

Whole-genome assembly of Klebsiella pneumoniae coproducing NDM-1 and OXA-232 carbapenemases using single-molecule, real-time sequencing.

Doi Y, Hazen TH, Boitano M, Tsai YC, Clark TA, Korlach J, Rasko DA.

Antimicrob Agents Chemother. 2014 Oct;58(10):5947-53. doi: 10.1128/AAC.03180-14. Epub 2014 Jul 28.

22.

Genomic mapping of phosphorothioates reveals partial modification of short consensus sequences.

Cao B, Chen C, DeMott MS, Cheng Q, Clark TA, Xiong X, Zheng X, Butty V, Levine SS, Yuan G, Boitano M, Luong K, Song Y, Zhou X, Deng Z, Turner SW, Korlach J, You D, Wang L, Chen S, Dedon PC.

Nat Commun. 2014 Jun 5;5:3951. doi: 10.1038/ncomms4951.

23.

Global methylation state at base-pair resolution of the Caulobacter genome throughout the cell cycle.

Kozdon JB, Melfi MD, Luong K, Clark TA, Boitano M, Wang S, Zhou B, Gonzalez D, Collier J, Turner SW, Korlach J, Shapiro L, McAdams HH.

Proc Natl Acad Sci U S A. 2013 Nov 26;110(48):E4658-67. doi: 10.1073/pnas.1319315110. Epub 2013 Nov 11.

24.

A prognostic model based on combining estrogen receptor expression and Ki-67 value after neoadjuvant chemotherapy predicts clinical outcome in locally advanced breast cancer: extension and analysis of a previously reported cohort of patients.

Miglietta L, Morabito F, Provinciali N, Canobbio L, Meszaros P, Naso C, Murialdo R, Boitano M, Salvi S, Ferrarini M.

Eur J Surg Oncol. 2013 Oct;39(10):1046-52. doi: 10.1016/j.ejso.2013.06.024. Epub 2013 Jul 26.

PMID:
23890870
25.

Enhanced 5-methylcytosine detection in single-molecule, real-time sequencing via Tet1 oxidation.

Clark TA, Lu X, Luong K, Dai Q, Boitano M, Turner SW, He C, Korlach J.

BMC Biol. 2013 Jan 22;11:4. doi: 10.1186/1741-7007-11-4.

26.

The methylomes of six bacteria.

Murray IA, Clark TA, Morgan RD, Boitano M, Anton BP, Luong K, Fomenkov A, Turner SW, Korlach J, Roberts RJ.

Nucleic Acids Res. 2012 Dec;40(22):11450-62. doi: 10.1093/nar/gks891. Epub 2012 Oct 2. Erratum in: Nucleic Acids Res. 2014 Apr;42(6):4140.

27.

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.

28.

Ipilimumab in pretreated patients with metastatic uveal melanoma: safety and clinical efficacy.

Danielli R, Ridolfi R, Chiarion-Sileni V, Queirolo P, Testori A, Plummer R, Boitano M, Calabrò L, Rossi CD, Giacomo AM, Ferrucci PF, Ridolfi L, Altomonte M, Miracco C, Balestrazzi A, Maio M.

Cancer Immunol Immunother. 2012 Jan;61(1):41-8. doi: 10.1007/s00262-011-1089-0. Epub 2011 Aug 11.

PMID:
21833591
29.

Improving the safety and effectiveness of parenteral nutrition: results of a quality improvement collaboration.

Boitano M, Bojak S, McCloskey S, McCaul DS, McDonough M.

Nutr Clin Pract. 2010 Dec;25(6):663-71. doi: 10.1177/0884533610385349.

PMID:
21139133
30.

Melanoma-associated fibroblasts modulate NK cell phenotype and antitumor cytotoxicity.

Balsamo M, Scordamaglia F, Pietra G, Manzini C, Cantoni C, Boitano M, Queirolo P, Vermi W, Facchetti F, Moretta A, Moretta L, Mingari MC, Vitale M.

Proc Natl Acad Sci U S A. 2009 Dec 8;106(49):20847-52. doi: 10.1073/pnas.0906481106. Epub 2009 Nov 23.

31.

Natural killer cells kill human melanoma cells with characteristics of cancer stem cells.

Pietra G, Manzini C, Vitale M, Balsamo M, Ognio E, Boitano M, Queirolo P, Moretta L, Mingari MC.

Int Immunol. 2009 Jul;21(7):793-801. doi: 10.1093/intimm/dxp047. Epub 2009 Jun 2.

PMID:
19491215
32.

A prospective study of punch biomechanics and cognitive function for amateur boxers.

Stojsih S, Boitano M, Wilhelm M, Bir C.

Br J Sports Med. 2010 Aug;44(10):725-30. doi: 10.1136/bjsm.2008.052845. Epub 2008 Nov 19.

PMID:
19019907
33.

Hypocaloric feeding of the critically ill.

Boitano M.

Nutr Clin Pract. 2006 Dec;21(6):617-22. Review.

PMID:
17119168
34.

Concussion in professional football: comparison with boxing head impacts--part 10.

Viano DC, Casson IR, Pellman EJ, Bir CA, Zhang L, Sherman DC, Boitano MA.

Neurosurgery. 2005 Dec;57(6):1154-72; discussion 1154-72.

PMID:
16331164
35.
36.

Subtalar Dislocations in Basketball Players.

Boitano MA.

Phys Sportsmed. 1992 Nov;20(11):59-67. doi: 10.1080/00913847.1992.11947522.

PMID:
29283809
37.

Driver Injuries in Auto Road Racing.

Boitano MA.

Phys Sportsmed. 1985 Aug;13(8):122-35. doi: 10.1080/00913847.1985.11708861.

PMID:
27442741
38.

Functional evaluation of the pes anserinus transfer by electromyography and gait analysis.

Perry J, Fox JM, Boitano MA, Skinner SR, Barnes LA, Cerny K.

J Bone Joint Surg Am. 1980 Sep;62(6):973-80.

PMID:
7430186
39.

Shotgun wounds of the abodomen: revisited.

Mandal AK, Boitano MA, Lundy LJ, Alexander JL.

Am Surg. 1979 Jan;45(1):5-10.

PMID:
426370
40.
41.
42.

Surgical treatment of low velocity gunshot wounds of the extremities: analysis of a two-year study.

Ashby ME, Boitano MA.

J Natl Med Assoc. 1976 Jul;68(4):289-93. No abstract available.

43.

Ninety-eight penetrating vascular injuries: a review of a two and one-half year experience.

Mandal AK, Boitano MA, Maxwell TM, Lou MA, Alexander JL.

J Trauma. 1976 May;16(5):354-60.

PMID:
1271497

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