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Items: 1 to 50 of 82

1.

Lifting the veil on arid-to-hyperarid Antarctic soil microbiomes: a tale of two oases.

Zhang E, Thibaut LM, Terauds A, Raven M, Tanaka MM, van Dorst J, Wong SY, Crane S, Ferrari BC.

Microbiome. 2020 Mar 16;8(1):37. doi: 10.1186/s40168-020-00809-w.

2.

MERCAT: Visualising molecular epidemiology data combining genetic markers and drug resistance profiles.

Aandahl RZ, Bhatia S, Vaudagnotto N, Street AG, Francis AR, Tanaka MM.

Infect Genet Evol. 2020 Jan;77:104043. doi: 10.1016/j.meegid.2019.104043. Epub 2019 Nov 1.

PMID:
31683007
3.

Enhancing genomics-based outbreak detection of endemic Salmonella enterica serovar Typhimurium using dynamic thresholds.

Payne M, Octavia S, Luu LDW, Sotomayor-Castillo C, Wang Q, Tay ACY, Sintchenko V, Tanaka MM, Lan R.

Microb Genom. 2019 Nov 4. doi: 10.1099/mgen.0.000310. [Epub ahead of print]

4.

Evolution of the Stator Elements of Rotary Prokaryote Motors.

Lai YW, Ridone P, Peralta G, Tanaka MM, Baker MAB.

J Bacteriol. 2020 Jan 15;202(3). pii: e00557-19. doi: 10.1128/JB.00557-19. Print 2020 Jan 15. Review.

PMID:
31591272
5.

Novel insights into endogenous RNA viral elements in Ixodes scapularis and other arbovirus vector genomes.

Russo AG, Kelly AG, Enosi Tuipulotu D, Tanaka MM, White PA.

Virus Evol. 2019 Jun 18;5(1):vez010. doi: 10.1093/ve/vez010. eCollection 2019 Jan.

6.

The Role of Pleiotropy in the Evolutionary Maintenance of Positive Niche Construction.

Chisholm RH, Connelly BD, Kerr B, Tanaka MM.

Am Nat. 2018 Jul;192(1):35-48. doi: 10.1086/697471. Epub 2018 Apr 25.

PMID:
29897798
7.

Genomic analysis of oral Campylobacter concisus strains identified a potential bacterial molecular marker associated with active Crohn's disease.

Liu F, Ma R, Tay CYA, Octavia S, Lan R, Chung HKL, Riordan SM, Grimm MC, Leong RW, Tanaka MM, Connor S, Zhang L.

Emerg Microbes Infect. 2018 Apr 11;7(1):64. doi: 10.1038/s41426-018-0065-6.

8.

Mathematical Models for the Epidemiology and Evolution of Mycobacterium tuberculosis.

Pečerska J, Wood J, Tanaka MM, Stadler T.

Adv Exp Med Biol. 2017;1019:281-307. doi: 10.1007/978-3-319-64371-7_15. Review.

PMID:
29116641
9.

Comparative genomics of Australian and international isolates of Salmonella Typhimurium: correlation of core genome evolution with CRISPR and prophage profiles.

Fu S, Hiley L, Octavia S, Tanaka MM, Sintchenko V, Lan R.

Sci Rep. 2017 Aug 29;7(1):9733. doi: 10.1038/s41598-017-06079-1.

10.

Persistent infections in immunocompromised hosts are rarely sources of new pathogen variants.

Eden JS, Chisholm RH, Bull RA, White PA, Holmes EC, Tanaka MM.

Virus Evol. 2017 Jul 28;3(2):vex018. doi: 10.1093/ve/vex018. eCollection 2017 Jul.

11.

Maximum likelihood estimates of pairwise rearrangement distances.

Serdoz S, Egri-Nagy A, Sumner J, Holland BR, Jarvis PD, Tanaka MM, Francis AR.

J Theor Biol. 2017 Jun 21;423:31-40. doi: 10.1016/j.jtbi.2017.04.015. Epub 2017 Apr 20.

PMID:
28435014
12.

Genomic heterogeneity of Salmonella enterica serovar Typhimurium bacteriuria from chronic infection.

Octavia S, Wang Q, Tanaka MM, Sintchenko V, Lan R.

Infect Genet Evol. 2017 Jul;51:17-20. doi: 10.1016/j.meegid.2017.03.004. Epub 2017 Mar 7.

PMID:
28279807
13.

Evolution of Variable Number Tandem Repeats and Its Relationship with Genomic Diversity in Salmonella Typhimurium.

Fu S, Octavia S, Wang Q, Tanaka MM, Tay CY, Sintchenko V, Lan R.

Front Microbiol. 2016 Dec 26;7:2002. doi: 10.3389/fmicb.2016.02002. eCollection 2016.

14.

Connecting within-host dynamics to the rate of viral molecular evolution.

Peck KM, Chan CH, Tanaka MM.

Virus Evol. 2015 Oct 2;1(1):vev013. eCollection 2015.

15.

Controlled fire use in early humans might have triggered the evolutionary emergence of tuberculosis.

Chisholm RH, Trauer JM, Curnoe D, Tanaka MM.

Proc Natl Acad Sci U S A. 2016 Aug 9;113(32):9051-6. doi: 10.1073/pnas.1603224113. Epub 2016 Jul 25.

16.

Examination of the effects of Campylobacter concisus zonula occludens toxin on intestinal epithelial cells and macrophages.

Mahendran V, Liu F, Riordan SM, Grimm MC, Tanaka MM, Zhang L.

Gut Pathog. 2016 May 18;8:18. doi: 10.1186/s13099-016-0101-9. eCollection 2016.

17.

The emergence of latent infection in the early evolution of Mycobacterium tuberculosis.

Chisholm RH, Tanaka MM.

Proc Biol Sci. 2016 May 25;283(1831). pii: 20160499. doi: 10.1098/rspb.2016.0499.

18.

The genome-wide DNA sequence specificity of the anti-tumour drug bleomycin in human cells.

Murray V, Chen JK, Tanaka MM.

Mol Biol Rep. 2016 Jul;43(7):639-51. doi: 10.1007/s11033-016-3998-7. Epub 2016 May 17.

PMID:
27188426
19.

Modelling the role of immunity in reversion of viral antigenic sites.

Chan CH, Sanders LP, Tanaka MM.

J Theor Biol. 2016 Mar 7;392:23-34. doi: 10.1016/j.jtbi.2015.12.008. Epub 2015 Dec 23.

PMID:
26723535
20.

Dynamics of bacterial insertion sequences: can transposition bursts help the elements persist?

Wu Y, Aandahl RZ, Tanaka MM.

BMC Evol Biol. 2015 Dec 21;15:288. doi: 10.1186/s12862-015-0560-5.

21.

Genomic Variability of Serial Human Isolates of Salmonella enterica Serovar Typhimurium Associated with Prolonged Carriage.

Octavia S, Wang Q, Tanaka MM, Sintchenko V, Lan R.

J Clin Microbiol. 2015 Nov;53(11):3507-14. doi: 10.1128/JCM.01733-15. Epub 2015 Aug 26.

22.

Defining the Core Genome of Salmonella enterica Serovar Typhimurium for Genomic Surveillance and Epidemiological Typing.

Fu S, Octavia S, Tanaka MM, Sintchenko V, Lan R.

J Clin Microbiol. 2015 Aug;53(8):2530-8. doi: 10.1128/JCM.03407-14. Epub 2015 May 27.

23.

Delineating community outbreaks of Salmonella enterica serovar Typhimurium by use of whole-genome sequencing: insights into genomic variability within an outbreak.

Octavia S, Wang Q, Tanaka MM, Kaur S, Sintchenko V, Lan R.

J Clin Microbiol. 2015 Apr;53(4):1063-71. doi: 10.1128/JCM.03235-14. Epub 2015 Jan 21.

24.

Measurement of the inclusive electron neutrino charged current cross section on carbon with the T2K near detector.

Abe K, Adam J, Aihara H, Akiri T, Andreopoulos C, Aoki S, Ariga A, Assylbekov S, Autiero D, Barbi M, Barker GJ, Barr G, Bass M, Batkiewicz M, Bay F, Berardi V, Berger BE, Berkman S, Bhadra S, Blaszczyk Fd, Blondel A, Bojechko C, Bordoni S, Boyd SB, Brailsford D, Bravar A, Bronner C, Buchanan N, Calland RG, Caravaca Rodríguez J, Cartwright SL, Castillo R, Catanesi MG, Cervera A, Cherdack D, Christodoulou G, Clifton A, Coleman J, Coleman SJ, Collazuol G, Connolly K, Cremonesi L, Dabrowska A, Danko I, Das R, Davis S, de Perio P, De Rosa G, Dealtry T, Dennis SR, Densham C, Dewhurst D, Di Lodovico F, Di Luise S, Drapier O, Duboyski T, Duffy K, Dumarchez J, Dytman S, Dziewiecki M, Emery-Schrenk S, Ereditato A, Escudero L, Finch AJ, Friend M, Fujii Y, Fukuda Y, Furmanski AP, Galymov V, Giffin S, Giganti C, Gilje K, Goeldi D, Golan T, Gonin M, Grant N, Gudin D, Hadley DR, Haesler A, Haigh MD, Hamilton P, Hansen D, Hara T, Hartz M, Hasegawa T, Hastings NC, Hayato Y, Hearty C, Helmer RL, Hierholzer M, Hignight J, Hillairet A, Himmel A, Hiraki T, Hirota S, Holeczek J, Horikawa S, Huang K, Ichikawa AK, Ieki K, Ieva M, Ikeda M, Imber J, Insler J, Irvine TJ, Ishida T, Ishii T, Iwai E, Iwamoto K, Iyogi K, Izmaylov A, Jacob A, Jamieson B, Johnson RA, Jo JH, Jonsson P, Jung CK, Kabirnezhad M, Kaboth AC, Kajita T, Kakuno H, Kameda J, Kanazawa Y, Karlen D, Karpikov I, Katori T, Kearns E, Khabibullin M, Khotjantsev A, Kielczewska D, Kikawa T, Kilinski A, Kim J, Kisiel J, Kitching P, Kobayashi T, Koch L, Kolaceke A, Konaka A, Kormos LL, Korzenev A, Koshio Y, Kropp W, Kubo H, Kudenko Y, Kurjata R, Kutter T, Lagoda J, Lamont I, Larkin E, Laveder M, Lawe M, Lazos M, Lindner T, Lister C, Litchfield RP, Longhin A, Ludovici L, Magaletti L, Mahn K, Malek M, Manly S, Marino AD, Marteau J, Martin JF, Martynenko S, Maruyama T, Matveev V, Mavrokoridis K, Mazzucato E, McCarthy M, McCauley N, McFarland KS, McGrew C, Metelko C, Mijakowski P, Miller CA, Minamino A, Mineev O, Missert A, Miura M, Moriyama S, Mueller TA, Murakami A, Murdoch M, Murphy S, Myslik J, Nakadaira T, Nakahata M, Nakamura K, Nakayama S, Nakaya T, Nakayoshi K, Nielsen C, Nirkko M, Nishikawa K, Nishimura Y, O'Keeffe HM, Ohta R, Okumura K, Okusawa T, Oryszczak W, Oser SM, Owen RA, Oyama Y, Palladino V, Palomino JL, Paolone V, Payne D, Perevozchikov O, Perkin JD, Petrov Y, Pickard L, Pinzon Guerra ES, Pistillo C, Plonski P, Poplawska E, Popov B, Posiadala M, Poutissou JM, Poutissou R, Przewlocki P, Quilain B, Radicioni E, Ratoff PN, Ravonel M, Rayner MA, Redij A, Reeves M, Reinherz-Aronis E, Rodrigues PA, Rojas P, Rondio E, Roth S, Rubbia A, Ruterbories D, Sacco R, Sakashita K, Sánchez F, Sato F, Scantamburlo E, Scholberg K, Schoppmann S, Schwehr J, Scott M, Seiya Y, Sekiguchi T, Sekiya H, Sgalaberna D, Shiozawa M, Short S, Shustrov Y, Sinclair P, Smith B, Smy M, Sobczyk JT, Sobel H, Sorel M, Southwell L, Stamoulis P, Steinmann J, Still B, Suda Y, Suzuki A, Suzuki K, Suzuki SY, Suzuki Y, Tacik R, Tada M, Takahashi S, Takeda A, Takeuchi Y, Tanaka HK, Tanaka HA, Tanaka MM, Terhorst D, Terri R, Thompson LF, Thorley A, Tobayama S, Toki W, Tomura T, Totsuka Y, Touramanis C, Tsukamoto T, Tzanov M, Uchida Y, Vacheret A, Vagins M, Vasseur G, Wachala T, Waldron AV, Walter CW, Wark D, Wascko MO, Weber A, Wendell R, Wilkes RJ, Wilking MJ, Wilkinson C, Williamson Z, Wilson JR, Wilson RJ, Wongjirad T, Yamada Y, Yamamoto K, Yanagisawa C, Yano T, Yen S, Yershov N, Yokoyama M, Yuan T, Yu M, Zalewska A, Zalipska J, Zambelli L, Zaremba K, Ziembicki M, Zimmerman ED, Zito M, Żmuda J; T2K Collaboration.

Phys Rev Lett. 2014 Dec 12;113(24):241803. Epub 2014 Dec 11.

25.

Timing of antimicrobial use influences the evolution of antimicrobial resistance during disease epidemics.

Tanaka MM, Althouse BM, Bergstrom CT.

Evol Med Public Health. 2014 Nov 5;2014(1):150-61. doi: 10.1093/emph/eou027.

26.

Viral niche construction alters hosts and ecosystems at multiple scales.

Hamblin SR, White PA, Tanaka MM.

Trends Ecol Evol. 2014 Nov;29(11):594-9. doi: 10.1016/j.tree.2014.08.005. Epub 2014 Sep 16.

PMID:
25237032
27.

Precise measurement of the neutrino mixing parameter θ23 from muon neutrino disappearance in an off-axis beam.

Abe K, Adam J, Aihara H, Akiri T, Andreopoulos C, Aoki S, Ariga A, Ariga T, Assylbekov S, Autiero D, Barbi M, Barker GJ, Barr G, Bass M, Batkiewicz M, Bay F, Bentham SW, Berardi V, Berger BE, Berkman S, Bertram I, Bhadra S, Blaszczyk Fd, Blondel A, Bojechko C, Bordoni S, Boyd SB, Brailsford D, Bravar A, Bronner C, Buchanan N, Calland RG, Caravaca Rodríguez J, Cartwright SL, Castillo R, Catanesi MG, Cervera A, Cherdack D, Christodoulou G, Clifton A, Coleman J, Coleman SJ, Collazuol G, Connolly K, Cremonesi L, Dabrowska A, Danko I, Das R, Davis S, de Perio P, De Rosa G, Dealtry T, Dennis SR, Densham C, Di Lodovico F, Di Luise S, Drapier O, Duboyski T, Duffy K, Dufour F, Dumarchez J, Dytman S, Dziewiecki M, Emery S, Ereditato A, Escudero L, Finch AJ, Floetotto L, Friend M, Fujii Y, Fukuda Y, Furmanski AP, Galymov V, Giffin S, Giganti C, Gilje K, Goeldi D, Golan T, Gonin M, Grant N, Gudin D, Hadley DR, Haesler A, Haigh MD, Hamilton P, Hansen D, Hara T, Hartz M, Hasegawa T, Hastings NC, Hayato Y, Hearty C, Helmer RL, Hierholzer M, Hignight J, Hillairet A, Himmel A, Hiraki T, Hirota S, Holeczek J, Horikawa S, Huang K, Ichikawa AK, Ieki K, Ieva M, Ikeda M, Imber J, Insler J, Irvine TJ, Ishida T, Ishii T, Ives SJ, Iwai E, Iyogi K, Izmaylov A, Jacob A, Jamieson B, Johnson RA, Jo JH, Jonsson P, Jung CK, Kabirnezhad M, Kaboth AC, Kajita T, Kakuno H, Kameda J, Kanazawa Y, Karlen D, Karpikov I, Kearns E, Khabibullin M, Khotjantsev A, Kielczewska D, Kikawa T, Kilinski A, Kim J, Kisiel J, Kitching P, Kobayashi T, Koch L, Kolaceke A, Konaka A, Kormos LL, Korzenev A, Koseki K, Koshio Y, Kreslo I, Kropp W, Kubo H, Kudenko Y, Kumaratunga S, Kurjata R, Kutter T, Lagoda J, Laihem K, Lamont I, Laveder M, Lawe M, Lazos M, Lee KP, Lindner T, Lister C, Litchfield RP, Longhin A, Ludovici L, Macaire M, Magaletti L, Mahn K, Malek M, Manly S, Marino AD, Marteau J, Martin JF, Maruyama T, Marzec J, Mathie EL, Matveev V, Mavrokoridis K, Mazzucato E, McCarthy M, McCauley N, McFarland KS, McGrew C, Metelko C, Mezzetto M, Mijakowski P, Miller CA, Minamino A, Mineev O, Mine S, Missert A, Miura M, Monfregola L, Moriyama S, Mueller TA, Murakami A, Murdoch M, Murphy S, Myslik J, Nagasaki T, Nakadaira T, Nakahata M, Nakai T, Nakamura K, Nakayama S, Nakaya T, Nakayoshi K, Naples D, Nielsen C, Nirkko M, Nishikawa K, Nishimura Y, O'Keeffe HM, Ohta R, Okumura K, Okusawa T, Oryszczak W, Oser SM, Owen RA, Oyama Y, Palladino V, Palomino J, Paolone V, Payne D, Perevozchikov O, Perkin JD, Petrov Y, Pickard L, Pinzon Guerra ES, Pistillo C, Plonski P, Poplawska E, Popov B, Posiadala M, Poutissou JM, Poutissou R, Przewlocki P, Quilain B, Radicioni E, Ratoff PN, Ravonel M, Rayner MA, Redij A, Reeves M, Reinherz-Aronis E, Retiere F, Robert A, Rodrigues PA, Rojas P, Rondio E, Roth S, Rubbia A, Ruterbories D, Sacco R, Sakashita K, Sánchez F, Sato F, Scantamburlo E, Scholberg K, Schoppmann S, Schwehr J, Scott M, Seiya Y, Sekiguchi T, Sekiya H, Sgalaberna D, Shiozawa M, Short S, Shustrov Y, Sinclair P, Smith B, Smith RJ, Smy M, Sobczyk JT, Sobel H, Sorel M, Southwell L, Stamoulis P, Steinmann J, Still B, Suda Y, Suzuki A, Suzuki K, Suzuki SY, Suzuki Y, Szeglowski T, Tacik R, Tada M, Takahashi S, Takeda A, Takeuchi Y, Tanaka HK, Tanaka HA, Tanaka MM, Terhorst D, Terri R, Thompson LF, Thorley A, Tobayama S, Toki W, Tomura T, Totsuka Y, Touramanis C, Tsukamoto T, Tzanov M, Uchida Y, Ueno K, Vacheret A, Vagins M, Vasseur G, Wachala T, Waldron AV, Walter CW, Wark D, Wascko MO, Weber A, Wendell R, Wilkes RJ, Wilking MJ, Wilkinson C, Williamson Z, Wilson JR, Wilson RJ, Wongjirad T, Yamada Y, Yamamoto K, Yanagisawa C, Yen S, Yershov N, Yokoyama M, Yuan T, Yu M, Zalewska A, Zalipska J, Zambelli L, Zaremba K, Ziembicki M, Zimmerman ED, Zito M, Żmuda J; T2K Collaboration.

Phys Rev Lett. 2014 May 9;112(18):181801. Epub 2014 May 8.

28.

Observation of electron neutrino appearance in a muon neutrino beam.

Abe K, Adam J, Aihara H, Akiri T, Andreopoulos C, Aoki S, Ariga A, Ariga T, Assylbekov S, Autiero D, Barbi M, Barker GJ, Barr G, Bass M, Batkiewicz M, Bay F, Bentham SW, Berardi V, Berger BE, Berkman S, Bertram I, Bhadra S, Blaszczyk FD, Blondel A, Bojechko C, Bordoni S, Boyd SB, Brailsford D, Bravar A, Bronner C, Buchanan N, Calland RG, Caravaca Rodríguez J, Cartwright SL, Castillo R, Catanesi MG, Cervera A, Cherdack D, Christodoulou G, Clifton A, Coleman J, Coleman SJ, Collazuol G, Connolly K, Cremonesi L, Dabrowska A, Danko I, Das R, Davis S, de Perio P, De Rosa G, Dealtry T, Dennis SR, Densham C, Di Lodovico F, Di Luise S, Drapier O, Duboyski T, Duffy K, Dufour F, Dumarchez J, Dytman S, Dziewiecki M, Emery S, Ereditato A, Escudero L, Finch AJ, Floetotto L, Friend M, Fujii Y, Fukuda Y, Furmanski AP, Galymov V, Gaudin A, Giffin S, Giganti C, Gilje K, Goeldi D, Golan T, Gomez-Cadenas JJ, Gonin M, Grant N, Gudin D, Hadley DR, Haesler A, Haigh MD, Hamilton P, Hansen D, Hara T, Hartz M, Hasegawa T, Hastings NC, Hayato Y, Hearty C, Helmer RL, Hierholzer M, Hignight J, Hillairet A, Himmel A, Hiraki T, Hirota S, Holeczek J, Horikawa S, Huang K, Ichikawa AK, Ieki K, Ieva M, Ikeda M, Imber J, Insler J, Irvine TJ, Ishida T, Ishii T, Ives SJ, Iyogi K, Izmaylov A, Jacob A, Jamieson B, Johnson RA, Jo JH, Jonsson P, Jung CK, Kaboth AC, Kajita T, Kakuno H, Kameda J, Kanazawa Y, Karlen D, Karpikov I, Kearns E, Khabibullin M, Khotjantsev A, Kielczewska D, Kikawa T, Kilinski A, Kim J, Kisiel J, Kitching P, Kobayashi T, Koch L, Kolaceke A, Konaka A, Kormos LL, Korzenev A, Koseki K, Koshio Y, Kreslo I, Kropp W, Kubo H, Kudenko Y, Kumaratunga S, Kurjata R, Kutter T, Lagoda J, Laihem K, Lamont I, Laveder M, Lawe M, Lazos M, Lee KP, Licciardi C, Lindner T, Lister C, Litchfield RP, Longhin A, Ludovici L, Macaire M, Magaletti L, Mahn K, Malek M, Manly S, Marino AD, Marteau J, Martin JF, Maruyama T, Marzec J, Mathie EL, Matveev V, Mavrokoridis K, Mazzucato E, McCarthy M, McCauley N, McFarland KS, McGrew C, Metelko C, Mezzetto M, Mijakowski P, Miller CA, Minamino A, Mineev O, Mine S, Missert A, Miura M, Monfregola L, Moriyama S, Mueller TA, Murakami A, Murdoch M, Murphy S, Myslik J, Nagasaki T, Nakadaira T, Nakahata M, Nakai T, Nakamura K, Nakayama S, Nakaya T, Nakayoshi K, Naples D, Nielsen C, Nirkko M, Nishikawa K, Nishimura Y, O'Keeffe HM, Ohta R, Okumura K, Okusawa T, Oryszczak W, Oser SM, Owen RA, Oyama Y, Palladino V, Paolone V, Payne D, Pearce GF, Perevozchikov O, Perkin JD, Petrov Y, Pickard LJ, Pinzon Guerra ES, Pistillo C, Plonski P, Poplawska E, Popov B, Posiadala M, Poutissou JM, Poutissou R, Przewlocki P, Quilain B, Radicioni E, Ratoff PN, Ravonel M, Rayner MA, Redij A, Reeves M, Reinherz-Aronis E, Retiere F, Robert A, Rodrigues PA, Rojas P, Rondio E, Roth S, Rubbia A, Ruterbories D, Sacco R, Sakashita K, Sánchez F, Sato F, Scantamburlo E, Scholberg K, Schwehr J, Scott M, Seiya Y, Sekiguchi T, Sekiya H, Sgalaberna D, Shiozawa M, Short S, Shustrov Y, Sinclair P, Smith B, Smith RJ, Smy M, Sobczyk JT, Sobel H, Sorel M, Southwell L, Stamoulis P, Steinmann J, Still B, Suda Y, Suzuki A, Suzuki K, Suzuki SY, Suzuki Y, Szeglowski T, Tacik R, Tada M, Takahashi S, Takeda A, Takeuchi Y, Tanaka HK, Tanaka HA, Tanaka MM, Terhorst D, Terri R, Thompson LF, Thorley A, Tobayama S, Toki W, Tomura T, Totsuka Y, Touramanis C, Tsukamoto T, Tzanov M, Uchida Y, Ueno K, Vacheret A, Vagins M, Vasseur G, Wachala T, Waldron AV, Walter CW, Wark D, Wascko MO, Weber A, Wendell R, Wilkes RJ, Wilking MJ, Wilkinson C, Williamson Z, Wilson JR, Wilson RJ, Wongjirad T, Yamada Y, Yamamoto K, Yanagisawa C, Yen S, Yershov N, Yokoyama M, Yuan T, Zalewska A, Zalipska J, Zambelli L, Zaremba K, Ziembicki M, Zimmerman ED, Zito M, Zmuda J; T2K Collaboration.

Phys Rev Lett. 2014 Feb 14;112(6):061802. Epub 2014 Feb 10.

29.

The emergence and evolution of the novel epidemic norovirus GII.4 variant Sydney 2012.

Eden JS, Hewitt J, Lim KL, Boni MF, Merif J, Greening G, Ratcliff RM, Holmes EC, Tanaka MM, Rawlinson WD, White PA.

Virology. 2014 Feb;450-451:106-13. doi: 10.1016/j.virol.2013.12.005. Epub 2013 Dec 25.

30.

Exact vs. approximate computation: reconciling different estimates of Mycobacterium tuberculosis epidemiological parameters.

Aandahl RZ, Stadler T, Sisson SA, Tanaka MM.

Genetics. 2014 Apr;196(4):1227-30. doi: 10.1534/genetics.113.158808. Epub 2014 Feb 4.

31.

Measurement of neutrino oscillation parameters from muon neutrino disappearance with an off-axis beam.

Abe K, Adam J, Aihara H, Akiri T, Andreopoulos C, Aoki S, Ariga A, Ariga T, Assylbekov S, Autiero D, Barbi M, Barker GJ, Barr G, Bass M, Batkiewicz M, Bay F, Bentham SW, Berardi V, Berger BE, Berkman S, Bertram I, Bhadra S, Blaszczyk FD, Blondel A, Bojechko C, Bordoni S, Boyd SB, Brailsford D, Bravar A, Bronner C, Buchanan N, Calland RG, Caravaca Rodríguez J, Cartwright SL, Castillo R, Catanesi MG, Cervera A, Cherdack D, Christodoulou G, Clifton A, Coleman J, Coleman SJ, Collazuol G, Connolly K, Cremonesi L, Curioni A, Dabrowska A, Danko I, Das R, Davis S, de Perio P, De Rosa G, Dealtry T, Dennis SR, Densham C, Di Lodovico F, Di Luise S, Drapier O, Duboyski T, Duffy K, Dufour F, Dumarchez J, Dytman S, Dziewiecki M, Emery S, Ereditato A, Escudero L, Finch AJ, Frank E, Friend M, Fujii Y, Fukuda Y, Furmanski AP, Galymov V, Gaudin A, Giffin S, Giganti C, Gilje K, Golan T, Gomez-Cadenas JJ, Gonin M, Grant N, Gudin D, Hadley DR, Haesler A, Haigh MD, Hamilton P, Hansen D, Hara T, Hartz M, Hasegawa T, Hastings NC, Hayato Y, Hearty C, Helmer RL, Hierholzer M, Hignight J, Hillairet A, Himmel A, Hiraki T, Hirota S, Holeczek J, Horikawa S, Huang K, Ichikawa AK, Ieki K, Ieva M, Ikeda M, Imber J, Insler J, Irvine TJ, Ishida T, Ishii T, Ives SJ, Iyogi K, Izmaylov A, Jacob A, Jamieson B, Johnson RA, Jo JH, Jonsson P, Joo KK, Jung CK, Kaboth AC, Kajita T, Kakuno H, Kameda J, Kanazawa Y, Karlen D, Karpikov I, Kearns E, Khabibullin M, Khotjantsev A, Kielczewska D, Kikawa T, Kilinski A, Kim J, Kim SB, Kisiel J, Kitching P, Kobayashi T, Kogan G, Kolaceke A, Konaka A, Kormos LL, Korzenev A, Koseki K, Koshio Y, Kreslo I, Kropp W, Kubo H, Kudenko Y, Kumaratunga S, Kurjata R, Kutter T, Lagoda J, Laihem K, Laveder M, Lawe M, Lazos M, Lee KP, Licciardi C, Lim IT, Lindner T, Lister C, Litchfield RP, Longhin A, Lopez GD, Ludovici L, Macaire M, Magaletti L, Mahn K, Malek M, Manly S, Marino AD, Marteau J, Martin JF, Maruyama T, Marzec J, Masliah P, Mathie EL, Matveev V, Mavrokoridis K, Mazzucato E, McCarthy M, McCauley N, McFarland KS, McGrew C, Metelko C, Mijakowski P, Miller CA, Minamino A, Mineev O, Mine S, Missert A, Miura M, Monfregola L, Moriyama S, Mueller TA, Murakami A, Murdoch M, Murphy S, Myslik J, Nagasaki T, Nakadaira T, Nakahata M, Nakai T, Nakamura K, Nakayama S, Nakaya T, Nakayoshi K, Naples D, Nielsen C, Nirkko M, Nishikawa K, Nishimura Y, O'Keeffe HM, Ohta R, Okumura K, Okusawa T, Oryszczak W, Oser SM, Otani M, Owen RA, Oyama Y, Pac MY, Palladino V, Paolone V, Payne D, Pearce GF, Perevozchikov O, Perkin JD, Petrov Y, Pinzon Guerra ES, Pistillo C, Plonski P, Poplawska E, Popov B, Posiadala M, Poutissou JM, Poutissou R, Przewlocki P, Quilain B, Radicioni E, Ratoff PN, Ravonel M, Rayner MA, Redij A, Reeves M, Reinherz-Aronis E, Retiere F, Robert A, Rodrigues PA, Rondio E, Roth S, Rubbia A, Ruterbories D, Sacco R, Sakashita K, Sánchez F, Sato F, Scantamburlo E, Scholberg K, Schwehr J, Scott M, Seiya Y, Sekiguchi T, Sekiya H, Sgalaberna D, Shiozawa M, Short S, Shustrov Y, Sinclair P, Smith B, Smith RJ, Smy M, Sobczyk JT, Sobel H, Sorel M, Southwell L, Stamoulis P, Steinmann J, Still B, Suda Y, Suzuki A, Suzuki K, Suzuki SY, Suzuki Y, Szeglowski T, Tacik R, Tada M, Takahashi S, Takeda A, Takeuchi Y, Tanaka HK, Tanaka HA, Tanaka MM, Taylor IJ, Terhorst D, Terri R, Thompson LF, Thorley A, Tobayama S, Toki W, Tomura T, Totsuka Y, Touramanis C, Tsukamoto T, Tzanov M, Uchida Y, Ueno K, Vacheret A, Vagins M, Vasseur G, Wachala T, Waldron AV, Walter CW, Wark D, Wascko MO, Weber A, Wendell R, Wilkes RJ, Wilking MJ, Wilkinson C, Williamson Z, Wilson JR, Wilson RJ, Wongjirad T, Yamada Y, Yamamoto K, Yanagisawa C, Yen S, Yershov N, Yokoyama M, Yuan T, Zalewska A, Zalipska J, Zambelli L, Zaremba K, Ziembicki M, Zimmerman ED, Zito M, Zmuda J; T2K Collaboration.

Phys Rev Lett. 2013 Nov 22;111(21):211803. Epub 2013 Nov 19.

32.

Epidemiological control of drug resistance and compensatory mutation under resistance testing and second-line therapy.

Saddler CA, Wu Y, Valckenborgh F, Tanaka MM.

Epidemics. 2013 Dec;5(4):164-73. doi: 10.1016/j.epidem.2013.08.002. Epub 2013 Sep 4.

33.

The effects of linkage on comparative estimators of selection.

Chan CH, Hamblin S, Tanaka MM.

BMC Evol Biol. 2013 Nov 7;13:244. doi: 10.1186/1471-2148-13-244.

34.

Dynamics of evolutionary rescue in changing environments and the emergence of antibiotic resistance.

Wu Y, Saddler CA, Valckenborgh F, Tanaka MM.

J Theor Biol. 2014 Jan 7;340:222-31. doi: 10.1016/j.jtbi.2013.09.026. Epub 2013 Sep 25.

PMID:
24076261
35.

Behavioural manipulation of insect hosts by Baculoviridae as a process of niche construction.

Hamblin S, Tanaka MM.

BMC Evol Biol. 2013 Aug 16;13:170. doi: 10.1186/1471-2148-13-170.

36.

Group-theoretic models of the inversion process in bacterial genomes.

Egri-Nagy A, Gebhardt V, Tanaka MM, Francis AR.

J Math Biol. 2014 Jul;69(1):243-65. doi: 10.1007/s00285-013-0702-6. Epub 2013 Jun 23.

PMID:
23793228
37.

Recombination within the pandemic norovirus GII.4 lineage.

Eden JS, Tanaka MM, Boni MF, Rawlinson WD, White PA.

J Virol. 2013 Jun;87(11):6270-82. doi: 10.1128/JVI.03464-12. Epub 2013 Mar 27.

38.

Viral mutation rates: modelling the roles of within-host viral dynamics and the trade-off between replication fidelity and speed.

Regoes RR, Hamblin S, Tanaka MM.

Proc Biol Sci. 2013 Jan 7;280(1750):20122047. doi: 10.1098/rspb.2012.2047. Epub 2012 Nov 7.

39.

A model-based Bayesian estimation of the rate of evolution of VNTR loci in Mycobacterium tuberculosis.

Aandahl RZ, Reyes JF, Sisson SA, Tanaka MM.

PLoS Comput Biol. 2012;8(6):e1002573. doi: 10.1371/journal.pcbi.1002573. Epub 2012 Jun 28.

40.

Evolution of variation in presence and absence of genes in bacterial pathways.

Francis AR, Tanaka MM.

BMC Evol Biol. 2012 Apr 20;12:55. doi: 10.1186/1471-2148-12-55.

41.

The inference of phased haplotypes for the immunoglobulin H chain V region gene loci by analysis of VDJ gene rearrangements.

Kidd MJ, Chen Z, Wang Y, Jackson KJ, Zhang L, Boyd SD, Fire AZ, Tanaka MM, Gaëta BA, Collins AM.

J Immunol. 2012 Feb 1;188(3):1333-40. doi: 10.4049/jimmunol.1102097. Epub 2011 Dec 28.

42.

Indication of electron neutrino appearance from an accelerator-produced off-axis muon neutrino beam.

Abe K, Abgrall N, Ajima Y, Aihara H, Albert JB, Andreopoulos C, Andrieu B, Aoki S, Araoka O, Argyriades J, Ariga A, Ariga T, Assylbekov S, Autiero D, Badertscher A, Barbi M, Barker GJ, Barr G, Bass M, Bay F, Bentham S, Berardi V, Berger BE, Bertram I, Besnier M, Beucher J, Beznosko D, Bhadra S, Blaszczyk Fd, Blondel A, Bojechko C, Bouchez J, Boyd SB, Bravar A, Bronner C, Brook-Roberge DG, Buchanan N, Budd H, Calvet D, Cartwright SL, Carver A, Castillo R, Catanesi MG, Cazes A, Cervera A, Chavez C, Choi S, Christodoulou G, Coleman J, Coleman W, Collazuol G, Connolly K, Curioni A, Dabrowska A, Danko I, Das R, Davies GS, Davis S, Day M, De Rosa G, de André JP, de Perio P, Delbart A, Densham C, Di Lodovico F, Di Luise S, Dinh Tran P, Dobson J, Dore U, Drapier O, Dufour F, Dumarchez J, Dytman S, Dziewiecki M, Dziomba M, Emery S, Ereditato A, Escudero L, Esposito LS, Fechner M, Ferrero A, Finch AJ, Frank E, Fujii Y, Fukuda Y, Galymov V, Gannaway FC, Gaudin A, Gendotti A, George MA, Giffin S, Giganti C, Gilje K, Golan T, Goldhaber M, Gomez-Cadenas JJ, Gonin M, Grant N, Grant A, Gumplinger P, Guzowski P, Haesler A, Haigh MD, Hamano K, Hansen C, Hansen D, Hara T, Harrison PF, Hartfiel B, Hartz M, Haruyama T, Hasegawa T, Hastings NC, Hastings S, Hatzikoutelis A, Hayashi K, Hayato Y, Hearty C, Helmer RL, Henderson R, Higashi N, Hignight J, Hirose E, Holeczek J, Horikawa S, Hyndman A, Ichikawa AK, Ieki K, Ieva M, Iida M, Ikeda M, Ilic J, Imber J, Ishida T, Ishihara C, Ishii T, Ives SJ, Iwasaki M, Iyogi K, Izmaylov A, Jamieson B, Johnson RA, Joo KK, Jover-Manas GV, Jung CK, Kaji H, Kajita T, Kakuno H, Kameda J, Kaneyuki K, Karlen D, Kasami K, Kato I, Kearns E, Khabibullin M, Khanam F, Khotjantsev A, Kielczewska D, Kikawa T, Kim J, Kim JY, Kim SB, Kimura N, Kirby B, Kisiel J, Kitching P, Kobayashi T, Kogan G, Koike S, Konaka A, Kormos LL, Korzenev A, Koseki K, Koshio Y, Kouzuma Y, Kowalik K, Kravtsov V, Kreslo I, Kropp W, Kubo H, Kudenko Y, Kulkarni N, Kurjata R, Kutter T, Lagoda J, Laihem K, Laveder M, Lee KP, Le PT, Levy JM, Licciardi C, Lim IT, Lindner T, Litchfield RP, Litos M, Longhin A, Lopez GD, Loverre PF, Ludovici L, Lux T, Macaire M, Mahn K, Makida Y, Malek M, Manly S, Marchionni A, Marino AD, Marteau J, Martin JF, Maruyama T, Maryon T, Marzec J, Masliah P, Mathie EL, Matsumura C, Matsuoka K, Matveev V, Mavrokoridis K, Mazzucato E, McCauley N, McFarland KS, McGrew C, McLachlan T, Messina M, Metcalf W, Metelko C, Mezzetto M, Mijakowski P, Miller CA, Minamino A, Mineev O, Mine S, Missert AD, Mituka G, Miura M, Mizouchi K, Monfregola L, Moreau F, Morgan B, Moriyama S, Muir A, Murakami A, Murdoch M, Murphy S, Myslik J, Nakadaira T, Nakahata M, Nakai T, Nakajima K, Nakamoto T, Nakamura K, Nakayama S, Nakaya T, Naples D, Navin ML, Nelson B, Nicholls TC, Nishikawa K, Nishino H, Nowak JA, Noy M, Obayashi Y, Ogitsu T, Ohhata H, Okamura T, Okumura K, Okusawa T, Oser SM, Otani M, Owen RA, Oyama Y, Ozaki T, Pac MY, Palladino V, Paolone V, Paul P, Payne D, Pearce GF, Perkin JD, Pettinacci V, Pierre F, Poplawska E, Popov B, Posiadala M, Poutissou JM, Poutissou R, Przewlocki P, Qian W, Raaf JL, Radicioni E, Ratoff PN, Raufer TM, Ravonel M, Raymond M, Retiere F, Robert A, Rodrigues PA, Rondio E, Roney JM, Rossi B, Roth S, Rubbia A, Ruterbories D, Sabouri S, Sacco R, Sakashita K, Sánchez F, Sarrat A, Sasaki K, Scholberg K, Schwehr J, Scott M, Scully DI, Seiya Y, Sekiguchi T, Sekiya H, Shibata M, Shimizu Y, Shiozawa M, Short S, Siyad M, Smith RJ, Smy M, Sobczyk JT, Sobel H, Sorel M, Stahl A, Stamoulis P, Steinmann J, Still B, Stone J, Strabel C, Sulak LR, Sulej R, Sutcliffe P, Suzuki A, Suzuki K, Suzuki S, Suzuki SY, Suzuki Y, Suzuki Y, Szeglowski T, Szeptycka M, Tacik R, Tada M, Takahashi S, Takeda A, Takenaga Y, Takeuchi Y, Tanaka K, Tanaka HA, Tanaka M, Tanaka MM, Tanimoto N, Tashiro K, Taylor I, Terashima A, Terhorst D, Terri R, Thompson LF, Thorley A, Toki W, Tomaru T, Totsuka Y, Touramanis C, Tsukamoto T, Tzanov M, Uchida Y, Ueno K, Vacheret A, Vagins M, Vasseur G, Wachala T, Walding JJ, Waldron AV, Walter CW, Wanderer PJ, Wang J, Ward MA, Ward GP, Wark D, Wascko MO, Weber A, Wendell R, West N, Whitehead LH, Wikström G, Wilkes RJ, Wilking MJ, Wilson JR, Wilson RJ, Wongjirad T, Yamada S, Yamada Y, Yamamoto A, Yamamoto K, Yamanoi Y, Yamaoka H, Yanagisawa C, Yano T, Yen S, Yershov N, Yokoyama M, Zalewska A, Zalipska J, Zambelli L, Zaremba K, Ziembicki M, Zimmerman ED, Zito M, Żmuda J; T2K Collaboration.

Phys Rev Lett. 2011 Jul 22;107(4):041801. Epub 2011 Jul 18.

PMID:
21866992
43.

Impact of homoplasy on variable numbers of tandem repeats and spoligotypes in Mycobacterium tuberculosis.

Reyes JF, Chan CH, Tanaka MM.

Infect Genet Evol. 2012 Jun;12(4):811-8. doi: 10.1016/j.meegid.2011.05.018. Epub 2011 May 30.

PMID:
21683165
44.

Immobilized pool of NCAM180 in the postsynaptic membrane is homeostatically replenished by the flux of NCAM180 from extrasynaptic regions.

Leshchyns'ka I, Tanaka MM, Schachner M, Sytnyk V.

J Biol Chem. 2011 Jul 1;286(26):23397-406. doi: 10.1074/jbc.M111.252098. Epub 2011 May 6.

45.

Escaping an evolutionary lobster trap: drug resistance and compensatory mutation in a fluctuating environment.

Tanaka MM, Valckenborgh F.

Evolution. 2011 May;65(5):1376-87. doi: 10.1111/j.1558-5646.2011.01223.x. Epub 2011 Feb 1.

PMID:
21521192
46.

Mutation rate of VNTR loci in Mycobacterium tuberculosis: response to Supply et al.

Tanaka MM, Reyes JF.

Infect Genet Evol. 2011 Aug;11(6):1189-90; discussion 1191-2. doi: 10.1016/j.meegid.2011.01.014. Epub 2011 Feb 2. No abstract available.

PMID:
21295160
47.

Population structure and evolution of pathogenicity of Yersinia pseudotuberculosis.

Ch'ng SL, Octavia S, Xia Q, Duong A, Tanaka MM, Fukushima H, Lan R.

Appl Environ Microbiol. 2011 Feb;77(3):768-75. doi: 10.1128/AEM.01993-10. Epub 2010 Dec 3.

48.

Trade-offs in resource allocation in the intracellular life-cycle of hepatitis C virus.

McLean AK, Luciani F, Tanaka MM.

J Theor Biol. 2010 Dec 21;267(4):565-72. doi: 10.1016/j.jtbi.2010.09.031. Epub 2010 Sep 29.

PMID:
20883700
49.

Mutation rates of spoligotypes and variable numbers of tandem repeat loci in Mycobacterium tuberculosis.

Reyes JF, Tanaka MM.

Infect Genet Evol. 2010 Oct;10(7):1046-51. doi: 10.1016/j.meegid.2010.06.016. Epub 2010 Jul 7.

PMID:
20619357
50.

Conditions for the evolution of gene clusters in bacterial genomes.

Ballouz S, Francis AR, Lan R, Tanaka MM.

PLoS Comput Biol. 2010 Feb 12;6(2):e1000672. doi: 10.1371/journal.pcbi.1000672.

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