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April 15, 2012
Validation of FLT3-ITD as a therapeutic target in human acute myeloid leukemia

Catherine C. Smith, Qi Wang, Chen-Shan Chin, Sara Salerno1, Lauren E. Damon, Mark J. Levis, Alexander E. Perl, Kevin J. Travers, SusanaWang, Jeremy P. Hunt, Patrick P. Zarrinkar, Eric E. Schadt, Andrew Kasarskis, John Kuriyan & Neil P. Shah

doi:10.1038/nature11016

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February 20, 2012
Journal of Clinical Oncology – Cancer Genomics: Technology, Discovery and Translation

Ben Tran, Janet E. Dancey, Suzanne Kamel-Reid, John D. McPherson, Philippe L. Bedard, Andrew M.K. Brown, Tong Zhang, Patricia Shaw, Nicole Onetto, Lincoln Stein, Thomas J. Hudson, Benjamin G. Neel and Lillian L. Siu

JCO February 20, 2012 vol. 30
no. 6 647-660

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December 29, 2011
Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011

Yonatan H. Grad, Marc Lipsitch, Michael Feldgarden, Harindra M. Arachchid, Gustavo C. Cerqueira, Michael FitzGerald, Paul Godfrey, Brian J. Haas, Cheryl I. Murphy, Carsten Russ, Sean Sykes, Bruce J. Walker, Jennifer R. Wortman, Sarah Young, Qiandong Zeng, Amr Abouelleil, James Bochicchio, Sara Chauvin, Timothy DeSmet, Sharvari Gujja, Caryn McCowan, Anna Montmayeur, Scott Steelman, Jakob Frimodt-Møller, Andreas M. Petersen, Carsten Struve, Karen A. Krogfelt, Edouard Bingen, François-Xavier Weill, Eric S. Lander, Chad Nusbaum, Bruce W. Birren, Deborah T. Hung, William P. Hanage

PNAS 2012 109 (8) 3065-3070

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December 20, 2011
Direct Detection and Sequencing of Damaged DNA Bases

Tyson A Clark, Kristi E Spittle, Stephen W Turner and Jonas Korlach

Genome Integrity 2011, 2:10
doi:10.1186/2041-9414-2-10

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December 7, 2011
Characterization of DNA methyltransferase specificities using single-molecule, real-time DNA sequencing

Tyson A. Clark, Iain A. Murray, Richard D. Morgan, Andrey O. Kislyuk, Kristi E. Spittle, Matthew Boitano, Alexey Fomenkov, Richard J. Roberts, and Jonas Korlach

Nucl. Acids Res. (2011)
doi: 10.1093/nar/gkr1146 

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November 20, 2011
Sensitive and specific single-molecule sequencing of 5-hydroxymethylcytosine

Chun-Xiao Song,Tyson A Clark,Xing-Yu Lu,Andrey Kislyuk,Qing Dai,Stephen W Turner,Chuan He & Jonas Korlach

Nature Methods (2011)
doi:10.1038/nmeth.1779

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July 27, 2011
Origins of the E. coli Strain Causing an Outbreak of Hemolytic–Uremic Syndrome in Germany

David A. Rasko, Ph.D., Dale R. Webster, Ph.D., Jason W. Sahl, Ph.D., Ali Bashir, Ph.D., Nadia Boisen, Ph.D., Flemming Scheutz, Ph.D., Ellen E. Paxinos, Ph.D., Robert Sebra, Ph.D., Chen-Shan Chin, Ph.D., Dimitris Iliopoulos, Ph.D., Aaron Klammer, Ph.D., Paul Peluso, Ph.D., Lawrence Lee, Ph.D., Andrey O. Kislyuk, Ph.D., James Bullard, Ph.D., Andrew Kasarskis, Ph.D., Susanna Wang, B.S., John Eid, Ph.D., David Rank, Ph.D., Julia C. Redman, Ph.D., Susan R. Steyert, Ph.D., Jakob Frimodt-Møller, B.S., Carsten Struve, Ph.D., Andreas M. Petersen, Ph.D., Karen A. Krogfelt, Ph.D., James P. Nataro, M.D., Ph.D., M.B.A., Eric E. Schadt, Ph.D., and Matthew K. Waldor, M.D., Ph.D.

The New England Journal of Medicine
10.1056/NEJMoa1106920

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February 15, 2011
Strobe sequence design for haplotype assembly

Christine Lo, Ali Bashir, Vikas Bansal and Vineet Bafna

BMC Bioinformatics
12(Suppl 1):S24doi:10.1186/1471-2105-12-S1-S24

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December 9, 2010
The Origin of the Haitian Cholera Outbreak Strain

Chen-Shan Chin, Ph.D., Jon Sorenson, Ph.D., Jason B. Harris, M.D., William P. Robins, Ph.D., Richelle C. Charles, M.D., Roger R. Jean-Charles, M.D., James Bullard, Ph.D., Dale R. Webster, Ph.D., Andrew Kasarskis, Ph.D., Paul Peluso, Ph.D., Ellen E. Paxinos, Ph.D., Yoshiharu Yamaichi, Ph.D., Stephen B. Calderwood, M.D., John J. Mekalanos, Ph.D., Eric E. Schadt, Ph.D., and Matthew K. Waldor, M.D., Ph.D.

The New England Journal of Medicine
10.1056/NEJMoa1012928

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September 21, 2010
A window into third-generation sequencing

Eric E. Schadt, Steve Turner and Andrew Kasarskis

Human Molecular Genetics
Hum. Mol. Genet.(2010) 19 (R2):
R227-R240. doi: 10.1093/hmg/ddq416

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September 1, 2010
Computational solutions to large-scale data management and analysis

Eric E. Schadt, Michael D. Linderman, Jon Sorenson, Lawrence Lee & Garry P. Nolan

Nature Reviews Genetics
11, 647-657; doi:10.1038/nrg2857

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June 22, 2010
A flexible and efficient template format for circular consensus sequencing and SNP detection

Kevin J. Travers, Chen-Shan chin, David R. Rank, John S. Eid and Stephen W Turner

Nucleic Acids Reserach
doi:10.1093/nar/gkq543

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May 23, 2010
Real-time DNA sequencing from single polymerase molecules

Jonas Korlach, Keith Bjornson, Bidhan Chaudhuri, Ron Cicero, Benjamin Flusberg, Jeremy Gray, David Holden, Ravi Saxena, Jeffrey Wegener, Stephen W. Turner.

Methods in Enzymology
Volume 472, 2010, Pages 431-455

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May 9, 2010
Direct detection of DNA methylation during single-molecule, real-time sequencing

Benjamin A Flusberg, Dale R Webster, Jessica H Lee, Kevin J Travers, Eric C Olivares, Tyson A Clark, Jonas Korlach & Stephen W Turner

Nature Methods
doi:10.1038/nmeth.1459

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April 15, 2010
Real-time tRNA transit on single translating ribosomes at codon resolution

Sotaro Uemura, Colin Echeverria Aitken, Jonas Korlach, Benjamin A. Flusberg, Stephen W. Turner & Joseph D. Puglisi

Nature, Vol 464, 15 April 2010, doi:10.1038/nature08925

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April 8, 2010
Structural variation analysis with strobe reads

Anna Ritz, Ali Bashir and Benjamin J. Raphael

Bioinformatics
26 (10): 1291-1298. doi: 10.1093/bioinformatics/btq153

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January 2, 2009
Real-Time DNA Sequencing from Single Polymerase Molecules

John Eid, Adrian Fehr, Jeremy Gray, Khai Lyong, John Lyle, Geoff Otto, Paul Peluso, David Rank, Primo Baybayan, Brad Bettman, Arakadiusz Bibillo, Keith Bjornson, Bidhan Chaudhuri, Frederick Christians, Ronald Cicero, Sonya Clark, Ravindra Dalal, Alex deWinter, John Dixon, Mathieu Foquet, Alfred Gaertner, Paul Hardenbol, Cheryl Heiner, Kevin Hester, David Holden, Gregory Kearns, Xiangxu Hong, Ronald Kuse, Yves Lacroix, Steven Lin, Paul Lunquist, Congcong Ma, Patrick Marks, Mark Maxham, Devon Murphy, Insil Park, Thang Pham, Michael Phillips, Joy Roy, Robert Sebra, Gene Shen, Jon Sorenson, Austin Tomaney, Kevin Travers, Mark Trulson, John Vieceli, Jeffrey Wegener, Dawn Wu, Alicia Yang, Denis Zaccarin, Peter Zhao, Frank Zhong, Jonas Korlach, Stephen Turner

Science, 02 January 2009/10.1126/science.1162986

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September 1, 2008
Long, Processive Enzymatic DNA Synthesis Using 100% Dye-Labeled Terminal Phosphate-Linked Nucleotides

Jonas Korlach, Arek Bibillo, Jeffrey Wegener, Paul Peluso, Thang T. Pham, Insil Park, Sonya Clark, Geoff A. Otto, Stephen W. Turner

Nucleosides, Nucleotides and Nucleic Acids, 27:1072:1083, 2008

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May 1, 2008
Parallel confocal detection of single molecules in real time

Paul M. Lundquist, Cheng F. Zhong, Peiqian Zhao, Austin B. Tomaney, Paul S. Peluso, John Dixon, Brad Bettman, Yves Lacroix, Deborah P. Kwo, Etienne McCullough, Mark Maxham, Kevin Hester, Paul McNitt, Donald M. Grey, Carlos Henriquez, Mathieu Foquet, Stephen W. Turner, and Denis Zaccarin

Optics Letters, Vol. 33, Issue 9, pp. 1026-1028

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February 4, 2008
Improved fabrication of zero-mode waveguides for single-molecule detection

Mathieu Foquet, Kevan T. Samiee, Xiangxu Kong, Bidhan P. Chaudhuri , Paul M. Lundquist, Stephen W. Turner, Jake Freudenthal, and Daniel B. Roitman

Journal of Applied Physics 103, 034301 (2008)

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November 20, 2007
Selective aluminum passivation for targeted immobilization of single DNA polymerase molecules in zero-mode waveguide nanostructures.

Korlach, J., Marks, P.J., Cicero, R.L., Gray, J.J., Murphy, D.L., Roitman, D.B., Pham, T.T., Otto, G.A., Foquet, M. & Turner, S.W

Proceedings of the National Academy of Sciences U.S.A. 105(4): 1176-1181. (2007)

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January 31, 2003
Zero-Mode Waveguides for Single-Molecule Analysis at High Concentrations

M. J. Levene, J. Korlach, S. W. Turner, M. Foquet, H. G. Craighead, W. W. Webb

SCIENCE 299:682-686, January 2003

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