Search Results - Jared T. Simpson

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  1. 1
    Exploring genome characteristics and sequence quality without a reference

    Exploring genome characteristics and sequence quality without a reference by Jared T. Simpson

    Published 2014
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  2. 2
    The Theory and Practice of Genome Sequence Assembly

    The Theory and Practice of Genome Sequence Assembly by Jared T. Simpson, Mihai Pop

    Published 2015
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  3. 3
    Efficient de novo assembly of large genomes using compressed data structures

    Efficient de novo assembly of large genomes using compressed data structures by Jared T. Simpson, Richard Durbin

    Published 2011
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  4. 4
    Efficient construction of an assembly string graph using the FM-index

    Efficient construction of an assembly string graph using the FM-index by Jared T. Simpson, Richard Durbin

    Published 2010
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  5. 5
    A complete bacterial genome assembled de novo using only nanopore sequencing data

    A complete bacterial genome assembled de novo using only nanopore sequencing data by Nicholas J. Loman, Joshua Quick, Jared T. Simpson

    Published 2015
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  6. 6
    On the Representation of de Bruijn Graphs

    On the Representation of de Bruijn Graphs by Rayan Chikhi, Antoine Limasset, Shaun D. Jackman, Jared T. Simpson, Paul Medvedev

    Published 2014
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  7. 7
    On the Representation of De Bruijn Graphs

    On the Representation of De Bruijn Graphs by Rayan Chikhi, Antoine Limasset, Shaun D. Jackman, Jared T. Simpson, Paul Medvedev

    Published 2015
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  8. 8
    New Twists in Detecting mRNA Modification Dynamics

    New Twists in Detecting mRNA Modification Dynamics by Ina Anreiter, Quoseena Mir, Jared T. Simpson, Sarath Chandra Janga, Matthias Soller

    Published 2020
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  9. 9
    Nanocall: an open source basecaller for Oxford Nanopore sequencing data

    Nanocall: an open source basecaller for Oxford Nanopore sequencing data by Matei David, Lewis Jonathan Dursi, Delia Yao, Paul C. Boutros, Jared T. Simpson

    Published 2016
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  10. 10
    Detecting DNA cytosine methylation using nanopore sequencing

    Detecting DNA cytosine methylation using nanopore sequencing by Jared T. Simpson, Rachael E. Workman, Philip C. Zuzarte, Matei David, Lewis Jonathan Dursi, Winston Timp

    Published 2017
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  11. 11
    Revealing nascent RNA processing dynamics with nano-COP

    Revealing nascent RNA processing dynamics with nano-COP by Heather L. Drexler, Karine Choquet, Hope E. Merens, Paul S. Tang, Jared T. Simpson, L. Stirling Churchman

    Published 2021
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  12. 12
    ABySS: A parallel assembler for short read sequence data

    ABySS: A parallel assembler for short read sequence data by Jared T. Simpson, Kim Wong, Shaun D. Jackman, Jacqueline E. Schein, Steven J.M. Jones, İnanç Birol

    Published 2009
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  13. 13
    GPU accelerated adaptive banded event alignment for rapid comparative nanopore signal analysis

    GPU accelerated adaptive banded event alignment for rapid comparative nanopore signal analysis by Hasindu Gamaarachchi, Chun Wai Lam, Gihan Jayatilaka, Hiruna Samarakoon, Jared T. Simpson, Martin A. Smith, Sri Parameswaran

    Published 2020
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  14. 14
    Capturing the dynamics of genome replication on individual ultra-long nanopore sequence reads

    Capturing the dynamics of genome replication on individual ultra-long nanopore sequence reads by Carolin A. Müller, Michael A. Boemo, Paolo Spingardi, Benedikt M. Kessler, Skirmantas Kriaučionis, Jared T. Simpson, Conrad A. Nieduszynski

    Published 2019
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  15. 15
    Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing

    Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing by Isac Lee, Roham Razaghi, Timothy Gilpatrick, Michael M. Molnar, Ariel Gershman, Norah Sadowski, Fritz J. Sedlazeck, Kasper D. Hansen, Jared T. Simpson, Winston Timp

    Published 2020
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  16. 16
    A High-Definition View of Functional Genetic Variation from Natural Yeast Genomes

    A High-Definition View of Functional Genetic Variation from Natural Yeast Genomes by Anders Bergström, Jared T. Simpson, F. Salinas, Benjamin Barré, Leopold Parts, Amin Zia, Alex N. Nguyen Ba, Alan M Moses, Edward J. Louis, Ville Mustonen, Jonas Warringer, Richard Durbin, Gianni Liti

    Published 2014
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  17. 17
    Trait Variation in Yeast Is Defined by Population History

    Trait Variation in Yeast Is Defined by Population History by Jonas Warringer, Enikö Zörgö, Francisco A. Cubillos, Amin Zia, Arne B. Gjuvsland, Jared T. Simpson, Annabelle Forsmark, Richard Durbin, Stig W. Omholt, Edward J. Louis, Gianni Liti, Alan M Moses, Anders Blomberg

    Published 2011
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  18. 18
    Revealing the genetic structure of a trait by sequencing a population under selection

    Revealing the genetic structure of a trait by sequencing a population under selection by Leopold Parts, Francisco A. Cubillos, Jonas Warringer, Kanika Jain, F. Salinas, Suzannah J. Bumpstead, Mikael Molin, Amin Zia, Jared T. Simpson, Michael A. Quail, Alan M Moses, Edward J. Louis, Richard Durbin, Gianni Liti

    Published 2011
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  19. 19
    Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks

    Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks by Helen Zhu, Liis Uusküla-Reimand, Keren Isaev, Lina Wadi, Azad Alizada, Shimin Shuai, Vincent Huang, Dike Aduluso-Nwaobasi, Marta Paczkowska, Diala Abd-Rabbo, Oliver Ocsenas, Minggao Liang, John Thompson, Yao Li, Luyao Ruan, Michał Krassowski, Irakli Dzneladze, Jared T. Simpson, Mathieu Lupien, Lincoln Stein, Paul C. Boutros, Michael D. Wilson, Jüri Reimand

    Published 2020
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  20. 20
    Nanopore native RNA sequencing of a human poly(A) transcriptome

    Nanopore native RNA sequencing of a human poly(A) transcriptome by Rachael E. Workman, Alison D. Tang, Paul S. Tang, Miten Jain, John R. Tyson, Philip C. Zuzarte, Timothy Gilpatrick, Roham Razaghi, Joshua Quick, Norah Sadowski, Nadine Holmes, Jaqueline Góes de Jesus, Karen L. Jones, Terrance P. Snutch, Nicholas J. Loman, Benedict Paten, Matthew Loose, Jared T. Simpson, Hugh E. Olsen, Angela N. Brooks, Mark Akeson, Winston Timp

    Published 2018
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