Search Results - Terrance Shea

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  1. 1
    Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning

    Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning by Brian Cleary, Ilana Brito, Katherine Huang, Dirk Gevers, Terrance Shea, Sarah Young, Eric J. Alm

    Published 2015
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  2. 2
    Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

    Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement by Bruce J. Walker, Thomas Abeel, Terrance Shea, Margaret Priest, Amr Abouelliel, Sharadha Sakthikumar, Christina A. Cuomo, Qiandong Zeng, Jennifer R. Wortman, Sarah Young, Ashlee M. Earl

    Published 2014
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  3. 3
    Clade-specific chromosomal rearrangements and loss of subtelomeric adhesins in <i>Candida auris</i>

    Clade-specific chromosomal rearrangements and loss of subtelomeric adhesins in <i>Candida auris</i> by José F. Muñoz, Rory M. Welsh, Terrance Shea, Dhwani Batra, Lalitha Gade, Dakota Howard, Lori A. Rowe, Jacques F. Meis, Anastasia P. Litvintseva, Christina A. Cuomo

    Published 2021
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  4. 4
    Paired-end sequencing of Fosmid libraries by Illumina

    Paired-end sequencing of Fosmid libraries by Illumina by Louise Williams, Diana Tabbaa, Na Li, Aaron M. Berlin, Terrance Shea, Iain MacCallum, Michael S. Lawrence, Yotam Drier, Gad Getz, Sarah Young, David B. Jaffe, Chad Nusbaum, Andreas Gnirke

    Published 2012
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  5. 5
    ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads

    ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads by Iain MacCallum, Dariusz Przybylski, Sante Gnerre, Joshua N. Burton, Ilya Shlyakhter, Andreas Gnirke, Joel A. Malek, Kevin McKernan, Swati Ranade, Terrance Shea, Louise Williams, Sarah Young, Chad Nusbaum, David B. Jaffe

    Published 2009
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  6. 6
    Finished bacterial genomes from shotgun sequence data

    Finished bacterial genomes from shotgun sequence data by Filipe J. Ribeiro, Dariusz Przybylski, Shuangye Yin, Ted Sharpe, Sante Gnerre, Amr Abouelleil, Aaron M. Berlin, Anna Montmayeur, Terrance Shea, Bruce J. Walker, Sarah Young, Carsten Russ, Chad Nusbaum, Iain MacCallum, David B. Jaffe

    Published 2012
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  7. 7
    A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands

    A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands by Rhys A. Farrer, Miwha Chang, Michael J. Davis, Lucy van Dorp, Dong-Hoon Yang, Terrance Shea, Thomas R. Sewell, Wieland Meyer, François Balloux, Hannah M. Edwards, Duncan Chanda, Geoffrey Kwenda, Mathieu Vanhove, Yun C. Chang, Christina A. Cuomo, Matthew C. Fisher, Kyung J. Kwon‐Chung

    Published 2019
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  8. 8
    Genomic and functional analyses of Mycobacterium tuberculosis strains implicate ald in D-cycloserine resistance

    Genomic and functional analyses of Mycobacterium tuberculosis strains implicate ald in D-cycloserine resistance by Christopher A. Desjardins, Keira A. Cohen, Vanisha Munsamy, Thomas Abeel, Kashmeel Maharaj, Bruce J. Walker, Terrance Shea, Deepak V. Almeida, Abigail L. Manson, Alex Salazar, Nesri Padayatchi, Max R. O’Donnell, Koleka Mlisana, Jennifer R. Wortman, Susan J. Birren, J Grosset, Ashlee M. Earl, Alexander S. Pym

    Published 2016
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  9. 9
    High-quality draft assemblies of mammalian genomes from massively parallel sequence data

    High-quality draft assemblies of mammalian genomes from massively parallel sequence data by Sante Gnerre, Iain MacCallum, Dariusz Przybylski, Filipe J. Ribeiro, Joshua N. Burton, Bruce J. Walker, Ted Sharpe, Giles Hall, Terrance Shea, Sean M. Sykes, Aaron M. Berlin, Daniel Aird, Maura Costello, Riza M. Daza, Louise Williams, Robert Nicol, Andreas Gnirke, Chad Nusbaum, Eric S. Lander, David B. Jaffe

    Published 2010
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  10. 10
    Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors

    Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors... by Angela Williams, Mamta Sharma, Louise F. Thatcher, Sarwar Azam, James K. Hane, Jana Sperschneider, Brendan N. Kidd, Jonathan P. Anderson, Raju Ghosh, Gagan Garg, Judith Lichtenzveig, Harold Kistler, Terrance Shea, Sarah Young, Sally Buck, Lars G. Kamphuis, Rachit K. Saxena, S. Pande, Li‐Jun Ma, Rajeev K. Varshney, Karam B. Singh

    Published 2016
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  11. 11
    Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen <i>Trichophyton rubrum</i>

    Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen <i>Trichophyton rubrum</i> by Gabriela Félix Persinoti, Diego Martinez, Wen‐Jun Li, Aylin Döğen, R. Blake Billmyre, Anna Floyd Averette, Jonathan M. Goldberg, Terrance Shea, Sarah Young, Qiandong Zeng, Brian G. Oliver, Richard Barton, Banu Metin, Süleyha Hilmioğlu Polat, Macit İlkit, Yvonne Gräser, Nilce Maria Martinez-Rossi, Theodore C. White, Joseph Heitman, Christina A. Cuomo

    Published 2018
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  12. 12
    Whole genome analysis illustrates global clonal population structure of the ubiquitous dermatophyte pathogen<i>Trichophyton rubrum</i>

    Whole genome analysis illustrates global clonal population structure of the ubiquitous dermatophyte pathogen<i>Trichophyton rubrum</i> by Gabriela Félix Persinoti, Diego Martinez, Wen‐Jun Li, Aylin Döğen, R. Blake Billmyre, Anna Floyd Averette, Jonathan M. Goldberg, Terrance Shea, Sarah Young, Qiandong Zeng, Brian G. Oliver, Richard Barton, Banu Metin, Süleyha Hilmioğlu Polat, Macit İlkit, Yvonne Gräser, Nilce Maria Martinez-Rossi, Theodore C. White, Joseph Heitman, Christina A. Cuomo

    Published 2018
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  13. 13
    The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes

    The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes by Yong Zhang, Yang He, David Turrà, Shiguo Zhou, Dilay Hazal Ayhan, Gregory A. DeIulio, Li Guo, Karen Broz, Nathan P. Wiederhold, Jeffrey J. Coleman, Kerry O’ Donnell, Ilan Youngster, Alexander J. McAdam, Sergey N. Savinov, Terrance Shea, Sarah Young, Qiandong Zeng, Martijn Rep, Eric Pearlman, David C. Schwartz, Antonio Di Pietro, Harold Kistler, Li‐Jun Ma

    Published 2020
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  14. 14
    Global diversity of enterococci and description of 18 previously unknown species

    Global diversity of enterococci and description of 18 previously unknown species by Julia Schwartzman, François Lebreton, Rauf Salamzade, Terrance Shea, Melissa J. Martin, Katharina Schaufler, Aysun Urhan, Thomas Abeel, Ilana Lopes Baratella da Cunha Camargo, Bruna F. Sgardioli, Janira Prichula, Ana Paula Guedes Frazzon, Gonzalo Giribet, Daria Van Tyne, Gregg Treinish, Charles J. Innis, Jaap A. Wagenaar, Ryan M. Whipple, Abigail L. Manson, Ashlee M. Earl, Michael S. Gilmore

    Published 2024
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  15. 15
    An Improved Canine Genome and a Comprehensive Catalogue of Coding Genes and Non-Coding Transcripts

    An Improved Canine Genome and a Comprehensive Catalogue of Coding Genes and Non-Coding Transcripts by Marc P. Hoeppner, Andrew L. Lundquist, Mono Pirun, Jennifer R. S. Meadows, Neda Zamani, Jeremy Johnson, Görel Sundström, April Cook, Michael G. FitzGerald, Ross Swofford, Evan Mauceli, Behrooz Torabi Moghadam, Anna Greka, Jessica Alföldi, Amr Abouelleil, Lynne Aftuck, Daniel Bessette, Aaron Berlin, Adam Brown, Gary Gearin, Annie Lui, J. Pendexter Macdonald, Margaret Priest, Terrance Shea, Jason Turner-Maier, Andrew Zimmer, Eric S. Lander, Federica Di Palma, Kerstin Lindblad‐Toh, Manfred Grabherr

    Published 2014
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  16. 16
    Comparative Genome Analysis of <i>Trichophyton rubrum</i> and Related Dermatophytes Reveals Candidate Genes Involved in Infection

    Comparative Genome Analysis of <i>Trichophyton rubrum</i> and Related Dermatophytes Reveals Candidate Genes Involved in Infection by Diego Martinez, Brian G. Oliver, Yvonne Gräser, Jonathan M. Goldberg, Wenjun Li, Nilce Maria Martinez-Rossi, Michel Monod, Ekaterina Shelest, Richard Barton, Elizabeth Birch, Axel A. Brakhage, Zehua Chen, Sarah J. Gurr, David I. Heiman, Joseph Heitman, Idit Kosti, Antônio Rossi, Sakina Saif, Marketa Samalova, Charles W. Saunders, Terrance Shea, Richard C. Summerbell, Jun Xu, Sarah Young, Qiandong Zeng, Susan J. Birren, Christina A. Cuomo, Theodore C. White

    Published 2012
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  17. 17
    Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks

    Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks by Gustavo Cerqueira, Ashlee M. Earl, Christoph M. Ernst, Yonatan H. Grad, John P. Dekker, Michael Feldgarden, Sinéad B. Chapman, João Luís Reis-Cunha, Terrance Shea, Sarah Young, Qiandong Zeng, Mary L. Delaney, Diane Kim, Ellena M. Peterson, Thomas O’Brien, Mary Jane Ferraro, David C. Hooper, Susan S. Huang, James E. Kirby, Andrew B. Onderdonk, Susan J. Birren, Deborah T. Hung, Lisa A. Cosimi, Jennifer R. Wortman, Cheryl I. Murphy, William P. Hanage

    Published 2017
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  18. 18
    Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance

    Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance by Rauf Salamzade, Abigail L. Manson, Bruce J. Walker, Thea Brennan-Krohn, Colin J. Worby, Peijun Ma, Lorrie L. He, Terrance Shea, James Qu, Sinéad B. Chapman, Whitney Howe, Sarah Young, Jenna I. Wurster, Mary L. Delaney, Sanjat Kanjilal, Andrew B. Onderdonk, Cassiana E. Bittencourt, Gabrielle Gussin, Diane Kim, Ellena M. Peterson, Mary Jane Ferraro, David C. Hooper, Erica S. Shenoy, Christina A. Cuomo, Lisa A. Cosimi, Susan S. Huang, James E. Kirby, Virginia Pierce, Roby P. Bhattacharyya, Ashlee M. Earl

    Published 2022
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  19. 19
    Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal

    Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal by Keira A. Cohen, Thomas Abeel, Abigail L. Manson, Christopher A. Desjardins, Vanisha Munsamy, Terrance Shea, Bruce J. Walker, Nonkqubela Bantubani, Deepak V. Almeida, Lucia Alvarado, Sinéad B. Chapman, Nomonde R. Mvelase, Eamon Duffy, Michael G. FitzGerald, Pamla Govender, Sharvari Gujja, Susanna Hamilton, Clinton Howarth, Jeffrey D. Larimer, Kashmeel Maharaj, Matthew D. Pearson, Margaret Priest, Qiandong Zeng, Nesri Padayatchi, J Grosset, Sarah Young, Jennifer R. Wortman, Koleka Mlisana, Max R. O’Donnell, Susan J. Birren, William R. Bishai, Alexander S. Pym, Ashlee M. Earl

    Published 2015
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  20. 20
    Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome

    Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome by Eileen P. Hamilton, Aurélie Kapusta, Piroska Hüvös, Shelby Bidwell, Nikhat Zafar, Haibao Tang, Michalis Hadjithomas, Vivek Krishnakumar, Jonathan H. Badger, Elisabet Caler, Carsten Russ, Qiandong Zeng, Fan Lin, Joshua Z. Levin, Terrance Shea, Sarah Young, Ryan Hegarty, Riza M. Daza, Sharvari Gujja, Jennifer R. Wortman, Bruce W. Birren, Chad Nusbaum, Jainy Thomas, Clayton M. Carey, Ellen J. Pritham, Cédric Feschotte, Tomoko Noto, Kazufumi Mochizuki, Romeo Papazyan, Sean D. Taverna, Paul H. Dear, Donna Cassidy-Hanley, Jie Xiong, Wei Miao, Eduardo Orias, Robert S. Coyne

    Published 2016
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