Search Results - Justin M Zook

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  1. 1

    Jointly benchmarking small and structural variant calls with vcfdist by Tim Dunn, Justin M. Zook, James M. Holt, Satish Narayanasamy

    Published in Genome Biology (2024-10-01)
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  2. 2

    Challenging a bioinformatic tool’s ability to detect microbial contaminants using in silico whole genome sequencing data by Nathan D. Olson, Justin M. Zook, Jayne B. Morrow, Nancy J. Lin

    Published in PeerJ (2017-09-01)
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  3. 3

    LongTR: genome-wide profiling of genetic variation at tandem repeats from long reads by Helyaneh Ziaei Jam, Justin M. Zook, Sara Javadzadeh, Jonghun Park, Aarushi Sehgal, Melissa Gymrek

    Published in Genome Biology (2024-07-01)
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  4. 4

    StratoMod: predicting sequencing and variant calling errors with interpretable machine learning by Nathan Dwarshuis, Peter Tonner, Nathan D. Olson, Fritz J. Sedlazeck, Justin Wagner, Justin M. Zook

    Published in Communications Biology (2024-10-01)
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  5. 5

    The GIAB genomic stratifications resource for human reference genomes by Nathan Dwarshuis, Divya Kalra, Jennifer McDaniel, Philippe Sanio, Pilar Alvarez Jerez, Bharati Jadhav, Wenyu (Eddy) Huang, Rajarshi Mondal, Ben Busby, Nathan D. Olson, Fritz J. Sedlazeck, Justin Wagner, Sina Majidian, Justin M. Zook

    Published in Nature Communications (2024-10-01)
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  6. 6

    Best Practices for Evaluating Single Nucleotide Variant Calling Methods for Microbial Genomics by Nathan eOlson, Steven P. Lund, Rebecca E. Colman, Jeffrey T Foster, Jason W Sahl, James M Schupp, Paul eKeim, Paul eKeim, Jayne B Morrow, Marc L Salit, Marc L Salit, Justin M Zook

    Published in Frontiers in Genetics (2015-07-01)
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  7. 7

    A crowdsourced set of curated structural variants for the human genome. by Lesley M Chapman, Noah Spies, Patrick Pai, Chun Shen Lim, Andrew Carroll, Giuseppe Narzisi, Christopher M Watson, Christos Proukakis, Wayne E Clarke, Naoki Nariai, Eric Dawson, Garan Jones, Daniel Blankenberg, Christian Brueffer, Chunlin Xiao, Sree Rohit Raj Kolora, Noah Alexander, Paul Wolujewicz, Azza E Ahmed, Graeme Smith, Saadlee Shehreen, Aaron M Wenger, Marc Salit, Justin M Zook

    Published in PLoS Computational Biology (2020-06-01)
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  8. 8

    Small variant benchmark from a complete assembly of X and Y chromosomes by Justin Wagner, Nathan D. Olson, Jennifer McDaniel, Lindsay Harris, Brendan J. Pinto, David Jáspez, Adrián Muñoz-Barrera, Luis A. Rubio-Rodríguez, José M. Lorenzo-Salazar, Carlos Flores, Sayed Mohammad Ebrahim Sahraeian, Giuseppe Narzisi, Marta Byrska-Bishop, Uday S. Evani, Chunlin Xiao, Juniper A. Lake, Peter Fontana, Craig Greenberg, Donald Freed, Mohammed Faizal Eeman Mootor, Paul C. Boutros, Lisa Murray, Kishwar Shafin, Andrew Carroll, Fritz J. Sedlazeck, Melissa Wilson, Justin M. Zook

    Published in Nature Communications (2025-01-01)
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  9. 9

    Interlaboratory assessment of candidate reference materials for lentiviral vector copy number and integration site measurements by Hua-Jun He, Zhiyong He, Steven P. Lund, Laure Turner, Yongjun Fan, Yu Qiu, David C. Corney, Boro Dropulic, Rimas Orentas, Oxana Slessareva, Priscilla Welch, Katie Dungca, Ellen Stelloo, Gabrielle Dijksteel, Harma Feitsma, Sana Ahmed-Seghir, Rostyslav Makarenko, Engin Altunlu, Daniëlle Steenmans, Jan Spanholtz, Monica Raimo, Shai Senderovich, Barbara S. Paugh, Chieh-Yuan Li, Benjamin Schroeder, Alexandra S. Whale, Dilek Yener, Carole A. Foy, Shareef Nahas, Feng Tu, Michael Sheldon, Yan Ding, Jennifer Kandell, Uma Lakshmipathy, Jennifer H. McDaniel, Justin M. Zook, Sierra Miller, Samantha Maragh, Simona Patange, Mahir Mohiuddin, Alessandro Tona, Kenneth D. Cole, Sheng Lin-Gibson

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  10. 10

    Correction: Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair by Jennifer H. McDaniel, Vaidehi Patel, Nathan D. Olson, Hua-Jun He, Zhiyong He, Kenneth D. Cole, Alexander A. Gooden, Anthony Schmitt, Kristin Sikkink, Fritz J. Sedlazeck, Harsha Doddapaneni, Shalini N. Jhangiani, Donna M. Muzny, Marie-Claude Gingras, Heer Mehta, Sairam Behera, Luis F. Paulin, Alex R. Hastie, Hung-Chun Yu, Victor Weigman, Alison Rojas, Katie Kennedy, Jamie Remington, Isai Salas-González, Mitch Sudkamp, Kelly Wiseman, Bryan R. Lajoie, Shawn Levy, Miten Jain, Stuart Akeson, Giuseppe Narzisi, Zoe Steinsnyder, Catherine Reeves, Jennifer Shelton, Sarah B. Kingan, Christine Lambert, Primo Baybayan, Aaron M. Wenger, Ian J. McLaughlin, Aaron Adamson, Christopher Kingsley, Melanie Wescott, Young Kim, Benedict Paten, Jimin Park, Ivo Violich, Karen H. Miga, Joshua Gardner, Brandy McNulty, Gail L. Rosen, Rajiv McCoy, Francesco Brundu, Erfan Sayyari, Konrad Scheffler, Sean Truong, Severine Catreux, Lesley Chapman Hannah, Doron Lipson, Hila Benjamin, Nika Iremadze, Ilya Soifer, Gat Krieger, Stephen Eacker, Mary Wood, Erin Cross, Greg Husar, Stephen Gross, Michael Vernich, Mikhail Kolmogorov, Tanveer Ahmad, Ayse G. Keskus, Asher Bryant, Francoise Thibaud-Nissen, Jonathan Trow, Jacqueline Proszynski, Jeremy Wain Hirschberg, Krista Ryon, Christopher E. Mason, Mital S. Bhakta, J. Zachary Sanborn, Elizabeth M. Munding, Justin Wagner, Chunlin Xiao, Andrew S. Liss, Justin M. Zook

    Published in Scientific Data (2025-08-01)
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  11. 11

    Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair by Jennifer H. McDaniel, Vaidehi Patel, Nathan D. Olson, Hua-Jun He, Zhiyong He, Kenneth D. Cole, Alexander A. Gooden, Anthony Schmitt, Kristin Sikkink, Fritz J. Sedlazeck, Harsha Doddapaneni, Shalini N. Jhangiani, Donna M. Muzny, Marie-Claude Gingras, Heer Mehta, Sairam Behera, Luis F. Paulin, Alex R. Hastie, Hung-Chun Yu, Victor Weigman, Alison Rojas, Katie Kennedy, Jamie Remington, Isai Salas-González, Mitch Sudkamp, Kelly Wiseman, Bryan R. Lajoie, Shawn Levy, Miten Jain, Stuart Akeson, Giuseppe Narzisi, Zoe Steinsnyder, Catherine Reeves, Jennifer Shelton, Sarah B. Kingan, Christine Lambert, Primo Baybayan, Aaron M. Wenger, Ian J. McLaughlin, Aaron Adamson, Christopher Kingsley, Melanie Wescott, Young Kim, Benedict Paten, Jimin Park, Ivo Violich, Karen H. Miga, Joshua Gardner, Brandy McNulty, Gail L. Rosen, Rajiv McCoy, Francesco Brundu, Erfan Sayyari, Konrad Scheffler, Sean Truong, Severine Catreux, Lesley Chapman Hannah, Doron Lipson, Hila Benjamin, Nika Iremadze, Ilya Soifer, Gat Krieger, Stephen Eacker, Mary Wood, Erin Cross, Greg Husar, Stephen Gross, Michael Vernich, Mikhail Kolmogorov, Tanveer Ahmad, Ayse G. Keskus, Asher Bryant, Francoise Thibaud-Nissen, Jonathan Trow, Jacqueline Proszynski, Jeremy Wain Hirschberg, Krista Ryon, Christopher E. Mason, Mital S. Bhakta, J. Zachary Sanborn, Elizabeth M. Munding, Justin Wagner, Chunlin Xiao, Andrew S. Liss, Justin M. Zook

    Published in Scientific Data (2025-07-01)
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