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Investigating in-hospital transmission of Clostridioides difficile from asymptomatic patients Baker, Sheridan J. C.; Maciejewski, Julia; Usuanlele, Mary-Theresa; Gilchrist, Jodi; Sharma, Dhundi Raj; Bulir, David; Smieja, Marek; Loeb, Mark; Surette, Michael G.; McArthur, Andrew G.; Mertz, Dominik Share Save
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Simultaneous detection of pathogens and antimicrobial resistance genes with the open source, cloud-based, CZ ID platform Lu, Dan; Kalantar, Katrina L.; Glascock, Abigail L.; Chu, Victoria T.; Guerrero, Estella S.; Bernick, Nina; Butcher, Xochitl; Ewing, Kirsty; Fahsbender, Elizabeth; Holmes, Olivia; Hoops, Erin; Jones, Ann E.; Lim, Ryan; McCanny, Suzette; Reynoso, Lucia; Rosario, Karyna; Tang, Jennifer; Valenzuela, Omar; Mourani, Peter M.; Pickering, Amy J.; Raphenya, Amogelang R.; Alcock, Brian P.; McArthur, Andrew G.; Langelier, Charles R. Share Save
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Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study Nirmalarajah, Kuganya; Aftanas, Patryk; Barati, Shiva; Chien, Emily; Crowl, Gloria; Faheem, Amna; Farooqi, Lubna; Jamal, Alainna J.; Khan, Saman; Kotwa, Jonathon D.; Li, Angel X.; Mozafarihashjin, Mohammad; Nasir, Jalees A.; Shigayeva, Altynay; Yim, Winfield; Yip, Lily; Zhong, Xi Zoe; Katz, Kevin; Kozak, Robert; Mcarthur, Andrew G.; Daneman, Nick; Maguire, Finlay; Mcgeer, Allison J.; Duvvuri, Venkata R.; Mubareka, Samira Share Save
SARS-CoV-2 Illumina GeNome Assembly Line (SIGNAL), a Snakemate workflow for rapid and bulk analysis of Illumina sequencing of SARS-CoV-2 genomes Nasir, Jalees A.; Maguire, Finlay; Smith, Kendrick M.; Panousis, Emily M.; Baker, Sheridan J. C.; Aftanas, Patryk; Raphenya, Amogelang R.; Alcock, Brian P.; Maan, Hassaan; Knox, Natalie C.; Banerjee, Arinjay; Mossman, Karen; Wang, Bo; Simpson, Jared T.; Kozak, Robert A.; Mubareka, Samira; Mcarthur, Andrew G. Share Save
Diversity, functional classification and genotyping of SHV /3-lactamases in Klebsiella pneumoniae Tsang, Kara K.; Lam, Margaret M. C.; Wick, Ryan R.; Wyres, Kelly L.; Bachman, Michael; Baker, Stephen; Barry, Katherine; Brisse, Sylvain; Campino, Susana; Chiaverini, Alexandra; Cirillo, Daniela Maria; Clark, Taane; Corander, Jukka; Corbella, Marta; Cornacchia, Alessandra; Cuenod, Aline; D'Alterio, Nicola; Di Marco, Federico; Donado-Godoy, Pilar; Egli, Adrian; Farzana, Refath; Feil, Edward J.; Fostervold, Aasmund; Gorrie, Claire L.; Hassan, Brekhna; Hetland, Marit Andrea Klokkhammer; Hoa, Le Nguyen Minh; Hoi, Le Thi; Howden, Benjamin; Ikhimiukor, Odion O.; Jenney, Adam W. J.; Kaspersen, Hakon; Khokhar, Fahad; Leangapichart, Thongpan; Ligowska-Marzeta, Malgorzata; Lohr, Iren Hoyland; Long, Scott W.; Mathers, Amy J.; Mcarthur, Andrew G.; Nagaraj, Geetha; Oaikhena, Anderson O.; Okeke, Iruka N.; Perdigao, Joao; Parikh, Hardik; Pham, My H.; Pomilio, Francesco; Raffelsberger, Niclas; Rakotondrasoa, Andriniaina; Kumar, K. L. Ravi; Roberts, Leah W.; Rodrigues, Carla; Samuelsen, Orjan; Sands, Kirsty; Sassera, Davide; Seth-Smith, Helena; Shamanna, Varun; Sherry, Norelle L.; Sia, Sonia; Spadar, Anton; Stoesser, Nicole; Sunde, Marianne; Sundsfjord, Arnfinn; Thach, Pham Ngoc; Thomson, Nicholas R.; Thorpe, Harry A.; Torok, M. Estee; Trang, Van Dinh; Trung, Nguyen Vu; Vornhagen, Jay; Walsh, Timothy; Warne, Ben; Wilson, Hayley; Wright, Gerard D.; Holt, Kathryn E. Share Save
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Sensitivity to Neutralizing Antibodies and Resistance to Type I Interferons in SARS-CoV-2 R.1 Lineage Variants, Canada Jacob, Rajesh Abraham; Zhang, Ali; Ajoge, Hannah O.; D'Agostino, Michael R.; Nirmalarajah, Kuganya; Shigayeva, Altynay; Demian, Wael L.; Baker, Sheridan J. C.; Derakhshani, Hooman; Rossi, Laura; Nasir, Jalees A.; Panousis, Emily M.; Draia, Ahmed N.; Vermeiren, Christie; Gilchrist, Jodi; Smieja, Nicole; Bulir, David; Smieja, Marek; Surette, Michael G.; McArthur, Andrew G.; McGeer, Allison J.; Mubareka, Samira; Banerjee, Arinjay; Miller, Matthew S.; Mossman, Karen Share Save
SARS-CoV-2 Outbreak Investigation Using Contact Tracing and Whole-Genome Sequencing in an Ontario Tertiary Care Hospital Tsang, Kara K.; Ahmad, Shehryar; Aljarbou, Alanoud; Al Salem, Mohammed; Baker, Sheridan J. C.; Panousis, Emily M.; Derakhshani, Hooman; Rossi, Laura; Nasir, Jalees A.; Bulir, David C.; Surette, Michael G.; Lee, Robyn S.; Smaill, Fiona; Mertz, Dominik; McArthur, Andrew G.; Khan, Sarah Share Save
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CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database Alcock, Brian P.; Huynh, William; Chalil, Romeo; Smith, Keaton W.; Raphenya, Amogelang R.; Wlodarski, Mateusz A.; Edalatmand, Arman; Petkau, Aaron; Syed, Sohaib A.; Tsang, Kara K.; Baker, Sheridan J. C.; Dave, Mugdha; McCarthy, Madeline C.; Mukiri, Karyn M.; Nasir, Jalees A.; Golbon, Bahar; Imtiaz, Hamna; Jiang, Xingjian; Kaur, Komal; Kwong, Megan; Liang, Zi Cheng; Niu, Keyu C.; Shan, Prabakar; Yang, Jasmine Y. J.; Gray, Kristen L.; Hoad, Gemma R.; Jia, Baofeng; Bhando, Timsy; Carfrae, Lindsey A.; Farha, Maya A.; French, Shawn; Gordzevich, Rodion; Rachwalski, Kenneth; Tu, Megan M.; Bordeleau, Emily; Dooley, Damion; Griffiths, Emma; Zubyk, Haley L.; Brown, Eric D.; Maguire, Finlay; Beiko, Robert G.; Hsiao, William W. L.; Brinkman, Fiona S. L.; Van Domselaar, Gary; McArthur, Andrew G. Share Save
Exploring the mobilome and resistome of Enterococcus faecium in a One Health context across two continents Sanderson, Haley; Gray, Kristen L.; Manuele, Alexander; Maguire, Finlay; Khan, Amjad; Liu, Chaoyue; Rudrappa, Chandana Navanekere; Nash, John H. E.; Robertson, James; Bessonov, Kyrylo; Oloni, Martins; Alcock, Brian P.; Raphenya, Amogelang R.; McAllister, Tim A.; Peacock, Sharon J.; Raven, Kathy E.; Gouliouris, Theodore; McArthur, Andrew G.; Brinkman, Fiona S. L.; Fink, Ryan C.; Zaheer, Rahat; Beiko, Robert G. Share Save
Machine Learning for Antimicrobial Resistance Prediction: Current Practice, Limitations, and Clinical Perspective Kim, Jee In; Maguire, Finlay; Tsang, Kara K.; Gouliouris, Theodore; Peacock, Sharon J.; McAllister, Tim A.; McArthur, Andrew G.; Beiko, Robert G. Share Save
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Metformin-induced reductions in tumor growth involves modulation of the gut microbiome Broadfield, Lindsay A.; Saigal, Amna; Szamosi, Jake C.; Hammill, Joanne A.; Bezverbnaya, Ksenia; Wang, Dongdong; Gautam, Jaya; Tsakiridis, Evangelia E.; Di Pastena, Fiorella; McNicol, Jamie; Wu, Jianhan; Syed, Saad; Lally, James S. V.; Raphenya, Amogelang R.; Blouin, Marie-Jose; Pollak, Michael; Sacconi, Andrea; Blandino, Giovanni; McArthur, Andrew G.; Schertzer, Jonathan D.; Surette, Michael G.; Collins, Stephen M.; Bramson, Jonathan L.; Muti, Paola; Tsakiridis, Theodoros; Steinberg, Gregory R. Share Save
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