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
Published in Nucleic acids research (06.01.2023)
Published in Nucleic acids research (06.01.2023)
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Journal Article
CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database
Alcock, Brian P, Raphenya, Amogelang R, Lau, Tammy T Y, Tsang, Kara K, Bouchard, Mégane, Edalatmand, Arman, Huynh, William, Nguyen, Anna-Lisa V, Cheng, Annie A, Liu, Sihan, Min, Sally Y, Miroshnichenko, Anatoly, Tran, Hiu-Ki, Werfalli, Rafik E, Nasir, Jalees A, Oloni, Martins, Speicher, David J, Florescu, Alexandra, Singh, Bhavya, Faltyn, Mateusz, Hernandez-Koutoucheva, Anastasia, Sharma, Arjun N, Bordeleau, Emily, Pawlowski, Andrew C, Zubyk, Haley L, Dooley, Damion, Griffiths, Emma, Maguire, Finlay, Winsor, Geoff L, Beiko, Robert G, Brinkman, Fiona S L, Hsiao, William W L, Domselaar, Gary V, McArthur, Andrew G
Published in Nucleic acids research (08.01.2020)
Published in Nucleic acids research (08.01.2020)
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Journal Article
A Comparison of Whole Genome Sequencing of SARS-CoV-2 Using Amplicon-Based Sequencing, Random Hexamers, and Bait Capture
Nasir, Jalees A, Kozak, Robert A, Aftanas, Patryk, Raphenya, Amogelang R, Smith, Kendrick M, Maguire, Finlay, Maan, Hassaan, Alruwaili, Muhannad, Banerjee, Arinjay, Mbareche, Hamza, Alcock, Brian P, Knox, Natalie C, Mossman, Karen, Wang, Bo, Hiscox, Julian A, McArthur, Andrew G, Mubareka, Samira
Published in Viruses (15.08.2020)
Published in Viruses (15.08.2020)
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Journal Article
The origins and genomic diversity of American Civil War Era smallpox vaccine strains
Duggan, Ana T, Klunk, Jennifer, Porter, Ashleigh F, Dhody, Anna N, Hicks, Robert, Smith, Geoffrey L, Humphreys, Margaret, McCollum, Andrea M, Davidson, Whitni B, Wilkins, Kimberly, Li, Yu, Burke, Amanda, Polasky, Hanna, Flanders, Lowell, Poinar, Debi, Raphenya, Amogelang R, Lau, Tammy T Y, Alcock, Brian, McArthur, Andrew G, Golding, G Brian, Holmes, Edward C, Poinar, Hendrik N
Published in Genome Biology (20.07.2020)
Published in Genome Biology (20.07.2020)
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Journal Article
A standardized nomenclature for resistance-modifying agents in the Comprehensive Antibiotic Resistance Database
Smith, Keaton W, Alcock, Brian P, French, Shawn, Farha, Maya A, Raphenya, Amogelang R, Brown, Eric D, McArthur, Andrew G
Published in Microbiology spectrum (12.12.2023)
Published in Microbiology spectrum (12.12.2023)
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Journal Article
Dynamic expression profiles of virus-responsive and putative antimicrobial peptide-encoding transcripts during Atlantic cod (Gadus morhua) embryonic and early larval development
Rise, Matthew L., Hall, Jennifer R., Alcock, Brian P., Hori, Tiago S.
Published in Gene (10.11.2012)
Published in Gene (10.11.2012)
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Journal Article
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, Navanekere Rudrappa, Chandana, 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.
Published in Microbial genomics (01.09.2022)
Published in Microbial genomics (01.09.2022)
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Journal Article
CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database
Jia, Baofeng, Raphenya, Amogelang R, Alcock, Brian, Waglechner, Nicholas, Guo, Peiyao, Tsang, Kara K, Lago, Briony A, Dave, Biren M, Pereira, Sheldon, Sharma, Arjun N, Doshi, Sachin, Courtot, Mélanie, Lo, Raymond, Williams, Laura E, Frye, Jonathan G, Elsayegh, Tariq, Sardar, Daim, Westman, Erin L, Pawlowski, Andrew C, Johnson, Timothy A, Brinkman, Fiona S L, Wright, Gerard D, McArthur, Andrew G
Published in Nucleic acids research (04.01.2017)
Published in Nucleic acids research (04.01.2017)
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Journal Article
Capturing the Resistome: a Targeted Capture Method To Reveal Antibiotic Resistance Determinants in Metagenomes
Guitor, Allison K, Raphenya, Amogelang R, Klunk, Jennifer, Kuch, Melanie, Alcock, Brian, Surette, Michael G, McArthur, Andrew G, Poinar, Hendrik N, Wright, Gerard D
Published in Antimicrobial agents and chemotherapy (20.12.2019)
Published in Antimicrobial agents and chemotherapy (20.12.2019)
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Journal Article
Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package
Griffiths, Emma J, Timme, Ruth E, Mendes, Catarina Inês, Page, Andrew J, Alikhan, Nabil-Fareed, Fornika, Dan, Maguire, Finlay, Campos, Josefina, Park, Daniel, Olawoye, Idowu B, Oluniyi, Paul E, Anderson, Dominique, Christoffels, Alan, da Silva, Anders Gonçalves, Cameron, Rhiannon, Dooley, Damion, Katz, Lee S, Black, Allison, Karsch-Mizrachi, Ilene, Barrett, Tanya, Johnston, Anjanette, Connor, Thomas R, Nicholls, Samuel M, Witney, Adam A, Tyson, Gregory H, Tausch, Simon H, Raphenya, Amogelang R, Alcock, Brian, Aanensen, David M, Hodcroft, Emma, Hsiao, William W L, Vasconcelos, Ana Tereza R, MacCannell, Duncan R
Published in Gigascience (16.02.2022)
Published in Gigascience (16.02.2022)
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Journal Article
Simultaneous detection of pathogens and antimicrobial resistance genes with the open source, cloud-based, CZ ID pipeline
Langelier, Charles, Lu, Dan, Kalantar, Katrina, Chu, Victoria, Glascock, Abigail, Guerrero, Estella, Bernick, Nina, Butcher, Xochitl, Ewing, Kirsty, Fahsbender, Elizabeth, Holmes, Olivia, Hoops, Erin, Jones, Ann, Lim, Ryan, McCanny, Suzette, Reynoso, Lucia, Rosario, Karyna, Tang, Jennifer, Valenzuela, Omar, Mourani, Peter, Pickering, Amy, Raphenya, Amogelang, Alcock, Brian, McArthur, Andrew
Published in Research square (02.05.2024)
Published in Research square (02.05.2024)
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Journal Article
Simultaneous detection of pathogens and antimicrobial resistance genes with the open source, cloud-based, CZ ID pipeline
Lu, Dan, Kalantar, Katrina L, Chu, Victoria T, Glascock, Abigail L, 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
Published in bioRxiv : the preprint server for biology (18.04.2024)
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Published in bioRxiv : the preprint server for biology (18.04.2024)
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