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)
Get full text
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)
Get full text
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)
Get full text
Journal Article
Isolation, Sequence, Infectivity, and Replication Kinetics of Severe Acute Respiratory Syndrome Coronavirus 2
Banerjee, Arinjay, Nasir, Jalees A, Budylowski, Patrick, Yip, Lily, Aftanas, Patryk, Christie, Natasha, Ghalami, Ayoob, Baid, Kaushal, Raphenya, Amogelang R, Hirota, Jeremy A, Miller, Matthew S, McGeer, Allison J, Ostrowski, Mario, Kozak, Robert A, McArthur, Andrew G, Mossman, Karen, Mubareka, Samira
Published in Emerging infectious diseases (01.09.2020)
Published in Emerging infectious diseases (01.09.2020)
Get full text
Journal Article
Metformin-induced increases in GDF15 are important for suppressing appetite and promoting weight loss
Day, Emily A, Ford, Rebecca J, Smith, Brennan K, Mohammadi-Shemirani, Pedrum, Morrow, Marisa R, Gutgesell, Robert M, Lu, Rachel, Raphenya, Amogelang R, Kabiri, Mostafa, McArthur, Andrew G, McInnes, Natalia, Hess, Sibylle, Paré, Guillaume, Gerstein, Hertzel C, Steinberg, Gregory R
Published in Nature metabolism (01.12.2019)
Published in Nature metabolism (01.12.2019)
Get more information
Journal Article
The pesticide chlorpyrifos promotes obesity by inhibiting diet-induced thermogenesis in brown adipose tissue
Wang, Bo, Tsakiridis, Evangelia E, Zhang, Shuman, Llanos, Andrea, Desjardins, Eric M, Yabut, Julian M, Green, Alexander E, Day, Emily A, Smith, Brennan K, Lally, James S V, Wu, Jianhan, Raphenya, Amogelang R, Srinivasan, Krishna A, McArthur, Andrew G, Kajimura, Shingo, Patel, Jagdish Suresh, Wade, Michael G, Morrison, Katherine M, Holloway, Alison C, Steinberg, Gregory R
Published in Nature communications (27.08.2021)
Published in Nature communications (27.08.2021)
Get full text
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)
Get full text
Journal Article
Failed Recovery of Glycemic Control and Myofibrillar Protein Synthesis With 2 wk of Physical Inactivity in Overweight, Prediabetic Older Adults
McGlory, Chris, von Allmen, Mark T, Stokes, Tanner, Morton, Robert W, Hector, Amy J, Lago, Briony A, Raphenya, Amogelang R, Smith, Brennan K, McArthur, Andrew G, Steinberg, Gregory R, Baker, Steven K, Phillips, Stuart M
Published in The journals of gerontology. Series A, Biological sciences and medical sciences (09.07.2018)
Published in The journals of gerontology. Series A, Biological sciences and medical sciences (09.07.2018)
Get more information
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)
Get full text
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)
Get full text
Journal Article
Capturing the antibiotic resistome of preterm infants reveals new benefits of probiotic supplementation
Guitor, Allison K., Yousuf, Efrah I., Raphenya, Amogelang R., Hutton, Eileen K., Morrison, Katherine M., McArthur, Andrew G., Wright, Gerard D., Stearns, Jennifer C.
Published in Microbiome (26.08.2022)
Published in Microbiome (26.08.2022)
Get full text
Journal Article
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.
Published in Molecular metabolism (Germany) (01.07.2022)
Published in Molecular metabolism (Germany) (01.07.2022)
Get full text
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)
Get full text
Journal Article
Datasets for benchmarking antimicrobial resistance genes in bacterial metagenomic and whole genome sequencing
Raphenya, Amogelang R, Robertson, James, Jamin, Casper, de Oliveira Martins, Leonardo, Maguire, Finlay, McArthur, Andrew G, Hays, John P
Published in Scientific data (15.06.2022)
Published in Scientific data (15.06.2022)
Get full text
Journal Article
Functional relatedness in the Inv/Mxi‐Spa type III secretion system family
Klein, Jessica A., Dave, Biren M., Raphenya, Amogelang R., McArthur, Andrew G., Knodler, Leigh A.
Published in Molecular microbiology (01.03.2017)
Published in Molecular microbiology (01.03.2017)
Get full text
Journal Article
The transcription factor, Nuclear factor, erythroid 2 (Nfe2), is a regulator of the oxidative stress response during Danio rerio development
Williams, Larissa M., Lago, Briony A., McArthur, Andrew G., Raphenya, Amogelang R., Pray, Nicholas, Saleem, Nabil, Salas, Sophia, Paulson, Katherine, Mangar, Roshni S., Liu, Yang, Vo, Andy H., Shavit, Jordan A.
Published in Aquatic toxicology (01.11.2016)
Published in Aquatic toxicology (01.11.2016)
Get full text
Journal Article
Performance Characteristics of Next-Generation Sequencing for the Detection of Antimicrobial Resistance Determinants in Escherichia coli Genomes and Metagenomes
Rooney, Ashley M, Raphenya, Amogelang R, Melano, Roberto G, Seah, Christine, Yee, Noelle R, MacFadden, Derek R, McArthur, Andrew G, Schneeberger, Pierre H H, Coburn, Bryan
Published in mSystems (28.06.2022)
Published in mSystems (28.06.2022)
Get full text
Journal Article
Enabling genomic island prediction and comparison in multiple genomes to investigate bacterial evolution and outbreaks
Bertelli, Claire, Gray, Kristen L, Woods, Nolan, Lim, Adrian C, Tilley, Keith E, Winsor, Geoffrey L, Hoad, Gemma R, Roudgar, Ata, Spencer, Adam, Peltier, James, Warren, Derek, Raphenya, Amogelang R, McArthur, Andrew G, Brinkman, Fiona S L
Published in Microbial genomics (01.05.2022)
Published in Microbial genomics (01.05.2022)
Get full text
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)
Get full text
Journal Article
Macrophage AMPK β1 activation by PF-06409577 reduces the inflammatory response, cholesterol synthesis, and atherosclerosis in mice
Day, Emily A., Townsend, Logan K., Rehal, Sonia, Batchuluun, Battsetseg, Wang, Dongdong, Morrow, Marisa R., Lu, Rachel, Lundenberg, Lucie, Lu, Jessie H., Desjardins, Eric M., Smith, Tyler K.T., Raphenya, Amogelang R., McArthur, Andrew G., Fullerton, Morgan D., Steinberg, Gregory R.
Published in iScience (17.11.2023)
Published in iScience (17.11.2023)
Get full text
Journal Article