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Molecular Epidemiology of SARS-CoV-2 in Bangladesh Mahmud, Abu Sayeed Mohammad; Andersson, Patiyan; Bulach, Dieter; Duchene, Sebastian; da Silva, Anders Goncalves; Lin, Chantel; Seemann, Torsten; Howden, Benjamin P.; Stinear, Timothy P.; Taznin, Tarannum; Habib, Md. Ahashan; Akter, Shahina; Banu, Tanjina Akhtar; Sarkar, Md. Murshed Hasan; Goswami, Barna; Jahan, Iffat; Khan, Md. Salim Share Save
Genomics for antimicrobial resistance-progress and future directions Sherry, Norelle L.; Lee, Jean Y. H.; Giulieri, Stefano G.; Connor, Christopher H.; Horan, Kristy; Lacey, Jake A.; Lane, Courtney R.; Carter, Glen P.; Seemann, Torsten; Egli, Adrian; Stinear, Timothy P.; Howden, Benjamin P. Share Save
Rapid, reference- free identification of bacterial pathogen transmission using optimized split k-mer analysis Connor, Christopher H.; Higgs, Charlie K.; Horan, Kristy; Kwong, Jason C.; Grayson, M. Lindsay; Howden, Benjamin P.; Seemann, Torsten; Gorrie, Claire L.; Sherry, Norelle L. Share Save
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BenchAMRking: a Galaxy-based platform for illustrating the major issues associated with current antimicrobial resistance (AMR) gene prediction workflows Strepis, Nikolaos; Dollee, Dennis; Vrins, Donny; Vanneste, Kevin; Bogaerts, Bert; Carrillo, Catherine; Bharat, Amrita; Horan, Kristy; Sherry, Norelle L.; Seemann, Torsten; Howden, Benjamin P.; Hiltemann, Saskia; Chindelevitch, Leonid; Stubbs, Andrew P.; Hays, John P. Share Save
Benchmarking reveals superiority of deep learning variant callers on bacterial nanopore sequence data Hall, Michael B.; Wick, Ryan R.; Judd, Louise M.; Nguyen, An N.; Steinig, Eike J.; Xie, Ouli; Davies, Mark; Seemann, Torsten; Stinear, Timothy P.; Coin, Lachlan Share Save
Marine sponge microbe provides insights into evolution and virulence of the tubercle bacillus Pidot, Sacha J.; Klatt, Stephan; Ates, Louis S.; Frigui, Wafa; Sayes, Fadel; Majlessi, Laleh; Izumi, Hiroshi; Monk, Ian R.; Porter, Jessica L.; Bennett-Wood, Vicki; Seemann, Torsten; Otter, Ashley; Taiaroa, George; Cook, Gregory M.; West, Nicholas; Tobias, Nicholas J.; Fuerst, John A.; Stutz, Michael D.; Pellegrini, Marc; McConville, Malcolm; Brosch, Roland; Stinear, Timothy P. Share Save
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The two-component system WalKR provides an essential link between cell wall homeostasis and DNA replication in Staphylococcus aureus Sharkey, Liam K. R.; Guerillot, Romain; Walsh, Calum J.; Turner, Adrianna M.; Lee, Jean Y. H.; Neville, Stephanie L.; Klatt, Stephan; Baines, Sarah L.; Pidot, Sacha J.; Rossello, Fernando J.; Seemann, Torsten; Mcwilliam, Hamish E. G.; Cho, Ellie; Carter, Glen P.; Howden, Benjamin P.; Mcdevitt, Christopher A.; Hachani, Abderrahman; Stinear, Timothy P.; Monk, Ian R. Share Save
Bioinformatic investigation of discordant sequence data for SARS- CoV-2: insights for robust genomic analysis during pandemic surveillance Zufan, Sara E.; Lau, Katherine A.; Donald, Angela; Hoang, Tuyet; Foster, Charles S. P.; Sikazwe, Chisha; Theis, Torsten; Rawlinson, William D.; Ballard, Susan A.; Stinear, Timothy P.; Howden, Benjamin P.; Jennison, Amy V.; Seemann, Torsten Share Save
Genomic surveillance for antimicrobial resistance - a One Health perspective Djordjevic, Steven P.; Jarocki, Veronica M.; Seemann, Torsten; Cummins, Max L.; Watt, Anne E.; Drigo, Barbara; Wyrsch, Ethan R.; Reid, Cameron J.; Donner, Erica; Howden, Benjamin P. Share Save
A statistical genomics framework to trace bacterial genomic predictors of clinical outcomes in Staphylococcus aureus bacteremia Giulieri, Stefano G.; Guerillot, Romain; Holmes, Natasha E.; Baines, Sarah L.; Hachani, Abderrahman; Hayes, Ashleigh S.; Daniel, Diane S.; Seemann, Torsten; Davis, Joshua S.; Van Hal, Sebastiaan; Tong, Steven Y. C.; Stinear, Timothy P.; Howden, Benjamin P. Share Save
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Phylogenomic investigation of an outbreak of fluoroquinolone- resistant Salmonella enterica subsp. enterica serovar Paratyphi A in Phnom Penh, Cambodia Dusadeepong, Rutaiwan; Delvallez, Gauthier; Cheng, Sokleaph; Meng, Soda; Sreng, Navin; Letchford, Joanne; Choun, Kimcheng; Teav, Syna; Hardy, Liselotte; Jacobs, Jan; Hoang, Tuyet; Seemann, Torsten; Howden, Benjamin P.; Glaser, Philippe; Stinear, Timothy P.; Vandelannoote, Koen Share Save
Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria Mu, Andre; Klare, William P.; Baines, Sarah L.; Pang, C. N. Ignatius; Guerillot, Romain; Harbison-Price, Nichaela; Keller, Nadia; Wilksch, Jonathan; Nhu, Nguyen Thi Khanh; Phan, Minh-Duy; Keller, Bernhard; Nijagal, Brunda; Tull, Dedreia; Dayalan, Saravanan; Chua, Hwa Huat Charlie; Skoneczny, Dominik; Koval, Jason; Hachani, Abderrahman; Shah, Anup D.; Neha, Nitika; Jadhav, Snehal; Partridge, Sally R.; Cork, Amanda J.; Peters, Kate; Bertolla, Olivia; Brouwer, Stephan; Hancock, Steven J.; Alvarez-Fraga, Laura; De Oliveira, David M. P.; Forde, Brian; Dale, Ashleigh; Mujchariyakul, Warasinee; Walsh, Calum J.; Monk, Ian; Fitzgerald, Anna; Lum, Mabel; Correa-Ospina, Carolina; Chowdhury, Piklu Roy; Parton, Robert G.; De Voss, James; Beckett, James; Monty, Francois; McKinnon, Jessica; Song, Xiaomin; Stephen, John R.; Everest, Marie; Bellgard, Matt I.; Tinning, Matthew; Leeming, Michael; Hocking, Dianna; Jebeli, Leila; Wang, Nancy; Ben Zakour, Nouri; Yasar, Serhat A.; Vecchiarelli, Stefano; Russell, Tonia; Zaw, Thiri; Chen, Tyrone; Teng, Don; Kassir, Zena; Lithgow, Trevor; Jenney, Adam; Cole, Jason N.; Nizet, Victor; Sorrell, Tania C.; Peleg, Anton Y.; Paterson, David L.; Beatson, Scott A.; Wu, Jemma; Molloy, Mark P.; Syme, Anna E.; Goode, Robert J. A.; Hunter, Adam A.; Bowland, Grahame; West, Nicholas P.; Wilkins, Marc R.; Djordjevic, Steven P.; Davies, Mark R.; Seemann, Torsten; Howden, Benjamin P.; Pascovici, Dana; Tyagi, Sonika; Schittenhelm, Ralf B.; De Souza, David P.; McConville, Malcolm J.; Iredell, Jonathan R.; Cordwell, Stuart J.; Strugnell, Richard A.; Stinear, Timothy P.; Schembri, Mark A.; Walker, Mark J. Share Save
State-wide genomic epidemiology investigations of COVID-19 in healthcare workers in 2020 Victoria, Australia: Qualitative thematic analysis to provide insights for future pandemic preparedness E. Watt, Anne; L. Sherry, Norelle; Andersson, Patiyan; Lane, Courtney R.; Johnson, Sandra; Wilmot, Mathilda; Horan, Kristy; Sait, Michelle; Ballard, Susan A.; Crachi, Christina; Beck, Dianne J.; Marshall, Caroline; Kainer, Marion A.; Stuart, Rhonda; McGrath, Christian; Kwong, Jason C.; Bass, Pauline; Kelley, Peter G.; Crowe, Amy; Guy, Stephen; Macesic, Nenad; Smith, Karen; Williamson, Deborah A.; Seemann, Torsten; Howden, Benjamin P. Share Save
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