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Insights into Treponema pallidum genomics from modern and ancient genomes using a novel mapping strategy 利用新型映射策略从现代和古代基因组中获得的关于*Treponema pallidum*基因组学的见解 Pla-Diaz, Marta; Akgul, Gulfirde; Molak, Martyna; du Plessis, Louis; Panagiotopoulou, Hanna; Doan, Karolina; Bogdanowicz, Wieslaw; Dabrowski, Pawel; Oziemblowski, Maciej; Kwiatkowska, Barbara; Szczurowski, Jacek; Grzelak, Joanna; Arora, Natasha; Majander, Kerttu; Gonzalez-Candelas, Fernando; Schuenemann, Verena J. 分享 收藏
Genomic epidemiology of early SARS-CoV-2 transmission dynamics in Bangladesh Carnegie, L.; Mccrone, J. T.; du Plessis, L.; Hasan, M.; Ali, M. Z.; Begum, R.; Hassan, M. Z.; Islam, S.; Rahman, M. H.; Uddin, A. S. M.; Sarker, M. S.; Das, T.; Hossain, M.; Khan, M.; Razu, M. H.; Akram, A.; Arina, S.; Hoque, E.; Molla, M. M. A.; Nafisaa, T.; Angra, P.; Rambaut, A.; Pullan, S. T.; Osman, K. L.; Hoque, M. A.; Biswas, P.; Flora, M. S.; Raghwani, J.; Fournie, G.; Samad, M. A.; Hill, S. C. 分享 收藏
V-pipe 3.0: a sustainable pipeline for within-sample viral genetic diversity estimation Fuhrmann, Lara; Jablonski, Kim Philipp; Topolsky, Ivan; Batavia, Aashil A.; Borgsmueller, Nico; Baykal, Pelin Icer; Carrara, Matteo; Chen, Chaoran; Dondi, Arthur; Dragan, Monica; Dreifuss, David; John, Anika; Langer, Benjamin; Okoniewski, Michal; du Plessis, Louis; Schmitt, Uwe; Singer, Franziska; Stadler, Tanja; Beerenwinkel, Niko 分享 收藏
How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort Wegner, Fanny; Cabrera-Gil, Blanca; Tanguy, Araud; Beckmann, Christiane; Beerenwinkel, Niko; Bertelli, Claire; Carrara, Matteo; Cerutti, Lorenzo; Chen, Chaoran; Cordey, Samuel; Dumoulin, Alexis; du Plessis, Louis; Friedli, Marc; Gerth, Yannick; Greub, Gilbert; Haerri, Adrian; Hirsch, Hans; Howald, Cedric; Huber, Michael; Imhof, Alexander; Kaiser, Laurent; Kufner, Verena; Leib, Stephen L.; Leuzinger, Karoline; Lleshi, Etleva; Martinetti, Gladys; Maeusezahl, Mirjam; Moraz, Milo; Neher, Richard; Nolte, Oliver; Ramette, Alban; Redondo, Maurice; Risch, Lorenz; Rohner, Lionel; Roloff, Tim; Schlaeepfer, Pascal; Schneider, Katrin; Singer, Franziska; Spina, Valeria; Stadler, Tanja; Studer, Erik; Topolsky, Ivan; Trkola, Alexandra; Walther, Daniel; Wohlwend, Nadia; Zehnder, Cinzia; Neves, Aitana; Egli, Adrian 分享 收藏
Genomic epidemiology of Mycobacterium bovis infection in sympatric badger and cattle populations in Northern Ireland Akhmetova, Assel; Guerrero, Jimena; McAdam, Paul; Salvador, Liliana C. M.; Crispell, Joseph; Lavery, John; Presho, Eleanor; Kao, Rowland R.; Biek, Roman; Menzies, Fraser; Trimble, Nigel; Harwood, Roland; Pepler, P. Theo; Oravcova, Katarina; Graham, Jordon; Skuce, Robin; du Plessis, Louis; Thompson, Suzan; Wright, Lorraine; Byrne, Andrew W.; Allen, Adrian R. 分享 收藏
Swiss public health measures associated with reduced SARS-CoV-2 transmission using genome data Nadeau, Sarah A.; Vaughan, Timothy G.; Beckmann, Christiane; Topolsky, Ivan; Chen, Chaoran; Hodcroft, Emma; Schaer, Tobias; Nissen, Ina; Santacroce, Natascha; Burcklen, Elodie; Ferreira, Pedro; Jablonski, Kim Philipp; Posada-Cespedes, Susana; Capece, Vincenzo; Seidel, Sophie; de Souza, Noemi Santamaria; Martinez-Gomez, Julia M.; Cheng, Phil; Bosshard, Philipp P.; Levesque, Mitchell P.; Kufner, Verena; SchmutzSchmutz, Stefan; Zaheri, Maryam; Huber, Michael; Trkola, Alexandra; Cordey, Samuel; Laubscher, Florian; Goncalves, Ana Rita; Aeby, Sebastien; Pillonel, Trestan; Jacot, Damien; Bertelli, Claire; Greub, Gilbert; Leuzinger, Karoline; Stange, Madlen; Mari, Alfredo; Roloff, Tim; Seth-Smith, Helena; Hirsch, Hans H.; Egli, Adrian; Redondo, Maurice; Kobel, Olivier; Noppen, Christoph; du Plessis, Louis; Beerenwinkel, Niko; Neher, Richard A.; Beisel, Christian; Stadler, Tanja 分享 收藏
The origins and molecular evolution of SARS-CoV-2 lineage B.1.1.7 in the UK 英国SARS-CoV-2谱系B.1.1.7的起源和分子进化 Hill, Verity; Du Plessis, Louis; Peacock, Thomas P.; Aggarwal, Dinesh; Colquhoun, Rachel; Carabelli, Alesandro M.; Ellaby, Nicholas; Gallagher, Eileen; Groves, Natalie; Jackson, Ben; McCrone, J. T.; O'Toole, Aine; Price, Anna; Sanderson, Theo; Scher, Emily; Southgate, Joel; Volz, Erik; Barclay, Wendy S.; Barrett, Jeffrey C.; Chand, Meera; Connor, Thomas; Goodfellow, Ian; Gupta, Ravindra K.; Harrison, Ewan M.; Loman, Nicholas; Myers, Richard; Robertson, David L.; Pybus, Oliver G.; Rambaut, Andrew 分享 收藏
Genomic Epidemiology of Early SARS-CoV-2 Transmission Dynamics, Gujarat, India Raghwani, Jayna; du Plessis, Louis; McCrone, John T.; Hill, Sarah C.; Parag, Kris, V; Theze, Julien; Kumar, Dinesh; Puvar, Apurva; Pandit, Ramesh; Pybus, Oliver G.; Fournie, Guillaume; Joshi, Madhvi; Joshi, Chaitanya 分享 收藏
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission Aggarwal, Dinesh; Warne, Ben; Jahun, Aminu S.; Hamilton, William L.; Fieldman, Thomas; du Plessis, Louis; Hill, Verity; Blane, Beth; Watkins, Emmeline; Wright, Elizabeth; Hall, Grant; Ludden, Catherine; Myers, Richard; Hosmillo, Myra; Chaudhry, Yasmin; Pinckert, Malte L.; Georgana, Iliana; Izuagbe, Rhys; Leek, Danielle; Nsonwu, Olisaeloka; Hughes, Gareth J.; Packer, Simon; Page, Andrew J.; Metaxaki, Marina; Fuller, Stewart; Weale, Gillian; Holgate, Jon; Brown, Christopher A.; Howes, Rob; McFarlane, Duncan; Dougan, Gordon; Pybus, Oliver G.; De Angelis, Daniela; Maxwell, Patrick H.; Peacock, Sharon J.; Weekes, Michael P.; Illingworth, Chris; Harrison, Ewan M.; Matheson, Nicholas J.; Goodfellow, Ian G. 分享 收藏
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Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool 使用穿山甲工具在新出现的大流行中分配流行病学谱系 O'Toole, Aine; Scher, Emily; Underwood, Anthony; Jackson, Ben; Hill, Verity; McCrone, John T.; Colquhoun, Rachel; Ruis, Chris; Abu-Dahab, Khalil; Taylor, Ben; Yeats, Corin; du Plessis, Louis; Maloney, Daniel; Medd, Nathan; Attwood, Stephen W.; Aanensen, David M.; Holmes, Edward C.; Pybus, Oliver G.; Rambaut, Andrew 分享 收藏
Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador Gutierrez, Bernardo; Marquez, Sully; Prado-Vivar, Belen; Becerra-Wong, Monica; Jose Guadalupe, Juan; da Silva Candido, Darlan; Carlos Fernandez-Cadena, Juan; Morey-Leon, Gabriel; Armas-Gonzalez, Ruben; Madeleiny Andrade-Molina, Derly; Bruno, Alfredo; de Mora, Domenica; Olmedo, Maritza; Portugal, Denisse; Gonzalez, Manuel; Orlando, Alberto; Felix Drexler, Jan; Moreira-Soto, Andres; Sander, Anna-Lena; Brunink, Sebastian; Kuhne, Arne; Patino, Leandro; Carrazco-Montalvo, Andres; Mestanza, Orson; Zurita, Jeannete; Sevillano, Gabriela; du Plessis, Louis; McCrone, John T.; Coloma, Josefina; Trueba, Gabriel; Barragan, Veronica; Rojas-Silva, Patricio; Grunauer, Michelle; Kraemer, Moritz U. G.; Faria, Nuno R.; Escalera-Zamudio, Marina; Pybus, Oliver G.; Cardenas, Paul 分享 收藏
Epidemiological hypothesis testing using a phylogeographic and phylodynamic framework Dellicour, Simon; Lequime, Sebastian; Vrancken, Bram; Gill, Mandev S.; Bastide, Paul; Gangavarapu, Karthik; Matteson, Nathaniel L.; Tan, Yi; du Plessis, Louis; Fisher, Alexander A.; Nelson, Martha, I; Gilbert, Marius; Suchard, Marc A.; Andersen, Kristian G.; Grubaugh, Nathan D.; Pybus, Oliver G.; Lemey, Philippe 分享 收藏
Ancient Bacterial Genomes Reveal a High Diversity of Treponema pallidum Strains in Early Modern Europe 古代细菌基因组揭示了现代早期欧洲梅毒螺旋体菌株的高度多样性 Majander, Kerttu; Pfrengle, Saskia; Kocher, Arthur; Neukamm, Judith; du Plessis, Louis; Pla-Diaz, Marta; Arora, Natasha; Akgul, Gulfirde; Salo, Kati; Schats, Rachel; Inskip, Sarah; Oinonen, Markku; Valk, Heiki; Malve, Martin; Kriiska, Aivar; Onkamo, Paivi; Gonzalez-Candelas, Fernando; Kuehnert, Denise; Krause, Johannes; Schuenemann, Verena J. 分享 收藏
Clinical, immunological and virological characterization of COVID-19 patients that test re-positive for SARS-CoV-2 by RT-PCR 通过rt-pcr检测SARS-CoV-2阳性的新型冠状病毒肺炎患者的临床，免疫学和病毒学特征 Lu, Jing; Peng, Jinju; Xiong, Qianling; Liu, Zhe; Lin, Huifang; Tan, Xiaohua; Kang, Min; Yuan, Runyu; Zeng, Lilian; Zhou, Pingping; Liang, Chumin; Yi, Lina; du Plessis, Louis; Song, Tie; Ma, Wenjun; Sun, Jiufeng; Pybus, Oliver G.; Ke, Changwen 分享 收藏
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Ancient pigs reveal a near-complete genomic turnover following their introduction to Europe Frantz, Laurent A. F.; Haile, James; Lin, Audrey T.; Scheu, Amelie; Geoerg, Christina; Benecke, Norbert; Alexander, Michelle; Linderholm, Anna; Mullin, Victoria E.; Daly, Kevin G.; Battista, Vincent M.; Price, Max; Gron, Kurt J.; Alexandri, Panoraia; Arbogast, Rose-Marie; Arbuckle, Benjamin; Balasescu, Adrian; Barnett, Ross; Bartosiewicz, Laszlo; Baryshnikov, Gennady; Bonsall, Clive; Boric, Dusan; Boroneant, Adina; Bulatovic, Jelena; Cakirlar, Canan; Carretero, Jose-Miguel; Chapman, John; Church, Mike; Crooijmans, Richard; De Cupere, Bea; Detry, Cleia; Dimitrijevic, Vesna; Dumitrascu, Valentin; du Plessis, Louis; Edwards, Ceiridwen J.; Erek, Cevdet Merih; Erim-Ozdogan, Asli; Ervynck, Anton; Fulgione, Domenico; Gligor, Mihai; Gotherstrom, Anders; Gourichon, Lionel; Groenen, Martien A. M.; Helmer, Daniel; Hongo, Hitomi; Horwitz, Liora K.; Irving-Pease, Evan K.; Lebrasseur, Ophelie; Lesur, Josephine; Malone, Caroline; Manaseryan, Ninna; Marciniak, Arkadiusz; Martlew, Holley; Mashkour, Marjan; Matthews, Roger; Matuzeviciute, Giedre Motuzaite; Maziar, Sepideh; Meijaard, Erik; McGovern, Tom; Megens, Hendrik-Jan; Miller, Rebecca; Mohaseb, Azadeh Fatemeh; Orschiedt, Joerg; Orton, David; Papathanasiou, Anastasia; Pearson, Mike Parker; Pinhasi, Ron; Radmanovic, Darko; Ricaut, Francois-Xavier; Richards, Mike; Sabin, Richard; Sarti, Lucia; Schier, Wolfram; Sheikhi, Shiva; Stephan, Elisabeth; Stewart, John R.; Stoddart, Simon; Tagliacozzo, Antonio; Tasic, Nenad; Trantalidou, Katerina; Tresset, Anne; Valdiosera, Cristina; van den Hurk, Youri; Van Poucke, Sophie; Vigne, Jean-Denis; Yanevich, Alexander; Zeeb-Lanz, Andrea; Triantafyllidis, Alexandros; Gilbert, M. Thomas P.; Schibler, Jorg; Rowley-Conwy, Peter; Zeder, Melinda; Peters, Joris; Cucchi, Thomas; Bradley, Daniel G.; Dobney, Keith; Burger, Joachim; Evin, Allowen; Girdland-Flink, Linus; Larson, Greger 分享 收藏
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