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A program for real-time surveillance of SARS-CoV-2 genetics Brochu, Hayden N.; Song, Kuncheng; Zhang, Qimin; Zeng, Qiandong; Shafi, Adib; Robinson, Matthew; Humphrey, Jake; Croy, Bobbi; Peavy, Lydia; Perera, Minoli; Parker, Scott; Pruitt, John; Munroe, Jason; Ghatti, Rama; Urban, Thomas J.; Harris, Ayla B.; Alfego, David; Norvell, Brian; Levandoski, Michael; Krueger, Brian; Williams, Jonathan D.; Boles, Deborah; Nye, Melinda B.; Dale, Suzanne E.; Sapeta, Michael; Petropoulos, Christos J.; Meltzer, Jonathan; Eisenberg, Marcia; Cohen, Oren; Letovsky, Stanley; Iyer, Lakshmanan K. 分享 收藏
A diploid assembly-based benchmark for variants in the major histocompatibility complex Chin, Chen-Shan; Wagner, Justin; Zeng, Qiandong; Garrison, Erik; Garg, Shilpa; Fungtammasan, Arkarachai; Rautiainen, Mikko; Aganezov, Sergey; Kirsche, Melanie; Zarate, Samantha; Schatz, Michael C.; Xiao, Chunlin; Rowell, William J.; Markello, Charles; Farek, Jesse; Sedlazeck, Fritz J.; Bansal, Vikas; Yoo, Byunggil; Miller, Neil; Zhou, Xin; Carroll, Andrew; Barrio, Alvaro Martinez; Salit, Marc; Marschall, Tobias; Dilthey, Alexander T.; Zook, Justin M. 分享 收藏
A customized scaffolds approach for the detection and phasing of complex variants by next-generation sequencing Zeng, Qiandong; Leach, Natalia T.; Zhou, Zhaoqing; Zhu, Hui; Smith, Jean A.; Rosenblum, Lynne S.; Kenyon, Angela; Heim, Ruth A.; Eisenberg, Marcia; Letovsky, Stanley; Okamoto, Patricia M. 分享 收藏
The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes Zhang, Yong; Yang, He; Turra, David; Zhou, Shiguo; Ayhan, Dilay Hazal; DeIulio, Gregory A.; Guo, Li; Broz, Karen; Wiederhold, Nathan; Coleman, Jeffrey J.; O' Donnell, Kerry; Youngster, Ilan; McAdam, Alexander J.; Savinov, Sergey; Shea, Terrance; Young, Sarah; Zeng, Qiandong; Rep, Martijn; Pearlman, Eric; Schwartz, David C.; Di Pietro, Antonio; Kistler, H. Corby; Ma, Li-Jun 分享 收藏
Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen Trichophyton rubrum Persinoti, Gabriela F.; Martinez, Diego A.; Li, Wenjun; Dogen, Aylin; Billmyre, R. Blake; Averette, Anna; Goldberg, Jonathan M.; Shea, Terrance; Young, Sarah; Zeng, Qiandong; Oliver, Brian G.; Barton, Richard; Metin, Banu; Hilmioglu-Polat, Suleyha; Ilkit, Macit; Graser, Yvonne; Martinez-Rossi, Nilce M.; White, Theodore C.; Heitman, Joseph; Cuomo, Christina A. 分享 收藏
Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks Cerqueira, Gustavo C.; Earl, Ashlee M.; Ernst, Christoph M.; Grad, Yonatan H.; Dekker, John P.; Feldgarden, Michael; Chapman, Sinead B.; Reis-Cunha, Joao L.; Shea, Terrance P.; Young, Sarah; Zeng, Qiandong; Delaney, Mary L.; Kim, Diane; Peterson, Ellena M.; O'Brien, Thomas F.; Ferraro, Mary Jane; Hooper, David C.; Huang, Susan S.; Kirby, James E.; Onderdonk, Andrew B.; Birren, Bruce W.; Hung, Deborah T.; Cosimi, Lisa A.; Wortman, Jennifer R.; Murphy, Cheryl I.; Hanage, William P. 分享 收藏
Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome Hamilton, Eileen P.; Kapusta, Aurelie; Huvos, Piroska E.; Bidwell, Shelby L.; Zafar, Nikhat; Tang, Haibao; Hadjithomas, Michalis; Krishnakumar, Vivek; Badger, Jonathan H.; Caler, Elisabet V.; Russ, Carsten; Zeng, Qiandong; Fan, Lin; Levin, Joshua Z.; Shea, Terrance; Young, Sarah K.; Hegarty, Ryan; Daza, Riza; Gujja, Sharvari; Wortman, Jennifer R.; Birren, Bruce W.; Nusbaum, Chad; Thomas, Jainy; Carey, Clayton M.; Pritham, Ellen J.; Feschotte, Cedric; Noto, Tomoko; Mochizuki, Kazufumi; Papazyan, Romeo; Taverna, Sean D.; Dear, Paul H.; Cassidy-Hanley, Donna M.; Xiong, Jie; Miao, Wei; Orias, Eduardo; Coyne, Robert S. 分享 收藏
Genome analysis of three Pneumocystis species reveals adaptation mechanisms to life exclusively in mammalian hosts Ma, Liang; Chen, Zehua; Huang, Da Wei; Kutty, Geetha; Ishihara, Mayumi; Wang, Honghui; Abouelleil, Amr; Bishop, Lisa; Davey, Emma; Deng, Rebecca; Deng, Xilong; Fan, Lin; Fantoni, Giovanna; Fitzgerald, Michael; Gogineni, Emile; Goldberg, Jonathan M.; Handley, Grace; Hu, Xiaojun; Huber, Charles; Jiao, Xiaoli; Jones, Kristine; Levin, Joshua Z.; Liu, Yueqin; Macdonald, Pendexter; Melnikov, Alexandre; Raley, Castle; Sassi, Monica; Sherman, Brad T.; Song, Xiaohong; Sykes, Sean; Tran, Bao; Walsh, Laura; Xia, Yun; Yang, Jun; Young, Sarah; Zeng, Qiandong; Zheng, Xin; Stephens, Robert; Nusbaum, Chad; Birren, Bruce W.; Azadi, Parastoo; Lempicki, Richard A.; Cuomo, Christina A.; Kovacs, Joseph A. 分享 收藏
Genomic insights into the Ixodes scapularis tick vector of Lyme disease 莱姆病的肩胛骨蜱媒介的基因组洞察 Gulia-Nuss, Monika; Nuss, Andrew B.; Meyer, Jason M.; Sonenshine, Daniel E.; Roe, R. Michael; Waterhouse, Robert M.; Sattelle, David B.; de la Fuente, Jose; Ribeiro, Jose M.; Megy, Karine; Thimmapuram, Jyothi; Miller, Jason R.; Walenz, Brian P.; Koren, Sergey; Hostetler, Jessica B.; Thiagarajan, Mathangi; Joardar, Vinita S.; Hannick, Linda I.; Bidwell, Shelby; Hammond, Martin P.; Young, Sarah; Zeng, Qiandong; Abrudan, Jenica L.; Almeida, Francisca C.; Ayllon, Nieves; Bhide, Ketaki; Bissinger, Brooke W.; Bonzon-Kulichenko, Elena; Buckingham, Steven D.; Caffrey, Daniel R.; Caimano, Melissa J.; Croset, Vincent; Driscoll, Timothy; Gilbert, Don; Gillespie, Joseph J.; Giraldo-Calderon, Gloria I.; Grabowski, Jeffrey M.; Jiang, David; Khalil, Sayed M. S.; Kim, Donghun; Kocan, Katherine M.; Koci, Juraj; Kuhn, Richard J.; Kurtti, Timothy J.; Lees, Kristin; Lang, Emma G.; Kennedy, Ryan C.; Kwon, Hyeogsun; Perera, Rushika; Qi, Yumin; Radolf, Justin D.; Sakamoto, Joyce M.; Sanchez-Gracia, Alejandro; Severo, Maiara S.; Silverman, Neal; Simo, Ladislav; Tojo, Marta; Tornador, Cristian; Van Zee, Janice P.; Vazquez, Jesus; Vieira, Filipe G.; Villar, Margarita; Wespiser, Adam R.; Yang, Yunlong; Zhu, Jiwei; Arensburger, Peter; Pietrantonio, Patricia V.; Barker, Stephen C.; Shao, Renfu; Zdobnov, Evgeny M.; Hauser, Frank; Grimmelikhuijzen, Cornelis J. P.; Park, Yoonseong; Rozas, Julio; Benton, Richard; Pedra, Joao H. F.; Nelson, David R.; Unger, Maria F.; Tubio, Jose M. C.; Tu, Zhijian; Robertson, Hugh M.; Shumway, Martin; Sutton, Granger; Wortman, Jennifer R.; Lawson, Daniel; Wikel, Stephen K.; Nene, Vishvanath M.; Fraser, Claire M.; Collins, Frank H.; Birren, Bruce; Nelson, Karen E.; Caler, Elisabet; Hill, Catherine A. 分享 收藏
Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii Farret, Rhys A.; Desjardins, Christopher A.; Sakthikumar, Sharadha; Gujja, Sharvari; Saif, Sakina; Zeng, Qiandong; Chen, Yuan; Voelz, Kerstin; Heitman, Joseph; May, Robin C.; Fisher, Matthew C.; Cuomo, Christina A. 分享 收藏
The Dynamic Genome and Transcriptome of the Human Fungal Pathogen Blastomyces and Close Relative Emmonsia Munoz, Jose F.; Gauthier, Gregory M.; Desjardins, Christopher A.; Gallo, Juan E.; Holder, Jason; Sullivan, Thomas D.; Marty, Amber J.; Carmen, John C.; Chen, Zehua; Ding, Li; Gujja, Sharvari; Magrini, Vincent; Misas, Elizabeth; Mitreva, Makedonka; Priest, Margaret; Saif, Sakina; Whiston, Emily A.; Young, Sarah; Zeng, Qiandong; Goldman, William E.; Mardis, Elaine R.; Taylor, John W.; McEwen, Juan G.; Clay, Oliver K.; Klein, Bruce S.; Cuomo, Christina A. 分享 收藏
Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus 性别和寄生虫: 生物营养性和植物去势花药黑穗病菌微生物的基因组和转录组学分析 Perlin, Michael H.; Amselem, Joelle; Fontanillas, Eric; Toh, Su San; Chen, Zehua; Goldberg, Jonathan; Duplessis, Sebastien; Henrissat, Bernard; Young, Sarah; Zeng, Qiandong; Aguileta, Gabriela; Petit, Elsa; Badouin, Helene; Andrews, Jared; Razeeq, Dominique; Gabaldon, Toni; Quesneville, Hadi; Giraud, Tatiana; Hood, Michael E.; Schultz, David J.; Cuomo, Christina A. 分享 收藏
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Evolution of Invasion in a Diverse Set of Fusobacterium Species McGuire, Abigail Manson; Cochrane, Kyla; Griggs, Allison D.; Haas, Brian J.; Abeel, Thomas; Zeng, Qiandong; Nice, Justin B.; MacDonald, Hanlon; Birren, Bruce W.; Berger, Bryan W.; Allen-Vercoe, Emma; Earl, Ashlee M. 分享 收藏
Genetic and phenotypic intra-species variation in Candida albicans Hirakawa, Matthew P.; Martinez, Diego A.; Sakthikumar, Sharadha; Anderson, Matthew Z.; Berlin, Aaron; Gujja, Sharvari; Zeng, Qiandong; Zisson, Ethan; Wang, Joshua M.; Greenberg, Joshua M.; Berman, Judith; Bennett, Richard J.; Cuomo, Christina A. 分享 收藏
Genome Update of the Dimorphic Human Pathogenic Fungi Causing Paracoccidioidomycosis Munoz, Jose F.; Gallo, Juan E.; Misas, Elizabeth; Priest, Margaret; Imamovic, Alma; Young, Sarah; Zeng, Qiandong; Clay, Oliver K.; McEwen, Juan G.; Cuomo, Christina A. 分享 收藏
Analysis of the Genome and Transcriptome of Cryptococcus neoformans var. grubii Reveals Complex RNA Expression and Microevolution Leading to Virulence Attenuation Janbon, Guilhem; Ormerod, Kate L.; Paulet, Damien; Byrnes, Edmond J., III; Yadav, Vikas; Chatterjee, Gautam; Mullapudi, Nandita; Hon, Chung-Chau; Billmyre, R. Blake; Brunel, Francois; Bahn, Yong-Sun; Chen, Weidong; Chen, Yuan; Chow, Eve W. L.; Coppee, Jean-Yves; Floyd-Averette, Anna; Gaillardin, Claude; Gerik, Kimberly J.; Goldberg, Jonathan; Gonzalez-Hilarion, Sara; Gujja, Sharvari; Hamlin, Joyce L.; Hsueh, Yen-Ping; Ianiri, Giuseppe; Jones, Steven; Kodira, Chinnappa D.; Kozubowski, Lukasz; Lam, Woei; Marra, Marco; Mesner, Larry D.; Mieczkowski, Piotr A.; Moyrand, Frederique; Nielsen, Kirsten; Proux, Caroline; Rossignol, Tristan; Schein, Jacqueline E.; Sun, Sheng; Wollschlaeger, Carolin; Wood, Ian A.; Zeng, Qiandong; Neuveglise, Cecile; Newlon, Carol S.; Perfect, John R.; Lodge, Jennifer K.; Idnurm, Alexander; Stajich, Jason E.; Kronstad, James W.; Sanyal, Kaustuv; Heitman, Joseph; Fraser, James A.; Cuomo, Christina A.; Dietrich, Fred S. 分享 收藏
Emergence of Epidemic Multidrug-Resistant Enterococcus faecium from Animal and Commensal Strains Lebreton, Francois; van Schaik, Willem; McGuire, Abigail Manson; Godfrey, Paul; Griggs, Allison; Mazumdar, Varun; Corander, Jukka; Cheng, Lu; Saif, Sakina; Young, Sarah; Zeng, Qiandong; Wortman, Jennifer; Birren, Bruce; Willems, Rob J. L.; Earl, Ashlee M.; Gilmore, Michael S. 分享 收藏
Distinctive Expansion of Potential Virulence Genes in the Genome of the Oomycete Fish Pathogen Saprolegnia parasitica 卵菌鱼类病原体寄生腐生菌基因组中潜在毒力基因的独特扩展 Jiang, Rays H. Y.; de Bruijn, Irene; Haas, Brian J.; Belmonte, Rodrigo; Loebach, Lars; Christie, James; van den Ackerveken, Guido; Bottin, Arnaud; Bulone, Vincent; Diaz-Moreno, Sara M.; Dumas, Bernard; Fan, Lin; Gaulin, Elodie; Govers, Francine; Grenville-Briggs, Laura J.; Horner, Neil R.; Levin, Joshua Z.; Mammella, Marco; Meijer, Harold J. G.; Morris, Paul; Nusbaum, Chad; Oome, Stan; Phillips, Andrew J.; van Rooyen, David; Rzeszutek, Elzbieta; Saraiva, Marcia; Secombes, Chris J.; Seidl, Michael F.; Snel, Berend; Stassen, Joost H. M.; Sykes, Sean; Tripathy, Sucheta; van den Berg, Herbert; Vega-Arreguin, Julio C.; Wawra, Stephan; Young, Sarah K.; Zeng, Qiandong; Dieguez-Uribeondo, Javier; Russ, Carsten; Tyler, Brett M.; van West, Pieter 分享 收藏
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