Genome-wide characterization of simple sequence repeats in cucumber (Cucumis sativus L.) von Cavagnaro, Pablo F, Senalik, Douglas A, Yang, Luming, Simon, Philipp W, Harkins, Timothy T, Kodira, Chinnappa D, Huang, Sanwen, Weng, Yiqun

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Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation von Angiuoli, Samuel V., Gussman, Aaron, Klimke, William, Cochrane, Guy, Field, Dawn, Garrity, George M., Kodira, Chinnappa D., Kyrpides, Nikos, Madupu, Ramana, Markowitz, Victor, Tatusova, Tatiana, Thomson, Nick, White, Owen

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Comparative and functional genomics of Rhodococcus opacus PD630 for biofuels development von Holder, Jason W, Ulrich, Jil C, DeBono, Anthony C, Godfrey, Paul A, Desjardins, Christopher A, Zucker, Jeremy, Zeng, Qiandong, Leach, Alex L B, Ghiviriga, Ion, Dancel, Christine, Abeel, Thomas, Gevers, Dirk, Kodira, Chinnappa D, Desany, Brian, Affourtit, Jason P, Birren, Bruce W, Sinskey, Anthony J

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Evolutionary dynamics of the accessory genome of Listeria monocytogenes von den Bakker, Henk C, Desjardins, Christopher A, Griggs, Allison D, Peters, Joseph E, Zeng, Qiandong, Young, Sarah K, Kodira, Chinnappa D, Yandava, Chandri, Hepburn, Theresa A, Haas, Brian J, Birren, Bruce W, Wiedmann, Martin

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Computational de novo discovery of distinguishing genes for biological processes and cell types in complex tissues von Newberg, Lee A, Chen, Xiaowei, Kodira, Chinnappa D, Zavodszky, Maria I

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Comparative genomic characterization of Francisella tularensis strains belonging to low and high virulence subspecies von Champion, Mia D, Zeng, Qiandong, Nix, Eli B, Nano, Francis E, Keim, Paul, Kodira, Chinnappa D, Borowsky, Mark, Young, Sarah, Koehrsen, Michael, Engels, Reinhard, Pearson, Matthew, Howarth, Clint, Larson, Lisa, White, Jared, Alvarado, Lucia, Forsman, Mats, Bearden, Scott W, Sjöstedt, Anders, Titball, Richard, Michell, Stephen L, Birren, Bruce, Galagan, James

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The complete genome and proteome of Mycoplasma mobile von Jaffe, Jacob D, Stange-Thomann, Nicole, Smith, Cherylyn, DeCaprio, David, Fisher, Sheila, Butler, Jonathan, Calvo, Sarah, Elkins, Tim, FitzGerald, Michael G, Hafez, Nabil, Kodira, Chinnappa D, Major, John, Wang, Shunguang, Wilkinson, Jane, Nicol, Robert, Nusbaum, Chad, Birren, Bruce, Berg, Howard C, Church, George M

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Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation von Janbon, Guilhem, Ormerod, Kate L, Paulet, Damien, Byrnes, 3rd, Edmond J, Yadav, Vikas, Chatterjee, Gautam, Mullapudi, Nandita, Hon, Chung-Chau, Billmyre, R Blake, Brunel, François, Bahn, Yong-Sun, Chen, Weidong, Chen, Yuan, Chow, Eve W L, Coppée, 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, Frédérique, Nielsen, Kirsten, Proux, Caroline, Rossignol, Tristan, Schein, Jacqueline E, Sun, Sheng, Wollschlaeger, Carolin, Wood, Ian A, Zeng, Qiandong, Neuvéglise, Cécile, 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

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Genome Sequence of Ophidiomyces ophiodiicola , an Emerging Fungal Pathogen of Snakes von Ohkura, Mana, Fitak, Robert R, Wisecaver, Jennifer H, DeBlasio, Dan, Niazi, Faheem, Egholm, Michael, Rounsley, Steven D, Kodira, Chinnappa D, Orbach, Marc J

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Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication von Ma, Li-Jun, Ibrahim, Ashraf S, Skory, Christopher, Grabherr, Manfred G, Burger, Gertraud, Butler, Margi, Elias, Marek, Idnurm, Alexander, Lang, B Franz, Sone, Teruo, Abe, Ayumi, Calvo, Sarah E, Corrochano, Luis M, Engels, Reinhard, Fu, Jianmin, Hansberg, Wilhelm, Kim, Jung-Mi, Kodira, Chinnappa D, Koehrsen, Michael J, Liu, Bo, Miranda-Saavedra, Diego, O'Leary, Sinead, Ortiz-Castellanos, Lucila, Poulter, Russell, Rodriguez-Romero, Julio, Ruiz-Herrera, José, Shen, Yao-Qing, Zeng, Qiandong, Galagan, James, Birren, Bruce W, Cuomo, Christina A, Wickes, Brian L

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Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis von Desjardins, Christopher A, Champion, Mia D, Holder, Jason W, Muszewska, Anna, Goldberg, Jonathan, Bailão, Alexandre M, Brigido, Marcelo Macedo, Ferreira, Márcia Eliana da Silva, Garcia, Ana Maria, Grynberg, Marcin, Gujja, Sharvari, Heiman, David I, Henn, Matthew R, Kodira, Chinnappa D, León-Narváez, Henry, Longo, Larissa V G, Ma, Li-Jun, Malavazi, Iran, Matsuo, Alisson L, Morais, Flavia V, Pereira, Maristela, Rodríguez-Brito, Sabrina, Sakthikumar, Sharadha, Salem-Izacc, Silvia M, Sykes, Sean M, Teixeira, Marcus Melo, Vallejo, Milene C, Walter, Maria Emília Machado Telles, Yandava, Chandri, Young, Sarah, Zeng, Qiandong, Zucker, Jeremy, Felipe, Maria Sueli, Goldman, Gustavo H, Haas, Brian J, McEwen, Juan G, Nino-Vega, Gustavo, Puccia, Rosana, San-Blas, Gioconda, Soares, Celia Maria de Almeida, Birren, Bruce W, Cuomo, Christina A

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Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives von Sharpton, Thomas J, Stajich, Jason E, Rounsley, Steven D, Gardner, Malcolm J, Wortman, Jennifer R, Jordar, Vinita S, Maiti, Rama, Kodira, Chinnappa D, Neafsey, Daniel E, Zeng, Qiandong, Hung, Chiung-Yu, McMahan, Cody, Muszewska, Anna, Grynberg, Marcin, Mandel, M Alejandra, Kellner, Ellen M, Barker, Bridget M, Galgiani, John N, Orbach, Marc J, Kirkland, Theo N, Cole, Garry T, Henn, Matthew R, Birren, Bruce W, Taylor, John W

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Pathogenomics of Culex quinquefasciatus and Meta-Analysis of Infection Responses to Diverse Pathogens von Bartholomay, Lyric C, Waterhouse, Robert M, Mayhew, George F, Campbell, Corey L, Michel, Kristin, Zou, Zhen, Ramirez, Jose L, Das, Suchismita, Alvarez, Kanwal, Arensburger, Peter, Bryant, Bart, Chapman, Sinead B, Dong, Yuemei, Erickson, Sara M, Karunaratne, S.H.P. Parakrama, Kokoza, Vladimir, Kodira, Chinnappa D, Pignatelli, Patricia, Shin, Sang Woon, Vanlandingham, Dana L, Atkinson, Peter W, Birren, Bruce, Christophides, George K, Clem, Rollie J, Hemingway, Janet, Higgs, Stephen, Megy, Karine, Ranson, Hilary, Zdobnov, Evgeny M, Raikhel, Alexander S, Christensen, Bruce M, Dimopoulos, George, Muskavitch, Marc A.T

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Comparative Genomics of a Plant-Pathogenic Fungus, Pyrenophora tritici-repentis, Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergen... von Manning, Viola A, Pandelova, Iovanna, Dhillon, Braham, Wilhelm, Larry J, Goodwin, Stephen B, Berlin, Aaron M, Figueroa, Melania, Freitag, Michael, Hane, James K, Henrissat, Bernard, Holman, Wade H, Kodira, Chinnappa D, Martin, Joel, Oliver, Richard P, Robbertse, Barbara, Schackwitz, Wendy, Schwartz, David C, Spatafora, Joseph W, Turgeon, B Gillian, Yandava, Chandri, Young, Sarah, Zhou, Shiguo, Zeng, Qiandong, Grigoriev, Igor V, Ma, Li-Jun, Ciuffetti, Lynda M

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Obligate biotrophy features unraveled by the genomic analysis of rust fungi von Duplessis, Sébastien, Cuomo, Christina A, Lin, Yao-Cheng, Aerts, Andrea, Tisserant, Emilie, Veneault-Fourrey, Claire, Joly, David L, Hacquard, Stéphane, Amselem, Joëlle, Cantarel, Brandi L, Chiu, Readman, Coutinho, Pedro M, Feau, Nicolas, Field, Matthew, Frey, Pascal, Gelhaye, Eric, Goldberg, Jonathan, Grabherr, Manfred G, Kodira, Chinnappa D, Kohler, Annegret, Kües, Ursula, Lindquist, Erika A, Lucas, Susan M, Mago, Rohit, Mauceli, Evan, Morin, Emmanuelle, Murat, Claude, Pangilinan, Jasmyn L, Park, Robert, Pearson, Matthew, Quesneville, Hadi, Rouhier, Nicolas, Sakthikumar, Sharadha, Salamov, Asaf A, Schmutz, Jeremy, Selles, Benjamin, Shapiro, Harris, Tanguay, Philippe, Tuskan, Gerald A, Henrissat, Bernard, Peer, Yves Van de, Rouzé, Pierre, Ellis, Jeffrey G, Dodds, Peter N, Schein, Jacqueline E, Zhong, Shaobin, Hamelin, Richard C, Grigoriev, Igor V, Szabo, Les J, Martin, Francis

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Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans von Haas, Brian J, Kamoun, Sophien, Zody, Michael C, Jiang, Rays H.Y, Handsaker, Robert E, Cano, Liliana M, Grabherr, Manfred, Kodira, Chinnappa D, Raffaele, Sylvain, Torto-Alalibo, Trudy, Bozkurt, Tolga O, Ah-Fong, Audrey M.V, Bollmann, Stephanie R, Grunwald, Niklaus J, Costanzo, Stefano, Jones, Richard W

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Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium von Ma, Li-Jun, Does, H. Charlotte van der, Borkovich, Katherine A, Coleman, Jeffrey J, Daboussi, Marie-Josée, Di Pietro, Antonio, Dufresne, Marie, Freitag, Michael, Grabherr, Manfred, Breakspear, Andrew, Brown, Daren W, Butchko,Robert A.E, Gale, Liane R, Hilburn, Karen, Proctor, Robert H, Kistler, H. Corby

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Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics von Arensburger, Peter, Megy, Karine, Waterhouse, Robert M, Abrudan, Jenica, Amedeo, Paolo, Antelo, Beatriz, Bartholomay, Lyric, Bidwell, Shelby, Caler, Elisabet, Camara, Francisco, Campbell, Corey L, Campbell, Kathryn S, Casola, Claudio, Castro, Marta T, Chandramouliswaran, Ishwar, Chapman, Sinéad B, Christley, Scott, Costas, Javier, Eisenstadt, Eric, Feschotte, Cedric, Fraser-Liggett, Claire, Guigo, Roderic, Haas, Brian, Hammond, Martin, Hansson, Bill S, Hemingway, Janet, Hill, Sharon R, Howarth, Clint, Ignell, Rickard, Kennedy, Ryan C, Kodira, Chinnappa D, Lobo, Neil F, Mao, Chunhong, Mayhew, George, Michel, Kristin, Mori, Akio, Liu, Nannan, Naveira, Horacio, Nene, Vishvanath, Nguyen, Nam, Pearson, Matthew D, Pritham, Ellen J, Puiu, Daniela, Qi, Yumin, Ranson, Hilary, Ribeiro, Jose M.C, Roberston, Hugh M, Severson, David W, Shumway, Martin, Stanke, Mario, Strausberg, Robert L, Sun, Cheng, Sutton, Granger, Tu, Zhijian (Jake), Tubio, Jose Manuel C, Unger, Maria F, Vanlandingham, Dana L, Vilella, Albert J, White, Owen, White, Jared R, Wondji, Charles S, Wortman, Jennifer, Zdobnov, Evgeny M, Birren, Bruce, Christensen, Bruce M, Collins, Frank H, Cornel, Anthony, Dimopoulos, George, Hannick, Linda I, Higgs, Stephen, Lanzaro, Gregory C, Lawson, Daniel, Lee, Norman H, Muskavitch, Marc A.T, Raikhel, Alexander S, Atkinson, Peter W

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A Catalog of Reference Genomes from the Human Microbiome von Nelson, Karen E, Weinstock, George M, Highlander, Sarah K, Worley, Kim C, Creasy, Heather Huot, Wortman, Jennifer Russo, Rusch, Douglas B, Mitreva, Makedonka, Sodergren, Erica, Chinwalla, Asif T, Feldgarden, Michael, Gevers, Dirk, Haas, Brian J, Madupu, Ramana, Ward, Doyle V, Birren, Bruce W, Gibbs, Richard A, Methe, Barbara, Petrosino, Joseph F, Strausberg, Robert L, Sutton, Granger G, White, Owen R, Wilson, Richard K, Durkin, Scott, Giglio, Michelle Gwinn, Gujja, Sharvari, Howarth, Clint, Kodira, Chinnappa D, Kyrpides, Nikos, Mehta, Teena, Muzny, Donna M, Pearson, Matthew, Pepin, Kymberlie, Pati, Amrita, Qin, Xiang, Yandava, Chandri, Zeng, Qiandong, Zhang, Lan, Berlin, Aaron M, Chen, Lei, Hepburn, Theresa A, Johnson, Justin, McCorrison, Jamison, Miller, Jason, Minx, Pat, Nusbaum, Chad, Russ, Carsten, Sykes, Sean M, Tomlinson, Chad M, Young, Sarah, Warren, Wesley C, Badger, Jonathan, Crabtree, Jonathan, Markowitz, Victor M, Orvis, Joshua, Cree, Andrew, Ferriera, Steve, Fulton, Lucinda L, Fulton, Robert S, Gillis, Marcus, Hemphill, Lisa D, Joshi, Vandita, Kovar, Christie, Torralba, Manolito, Wetterstrand, Kris A, Abouellleil, Amr, Wollam, Aye M, Buhay, Christian J, Ding, Yan, Dugan, Shannon, FitzGerald, Michael G, Holder, Mike, Hostetler, Jessica, Clifton, Sandra W, Allen-Vercoe, Emma, Earl, Ashlee M, Farmer, Candace N, Liolios, Konstantinos, Surette, Michael G, Xu, Qiang, Pohl, Craig, Wilczek-Boney, Katarzyna, Zhu, Dianhui

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DNA sequence and analysis of human chromosome 8 von Nusbaum, Chad, Mikkelsen, Tarjei S., Zody, Michael C., Asakawa, Shuichi, Taudien, Stefan, Garber, Manuel, Kodira, Chinnappa D., Schueler, Mary G., Shimizu, Atsushi, Whittaker, Charles A., Chang, Jean L., Cuomo, Christina A., Dewar, Ken, FitzGerald, Michael G., Yang, Xiaoping, Allen, Nicole R., Anderson, Scott, Asakawa, Teruyo, Blechschmidt, Karin, Bloom, Toby, Borowsky, Mark L., Butler, Jonathan, Cook, April, Corum, Benjamin, DeArellano, Kurt, DeCaprio, David, Dooley, Kathleen T., Dorris, Lester, Engels, Reinhard, Glöckner, Gernot, Hafez, Nabil, Hagopian, Daniel S., Hall, Jennifer L., Ishikawa, Sabine K., Jaffe, David B., Kamat, Asha, Kudoh, Jun, Lehmann, Rüdiger, Lokitsang, Tashi, Macdonald, Pendexter, Major, John E., Matthews, Charles D., Mauceli, Evan, Menzel, Uwe, Mihalev, Atanas H., Minoshima, Shinsei, Murayama, Yuji, Naylor, Jerome W., Nicol, Robert, Nguyen, Cindy, O'Leary, Sinéad B., O'Neill, Keith, Parker, Stephen C. J., Polley, Andreas, Raymond, Christina K., Reichwald, Kathrin, Rodriguez, Joseph, Sasaki, Takashi, Schilhabel, Markus, Siddiqui, Roman, Smith, Cherylyn L, Sneddon, Tam P., Talamas, Jessica A., Tenzin, Pema, Topham, Kerri, Venkataraman, Vijay, Wen, Gaiping, Yamazaki, Satoru, Young, Sarah K., Zeng, Qiandong, Zimmer, Andrew R., Rosenthal, Andre, Birren, Bruce W., Platzer, Matthias, Shimizu, Nobuyoshi, Lander, Eric S.

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