Computational de novo discovery of distinguishing genes for biological processes and cell types in complex tissues

Por Newberg, Lee A., Chen, Xiaowei, Kodira, Chinnappa D., Zavodszky, Maria I.
Publicado no PLoS One (2018)

Genome-wide characterization of simple sequence repeats in cucumber (Cucumis sativus L.)

Por Cavagnaro, Pablo F, Senalik, Douglas A, Yang, Luming, Simon, Philipp W, Harkins, Timothy T, Kodira, Chinnappa D, Huang, Sanwen, Weng, Yiqun
Publicado em 2010

Genome Sequence of Ophidiomyces ophiodiicola, an Emerging Fungal Pathogen of Snakes

Por Ohkura, Mana, Fitak, Robert R., Wisecaver, Jennifer H., DeBlasio, Dan, Niazi, Faheem, Egholm, Michael, Rounsley, Steven D., Kodira, Chinnappa D., Orbach, Marc J.
Publicado no Genome Announc (2017)

Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta) genomic Annotation

Por 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
Publicado em 2008

Evolutionary Dynamics of the Accessory Genome of Listeria monocytogenes

Por 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
Publicado em 2013

The Complete Genome and Proteome of Mycoplasma mobile

Por 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.
Publicado em 2004

Comparative and Functional Genomics of Rhodococcus opacus PD630 for Biofuels Development

Por 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.
Publicado em 2011

Comparative Genomic Characterization of Francisella tularensis Strains Belonging to Low and High Virulence Subspecies

Por 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
Publicado em 2009

Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives

Por 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.
Publicado em 2009

Comparative Genomics of a Plant-Pathogenic Fungus, Pyrenophora tritici-repentis, Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergen...

Por 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.
Publicado em 2013

Genomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole-Genome Duplication

Por 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.
Publicado em 2009

Pathogenomics of Culex quinquefasciatus and meta-analysis of infection responses to diverse pathogens

Por 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.
Publicado em 2010

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

Por 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, Van de Peer, Yves, Rouzé, Pierre, Ellis, Jeffrey G., Dodds, Peter N., Schein, Jacqueline E., Zhong, Shaobin, Hamelin, Richard C., Grigoriev, Igor V., Szabo, Les J., Martin, Francis
Publicado em 2011

Comparative Genomic Analysis of Human Fungal Pathogens Causing Paracoccidioidomycosis

Por 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.
Publicado em 2011

Analysis of the Genome and Transcriptome of Cryptococcus neoformans var. grubii Reveals Complex RNA Expression and Microevolution Leading to Virulence Attenuation

Por Janbon, Guilhem, Ormerod, Kate L., Paulet, Damien, Byrnes, 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.
Publicado em 2014

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

Por Ma, Li-Jun, van der Does, H. Charlotte, Borkovich, Katherine A., Coleman, Jeffrey J., Daboussi, Marie-Josée, Di Pietro, Antonio, Dufresne, Marie, Freitag, Michael, Grabherr, Manfred, Henrissat, Bernard, Houterman, Petra M., Kang, Seogchan, Shim, Won-Bo, Woloshuk, Charles, Xie, Xiaohui, Xu, Jin-Rong, Antoniw, John, Baker, Scott E., Bluhm, Burton H., Breakspear, Andrew, Brown, Daren W., Butchko, Robert A. E., Chapman, Sinead, Coulson, Richard, Coutinho, Pedro M., Danchin, Etienne G. J., Diener, Andrew, Gale, Liane R., Gardiner, Donald M., Goff, Stephen, Hammond-Kosack, Kim E., Hilburn, Karen, Hua-Van, Aurélie, Jonkers, Wilfried, Kazan, Kemal, Kodira, Chinnappa D., Koehrsen, Michael, Kumar, Lokesh, Lee, Yong-Hwan, Li, Liande, Manners, John M., Miranda-Saavedra, Diego, Mukherjee, Mala, Park, Gyungsoon, Park, Jongsun, Park, Sook-Young, Proctor, Robert H., Regev, Aviv, Ruiz-Roldan, M. Carmen, Sain, Divya, Sakthikumar, Sharadha, Sykes, Sean, Schwartz, David C., Turgeon, B. Gillian, Wapinski, Ilan, Yoder, Olen, Young, Sarah, Zeng, Qiandong, Zhou, Shiguo, Galagan, James, Cuomo, Christina A., Kistler, H. Corby, Rep, Martijn
Publicado em 2010

Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics

Por 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, Feshotte, Cedric, Fraser-Liggett, Claire, Guigo, Roderic, Haas, Brian, Hammond, Martin, Hansson, Bill S., Hemingway, Janet, Hill, Sharon, 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, 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.
Publicado em 2010