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 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 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 2017

The Cassava Genome: Current Progress, Future Directions

por Prochnik, Simon, Marri, Pradeep Reddy, Desany, Brian, Rabinowicz, Pablo D., Kodira, Chinnappa, Mohiuddin, Mohammed, Rodriguez, Fausto, Fauquet, Claude, Tohme, Joseph, Harkins, Timothy, Rokhsar, Daniel S., Rounsley, Steve
Publicado 2012

Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity

por Parfrey, Laura Wegener, Walters, William A., Lauber, Christian L., Clemente, Jose C., Berg-Lyons, Donna, Teiling, Clotilde, Kodira, Chinnappa, Mohiuddin, Mohammed, Brunelle, Julie, Driscoll, Mark, Fierer, Noah, Gilbert, Jack A., Knight, Rob
Publicado 2014

Genomic Analysis of the Hydrocarbon-Producing, Cellulolytic, Endophytic Fungus Ascocoryne sarcoides

por Gianoulis, Tara A., Griffin, Meghan A., Spakowicz, Daniel J., Dunican, Brian F., Alpha, Cambria J., Sboner, Andrea, Sismour, A. Michael, Kodira, Chinnappa, Egholm, Michael, Church, George M., Gerstein, Mark B., Strobel, Scott A.
Publicado 2012

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 2013

Leveraging Spatial Variation in Tumor Purity for Improved Somatic Variant Calling of Archival Tumor Only Samples

por Halperin, Rebecca F., Liang, Winnie S., Kulkarni, Sidharth, Tassone, Erica E., Adkins, Jonathan, Enriquez, Daniel, Tran, Nhan L., Hank, Nicole C., Newell, James, Kodira, Chinnappa, Korn, Ronald, Berens, Michael E., Kim, Seungchan, Byron, Sara A.
Publicado 2019

Analysis of High-Throughput Sequencing and Annotation Strategies for Phage Genomes

por Henn, Matthew R., Sullivan, Matthew B., Stange-Thomann, Nicole, Osburne, Marcia S., Berlin, Aaron M., Kelly, Libusha, Yandava, Chandri, Kodira, Chinnappa, Zeng, Qiandong, Weiand, Michael, Sparrow, Todd, Saif, Sakina, Giannoukos, Georgia, Young, Sarah K., Nusbaum, Chad, Birren, Bruce W., Chisholm, Sallie W.
Publicado 2010

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 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 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 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 2009

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 2011

Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication

por Wu, G. Albert, Prochnik, Simon, Jenkins, Jerry, Salse, Jerome, Hellsten, Uffe, Murat, Florent, Perrier, Xavier, Ruiz, Manuel, Scalabrin, Simone, Terol, Javier, Takita, Marco Aurélio, Labadie, Karine, Poulain, Julie, Couloux, Arnaud, Jabbari, Kamel, Cattonaro, Federica, Del Fabbro, Cristian, Pinosio, Sara, Zuccolo, Andrea, Chapman, Jarrod, Grimwood, Jane, Tadeo, Francisco R., Estornell, Leandro H., Muñoz-Sanz, Juan V., Ibanez, Victoria, Herrero-Ortega, Amparo, Aleza, Pablo, Pérez-Pérez, Julián, Ramón, Daniel, Brunel, Dominique, Luro, François, Chen, Chunxian, Farmerie, William G., Desany, Brian, Kodira, Chinnappa, Mohiuddin, Mohammed, Harkins, Tim, Fredrikson, Karin, Burns, Paul, Lomsadze, Alexandre, Borodovsky, Mark, Reforgiato, Giuseppe, Freitas-Astúa, Juliana, Quetier, Francis, Navarro, Luis, Roose, Mikeal, Wincker, Patrick, Schmutz, Jeremy, Morgante, Michele, Machado, Marcos Antonio, Talon, Manuel, Jaillon, Olivier, Ollitrault, Patrick, Gmitter, Frederick, Rokhsar, Daniel
Publicado 2014

Evolution of pathogenicity and sexual reproduction in eight Candida genomes

por Butler, Geraldine, Rasmussen, Matthew D., Lin, Michael F., Santos, Manuel A.S., Sakthikumar, Sharadha, Munro, Carol A., Rheinbay, Esther, Grabherr, Manfred, Forche, Anja, Reedy, Jennifer L., Agrafioti, Ino, Arnaud, Martha B., Bates, Steven, Brown, Alistair J.P., Brunke, Sascha, Costanzo, Maria C., Fitzpatrick, David A., de Groot, Piet W. J., Harris, David, Hoyer, Lois L., Hube, Bernhard, Klis, Frans M., Kodira, Chinnappa, Lennard, Nicola, Logue, Mary E., Martin, Ronny, Neiman, Aaron M., Nikolaou, Elissavet, Quail, Michael A., Quinn, Janet, Santos, Maria C., Schmitzberger, Florian F., Sherlock, Gavin, Shah, Prachi, Silverstein, Kevin, Skrzypek, Marek S., Soll, David, Staggs, Rodney, Stansfield, Ian, Stumpf, Michael P H, Sudbery, Peter E., Thyagarajan, Srikantha, Zeng, Qiandong, Berman, Judith, Berriman, Matthew, Heitman, Joseph, Gow, Neil A. R., Lorenz, Michael C., Birren, Bruce W., Kellis, Manolis, Cuomo, Christina A.
Publicado 2009

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 2014

Genomic Analysis of the Necrotrophic Fungal Pathogens Sclerotinia sclerotiorum and Botrytis cinerea

por Amselem, Joelle, Cuomo, Christina A., van Kan, Jan A. L., Viaud, Muriel, Benito, Ernesto P., Couloux, Arnaud, Coutinho, Pedro M., de Vries, Ronald P., Dyer, Paul S., Fillinger, Sabine, Fournier, Elisabeth, Gout, Lilian, Hahn, Matthias, Kohn, Linda, Lapalu, Nicolas, Plummer, Kim M., Pradier, Jean-Marc, Quévillon, Emmanuel, Sharon, Amir, Simon, Adeline, ten Have, Arjen, Tudzynski, Bettina, Tudzynski, Paul, Wincker, Patrick, Andrew, Marion, Anthouard, Véronique, Beever, Ross E., Beffa, Rolland, Benoit, Isabelle, Bouzid, Ourdia, Brault, Baptiste, Chen, Zehua, Choquer, Mathias, Collémare, Jérome, Cotton, Pascale, Danchin, Etienne G., Da Silva, Corinne, Gautier, Angélique, Giraud, Corinne, Giraud, Tatiana, Gonzalez, Celedonio, Grossetete, Sandrine, Güldener, Ulrich, Henrissat, Bernard, Howlett, Barbara J., Kodira, Chinnappa, Kretschmer, Matthias, Lappartient, Anne, Leroch, Michaela, Levis, Caroline, Mauceli, Evan, Neuvéglise, Cécile, Oeser, Birgitt, Pearson, Matthew, Poulain, Julie, Poussereau, Nathalie, Quesneville, Hadi, Rascle, Christine, Schumacher, Julia, Ségurens, Béatrice, Sexton, Adrienne, Silva, Evelyn, Sirven, Catherine, Soanes, Darren M., Talbot, Nicholas J., Templeton, Matt, Yandava, Chandri, Yarden, Oded, Zeng, Qiandong, Rollins, Jeffrey A., Lebrun, Marc-Henri, Dickman, Marty
Publicado 2011