Phylogenetic Profiling: How Much Input Data Is Enough?

por Škunca, Nives, Dessimoz, Christophe
Publicado 2015

Quality of Computationally Inferred Gene Ontology Annotations

por Škunca, Nives, Altenhoff, Adrian, Dessimoz, Christophe
Publicado 2012

The what, where, how and why of gene ontology—a primer for bioinformaticians

por du Plessis, Louis, Škunca, Nives, Dessimoz, Christophe
Publicado 2011

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

por Supek, Fran, Bošnjak, Matko, Škunca, Nives, Šmuc, Tomislav
Publicado 2011

Inferring Horizontal Gene Transfer

por Ravenhall, Matt, Škunca, Nives, Lassalle, Florent, Dessimoz, Christophe
Publicado 2015

Translational Selection Is Ubiquitous in Prokaryotes

por Supek, Fran, Škunca, Nives, Repar, Jelena, Vlahoviček, Kristian, Šmuc, Tomislav
Publicado 2010

Phyletic Profiling with Cliques of Orthologs Is Enhanced by Signatures of Paralogy Relationships

por Škunca, Nives, Bošnjak, Matko, Kriško, Anita, Panov, Panče, Džeroski, Sašo, Šmuc, Tomislav, Supek, Fran
Publicado 2013

The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements

por Altenhoff, Adrian M., Škunca, Nives, Glover, Natasha, Train, Clément-Marie, Sueki, Anna, Piližota, Ivana, Gori, Kevin, Tomiczek, Bartlomiej, Müller, Steven, Redestig, Henning, Gonnet, Gaston H., Dessimoz, Christophe
Publicado 2014

The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations

por Bastian, Frederic B., Chibucos, Marcus C., Gaudet, Pascale, Giglio, Michelle, Holliday, Gemma L., Huang, Hong, Lewis, Suzanna E., Niknejad, Anne, Orchard, Sandra, Poux, Sylvain, Skunca, Nives, Robinson-Rechavi, Marc
Publicado 2015

A Transcriptomic-Phylogenomic Analysis of the Evolutionary Relationships of Flatworms

por Egger, Bernhard, Lapraz, François, Tomiczek, Bartłomiej, Müller, Steven, Dessimoz, Christophe, Girstmair, Johannes, Škunca, Nives, Rawlinson, Kate A., Cameron, Christopher B., Beli, Elena, Todaro, M. Antonio, Gammoudi, Mehrez, Noreña, Carolina, Telford, Maximilian J.
Publicado 2015

The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease

por Peng, Xinxia, Alföldi, Jessica, Gori, Kevin, Eisfeld, Amie J., Tyler, Scott R., Tisoncik-Go, Jennifer, Brawand, David, Law, G. Lynn, Skunca, Nives, Hatta, Masato, Gasper, David J., Kelly, Sara M., Chang, Jean, Thomas, Matthew J., Johnson, Jeremy, Berlin, Aaron M., Lara, Marcia, Russell, Pamela, Swofford, Ross, Turner-Maier, Jason, Young, Sarah, Hourlier, Thibaut, Aken, Bronwen, Searle, Steve, Sun, Xingshen, Yi, Yaling, Suresh, M., Tumpey, Terrence M., Siepel, Adam, Wisely, Samantha M., Dessimoz, Christophe, Kawaoka, Yoshihiro, Birren, Bruce W., Lindblad-Toh, Kerstin, Di Palma, Federica, Engelhardt, John F., Palermo, Robert E., Katze, Michael G.
Publicado 2014

Toward community standards in the quest for orthologs

por Dessimoz, Christophe, Gabaldón, Toni, Roos, David S., Sonnhammer, Erik L. L., Herrero, Javier, Altenhoff, Adrian, Apweiler, Rolf, Ashburner, Michael, Blake, Judith, Boeckmann, Brigitte, Bridge, Alan, Bruford, Elspeth, Cherry, Mike, Conte, Matthieu, Dannie, Durand, Datta, Ruchira, Dessimoz, Christophe, Domelevo Entfellner, Jean-Baka, Ebersberger, Ingo, Gabaldón, Toni, Galperin, Michael, Herrero, Javier, Joseph, Jacob, Koestler, Tina, Kriventseva, Evgenia, Lecompte, Odile, Leunissen, Jack, Lewis, Suzanna, Linard, Benjamin, Livstone, Michael S., Lu, Hui-Chun, Martin, Maria, Mazumder, Raja, Messina, David, Miele, Vincent, Muffato, Matthieu, Perrière, Guy, Punta, Marco, Roos, David, Rouard, Mathieu, Schmitt, Thomas, Schreiber, Fabian, Silva, Alan, Sjölander, Kimmen, Škunca, Nives, Sonnhammer, Erik, Stanley, Eleanor, Szklarczyk, Radek, Thomas, Paul, Uchiyama, Ikuo, Van Bel, Michiel, Vandepoele, Klaas, Vilella, Albert J., Yates, Andrew, Zdobnov, Evgeny
Publicado 2012

A large-scale evaluation of computational protein function prediction

por Radivojac, Predrag, Clark, Wyatt T, Oron, Tal Ronnen, Schnoes, Alexandra M, Wittkop, Tobias, Sokolov, Artem, Graim, Kiley, Funk, Christopher, Verspoor, Karin, Ben-Hur, Asa, Pandey, Gaurav, Yunes, Jeffrey M, Talwalkar, Ameet S, Repo, Susanna, Souza, Michael L, Piovesan, Damiano, Casadio, Rita, Wang, Zheng, Cheng, Jianlin, Fang, Hai, Gough, Julian, Koskinen, Patrik, Törönen, Petri, Nokso-Koivisto, Jussi, Holm, Liisa, Cozzetto, Domenico, Buchan, Daniel W A, Bryson, Kevin, Jones, David T, Limaye, Bhakti, Inamdar, Harshal, Datta, Avik, Manjari, Sunitha K, Joshi, Rajendra, Chitale, Meghana, Kihara, Daisuke, Lisewski, Andreas M, Erdin, Serkan, Venner, Eric, Lichtarge, Olivier, Rentzsch, Robert, Yang, Haixuan, Romero, Alfonso E, Bhat, Prajwal, Paccanaro, Alberto, Hamp, Tobias, Kaßner, Rebecca, Seemayer, Stefan, Vicedo, Esmeralda, Schaefer, Christian, Achten, Dominik, Auer, Florian, Boehm, Ariane, Braun, Tatjana, Hecht, Maximilian, Heron, Mark, Hönigschmid, Peter, Hopf, Thomas A, Kaufmann, Stefanie, Kiening, Michael, Krompass, Denis, Landerer, Cedric, Mahlich, Yannick, Roos, Manfred, Björne, Jari, Salakoski, Tapio, Wong, Andrew, Shatkay, Hagit, Gatzmann, Fanny, Sommer, Ingolf, Wass, Mark N, Sternberg, Michael J E, Škunca, Nives, Supek, Fran, Bošnjak, Matko, Panov, Panče, Džeroski, Sašo, Šmuc, Tomislav, Kourmpetis, Yiannis A I, van Dijk, Aalt D J, Braak, Cajo J F ter, Zhou, Yuanpeng, Gong, Qingtian, Dong, Xinran, Tian, Weidong, Falda, Marco, Fontana, Paolo, Lavezzo, Enrico, Di Camillo, Barbara, Toppo, Stefano, Lan, Liang, Djuric, Nemanja, Guo, Yuhong, Vucetic, Slobodan, Bairoch, Amos, Linial, Michal, Babbitt, Patricia C, Brenner, Steven E, Orengo, Christine, Rost, Burkhard, Mooney, Sean D, Friedberg, Iddo
Publicado 2013

An expanded evaluation of protein function prediction methods shows an improvement in accuracy

por Jiang, Yuxiang, Oron, Tal Ronnen, Clark, Wyatt T., Bankapur, Asma R., D’Andrea, Daniel, Lepore, Rosalba, Funk, Christopher S., Kahanda, Indika, Verspoor, Karin M., Ben-Hur, Asa, Koo, Da Chen Emily, Penfold-Brown, Duncan, Shasha, Dennis, Youngs, Noah, Bonneau, Richard, Lin, Alexandra, Sahraeian, Sayed M. E., Martelli, Pier Luigi, Profiti, Giuseppe, Casadio, Rita, Cao, Renzhi, Zhong, Zhaolong, Cheng, Jianlin, Altenhoff, Adrian, Skunca, Nives, Dessimoz, Christophe, Dogan, Tunca, Hakala, Kai, Kaewphan, Suwisa, Mehryary, Farrokh, Salakoski, Tapio, Ginter, Filip, Fang, Hai, Smithers, Ben, Oates, Matt, Gough, Julian, Törönen, Petri, Koskinen, Patrik, Holm, Liisa, Chen, Ching-Tai, Hsu, Wen-Lian, Bryson, Kevin, Cozzetto, Domenico, Minneci, Federico, Jones, David T., Chapman, Samuel, BKC, Dukka, Khan, Ishita K., Kihara, Daisuke, Ofer, Dan, Rappoport, Nadav, Stern, Amos, Cibrian-Uhalte, Elena, Denny, Paul, Foulger, Rebecca E., Hieta, Reija, Legge, Duncan, Lovering, Ruth C., Magrane, Michele, Melidoni, Anna N., Mutowo-Meullenet, Prudence, Pichler, Klemens, Shypitsyna, Aleksandra, Li, Biao, Zakeri, Pooya, ElShal, Sarah, Tranchevent, Léon-Charles, Das, Sayoni, Dawson, Natalie L., Lee, David, Lees, Jonathan G., Sillitoe, Ian, Bhat, Prajwal, Nepusz, Tamás, Romero, Alfonso E., Sasidharan, Rajkumar, Yang, Haixuan, Paccanaro, Alberto, Gillis, Jesse, Sedeño-Cortés, Adriana E., Pavlidis, Paul, Feng, Shou, Cejuela, Juan M., Goldberg, Tatyana, Hamp, Tobias, Richter, Lothar, Salamov, Asaf, Gabaldon, Toni, Marcet-Houben, Marina, Supek, Fran, Gong, Qingtian, Ning, Wei, Zhou, Yuanpeng, Tian, Weidong, Falda, Marco, Fontana, Paolo, Lavezzo, Enrico, Toppo, Stefano, Ferrari, Carlo, Giollo, Manuel, Piovesan, Damiano, Tosatto, Silvio C.E., del Pozo, Angela, Fernández, José M., Maietta, Paolo, Valencia, Alfonso, Tress, Michael L., Benso, Alfredo, Di Carlo, Stefano, Politano, Gianfranco, Savino, Alessandro, Rehman, Hafeez Ur, Re, Matteo, Mesiti, Marco, Valentini, Giorgio, Bargsten, Joachim W., van Dijk, Aalt D. J., Gemovic, Branislava, Glisic, Sanja, Perovic, Vladmir, Veljkovic, Veljko, Veljkovic, Nevena, Almeida-e-Silva, Danillo C., Vencio, Ricardo Z. N., Sharan, Malvika, Vogel, Jörg, Kansakar, Lakesh, Zhang, Shanshan, Vucetic, Slobodan, Wang, Zheng, Sternberg, Michael J. E., Wass, Mark N., Huntley, Rachael P., Martin, Maria J., O’Donovan, Claire, Robinson, Peter N., Moreau, Yves, Tramontano, Anna, Babbitt, Patricia C., Brenner, Steven E., Linial, Michal, Orengo, Christine A., Rost, Burkhard, Greene, Casey S., Mooney, Sean D., Friedberg, Iddo, Radivojac, Predrag
Publicado 2016