Genomicus: five genome browsers for comparative genomics in eukaryota

por Louis, Alexandra, Muffato, Matthieu, Roest Crollius, Hugues
Publicado 2013

PhylDiag: identifying complex synteny blocks that include tandem duplications using phylogenetic gene trees

por Lucas, Joseph MEX, Muffato, Matthieu, Crollius, Hugues Roest
Publicado 2014

Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes

por Muffato, Matthieu, Louis, Alexandra, Poisnel, Charles-Edouard, Crollius, Hugues Roest
Publicado 2010

TreeFam v9: a new website, more species and orthology-on-the-fly

por Schreiber, Fabian, Patricio, Mateus, Muffato, Matthieu, Pignatelli, Miguel, Bateman, Alex
Publicado 2014

Genomicus update 2015: KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics

por Louis, Alexandra, Nguyen, Nga Thi Thuy, Muffato, Matthieu, Roest Crollius, Hugues
Publicado 2014

Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference

por Tan, Ge, Muffato, Matthieu, Ledergerber, Christian, Herrero, Javier, Goldman, Nick, Gil, Manuel, Dessimoz, Christophe
Publicado 2015

ncRNA orthologies in the vertebrate lineage

por Pignatelli, Miguel, Vilella, Albert J., Muffato, Matthieu, Gordon, Leo, White, Simon, Flicek, Paul, Herrero, Javier
Publicado 2016

Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom

por Muffato, Matthieu, Louis, Alexandra, Nguyen, Nga Thi Thuy, Lucas, Joseph, Berthelot, Camille, Roest Crollius, Hugues
Publicado 2023

Scripting Analyses of Genomes in Ensembl Plants

por Contreras-Moreira, Bruno, Naamati, Guy, Rosello, Marc, Allen, James E., Hunt, Sarah E., Muffato, Matthieu, Gall, Astrid, Flicek, Paul
Publicado 2022

Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream

por Boeckmann, Brigitte, Marcet-Houben, Marina, Rees, Jonathan A., Forslund, Kristoffer, Huerta-Cepas, Jaime, Muffato, Matthieu, Yilmaz, Pelin, Xenarios, Ioannis, Bork, Peer, Lewis, Suzanna E., Gabaldón, Toni
Publicado 2015

Ensembl comparative genomics resources

por Herrero, Javier, Muffato, Matthieu, Beal, Kathryn, Fitzgerald, Stephen, Gordon, Leo, Pignatelli, Miguel, Vilella, Albert J., Searle, Stephen M. J., Amode, Ridwan, Brent, Simon, Spooner, William, Kulesha, Eugene, Yates, Andrew, Flicek, Paul
Publicado 2016

Ensembl comparative genomics resources

por Herrero, Javier, Muffato, Matthieu, Beal, Kathryn, Fitzgerald, Stephen, Gordon, Leo, Pignatelli, Miguel, Vilella, Albert J., Searle, Stephen M. J., Amode, Ridwan, Brent, Simon, Spooner, William, Kulesha, Eugene, Yates, Andrew, Flicek, Paul
Publicado 2016

Advances and Applications in the Quest for Orthologs

por Glover, Natasha, Dessimoz, Christophe, Ebersberger, Ingo, Forslund, Sofia K, Gabaldón, Toni, Huerta-Cepas, Jaime, Martin, Maria-Jesus, Muffato, Matthieu, Patricio, Mateus, Pereira, Cécile, da Silva, Alan Sousa, Wang, Yan, Sonnhammer, Erik, Thomas, Paul D
Publicado 2019

Gearing up to handle the mosaic nature of life in the quest for orthologs

por Forslund, Kristoffer, Pereira, Cecile, Capella-Gutierrez, Salvador, da Silva, Alan Sousa, Altenhoff, Adrian, Huerta-Cepas, Jaime, Muffato, Matthieu, Patricio, Mateus, Vandepoele, Klaas, Ebersberger, Ingo, Blake, Judith, Fernández Breis, Jesualdo Tomás, Boeckmann, Brigitte, Gabaldón, Toni, Sonnhammer, Erik, Dessimoz, Christophe, Lewis, Suzanna
Publicado 2018

The Quest for Orthologs benchmark service and consensus calls in 2020

por Altenhoff, Adrian M, Garrayo-Ventas, Javier, Cosentino, Salvatore, Emms, David, Glover, Natasha M, Hernández-Plaza, Ana, Nevers, Yannis, Sundesha, Vicky, Szklarczyk, Damian, Fernández, José M, Codó, Laia, for Orthologs Consortium, the Quest, Gelpi, Josep Ll, Huerta-Cepas, Jaime, Iwasaki, Wataru, Kelly, Steven, Lecompte, Odile, Muffato, Matthieu, Martin, Maria J, Capella-Gutierrez, Salvador, Thomas, Paul D, Sonnhammer, Erik, Dessimoz, Christophe
Publicado 2020

Standardized benchmarking in the quest for orthologs

por Altenhoff, Adrian M, Boeckmann, Brigitte, Capella-Gutierrez, Salvador, Dalquen, Daniel A, DeLuca, Todd, Forslund, Kristoffer, Huerta-Cepas, Jaime, Linard, Benjamin, Pereira, Cécile, Pryszcz, Leszek P, Schreiber, Fabian, da Silva, Alan Sousa, Szklarczyk, Damian, Train, Clément-Marie, Bork, Peer, Lecompte, Odile, von Mering, Christian, Xenarios, Ioannis, Sjölander, Kimmen, Jensen, Lars Juhl, Martin, Maria J, Muffato, Matthieu, Gabaldón, Toni, Lewis, Suzanna E, Thomas, Paul D, Sonnhammer, Erik, Dessimoz, Christophe
Publicado 2016

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

por Thybert, David, Roller, Maša, Navarro, Fábio C.P., Fiddes, Ian, Streeter, Ian, Feig, Christine, Martin-Galvez, David, Kolmogorov, Mikhail, Janoušek, Václav, Akanni, Wasiu, Aken, Bronwen, Aldridge, Sarah, Chakrapani, Varshith, Chow, William, Clarke, Laura, Cummins, Carla, Doran, Anthony, Dunn, Matthew, Goodstadt, Leo, Howe, Kerstin, Howell, Matthew, Josselin, Ambre-Aurore, Karn, Robert C., Laukaitis, Christina M., Jingtao, Lilue, Martin, Fergal, Muffato, Matthieu, Nachtweide, Stefanie, Quail, Michael A., Sisu, Cristina, Stanke, Mario, Stefflova, Klara, Van Oosterhout, Cock, Veyrunes, Frederic, Ward, Ben, Yang, Fengtang, Yazdanifar, Golbahar, Zadissa, Amonida, Adams, David J., Brazma, Alvis, Gerstein, Mark, Paten, Benedict, Pham, Son, Keane, Thomas M., Odom, Duncan T., Flicek, Paul
Publicado 2018

The comparative genomics and complex population history of Papio baboons

por Rogers, Jeffrey, Raveendran, Muthuswamy, Harris, R. Alan, Mailund, Thomas, Leppälä, Kalle, Athanasiadis, Georgios, Schierup, Mikkel Heide, Cheng, Jade, Munch, Kasper, Walker, Jerilyn A., Konkel, Miriam K., Jordan, Vallmer, Steely, Cody J., Beckstrom, Thomas O., Bergey, Christina, Burrell, Andrew, Schrempf, Dominik, Noll, Angela, Kothe, Maximillian, Kopp, Gisela H., Liu, Yue, Murali, Shwetha, Billis, Konstantinos, Martin, Fergal J., Muffato, Matthieu, Cox, Laura, Else, James, Disotell, Todd, Muzny, Donna M., Phillips-Conroy, Jane, Aken, Bronwen, Eichler, Evan E., Marques-Bonet, Tomas, Kosiol, Carolin, Batzer, Mark A., Hahn, Matthew W., Tung, Jenny, Zinner, Dietmar, Roos, Christian, Jolly, Clifford J., Gibbs, Richard A., Worley, Kim C.
Publicado 2019

Ensembl 2016

por Yates, Andrew, Akanni, Wasiu, Amode, M. Ridwan, Barrell, Daniel, Billis, Konstantinos, Carvalho-Silva, Denise, Cummins, Carla, Clapham, Peter, Fitzgerald, Stephen, Gil, Laurent, Girón, Carlos García, Gordon, Leo, Hourlier, Thibaut, Hunt, Sarah E., Janacek, Sophie H., Johnson, Nathan, Juettemann, Thomas, Keenan, Stephen, Lavidas, Ilias, Martin, Fergal J., Maurel, Thomas, McLaren, William, Murphy, Daniel N., Nag, Rishi, Nuhn, Michael, Parker, Anne, Patricio, Mateus, Pignatelli, Miguel, Rahtz, Matthew, Riat, Harpreet Singh, Sheppard, Daniel, Taylor, Kieron, Thormann, Anja, Vullo, Alessandro, Wilder, Steven P., Zadissa, Amonida, Birney, Ewan, Harrow, Jennifer, Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Spudich, Giulietta, Trevanion, Stephen J., Cunningham, Fiona, Aken, Bronwen L., Zerbino, Daniel R., Flicek, Paul
Publicado 2016

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