Genomicus: five genome browsers for comparative genomics in eukaryota

by Louis, Alexandra, Muffato, Matthieu, Roest Crollius, Hugues
Published 2013

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

by Schreiber, Fabian, Patricio, Mateus, Muffato, Matthieu, Pignatelli, Miguel, Bateman, Alex
Published 2014

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

by Lucas, Joseph MEX, Muffato, Matthieu, Crollius, Hugues Roest
Published 2014

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

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

ncRNA orthologies in the vertebrate lineage

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

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

by Louis, Alexandra, Nguyen, Nga Thi Thuy, Muffato, Matthieu, Roest Crollius, Hugues
Published 2015

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

by 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
Published 2015

Ensembl comparative genomics resources

by 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
Published 2016

Ensembl comparative genomics resources

by 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
Published 2016

Standardised Benchmarking in the Quest for Orthologs

by 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, Sousa da Silva, Alan, Szklarczyk, Damian, Train, Clément-Marie, Bork, Peer, Lecompte, Odile, von Mering, Christian, Xenarios, Ioannis, Sjölander, Kimmen, Juhl Jensen, Lars, Martin, Maria J., Muffato, Matthieu, Gabaldón, Toni, Lewis, Suzanna E., Thomas, Paul D., Sonnhammer, Erik, Dessimoz, Christophe
Published 2016

Ensembl 2016

by 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
Published 2016

Ensembl 2012

by Flicek, Paul, Amode, M. Ridwan, Barrell, Daniel, Beal, Kathryn, Brent, Simon, Carvalho-Silva, Denise, Clapham, Peter, Coates, Guy, Fairley, Susan, Fitzgerald, Stephen, Gil, Laurent, Gordon, Leo, Hendrix, Maurice, Hourlier, Thibaut, Johnson, Nathan, Kähäri, Andreas K., Keefe, Damian, Keenan, Stephen, Kinsella, Rhoda, Komorowska, Monika, Koscielny, Gautier, Kulesha, Eugene, Larsson, Pontus, Longden, Ian, McLaren, William, Muffato, Matthieu, Overduin, Bert, Pignatelli, Miguel, Pritchard, Bethan, Riat, Harpreet Singh, Ritchie, Graham R. S., Ruffier, Magali, Schuster, Michael, Sobral, Daniel, Tang, Y. Amy, Taylor, Kieron, Trevanion, Stephen, Vandrovcova, Jana, White, Simon, Wilson, Mark, Wilder, Steven P., Aken, Bronwen L., Birney, Ewan, Cunningham, Fiona, Dunham, Ian, Durbin, Richard, Fernández-Suarez, Xosé M., Harrow, Jennifer, Herrero, Javier, Hubbard, Tim J. P., Parker, Anne, Proctor, Glenn, Spudich, Giulietta, Vogel, Jan, Yates, Andy, Zadissa, Amonida, Searle, Stephen M. J.
Published 2012

Toward community standards in the quest for orthologs

by 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
Published 2012

Ensembl 2013

by Flicek, Paul, Ahmed, Ikhlak, Amode, M. Ridwan, Barrell, Daniel, Beal, Kathryn, Brent, Simon, Carvalho-Silva, Denise, Clapham, Peter, Coates, Guy, Fairley, Susan, Fitzgerald, Stephen, Gil, Laurent, García-Girón, Carlos, Gordon, Leo, Hourlier, Thibaut, Hunt, Sarah, Juettemann, Thomas, Kähäri, Andreas K., Keenan, Stephen, Komorowska, Monika, Kulesha, Eugene, Longden, Ian, Maurel, Thomas, McLaren, William M., Muffato, Matthieu, Nag, Rishi, Overduin, Bert, Pignatelli, Miguel, Pritchard, Bethan, Pritchard, Emily, Riat, Harpreet Singh, Ritchie, Graham R. S., Ruffier, Magali, Schuster, Michael, Sheppard, Daniel, Sobral, Daniel, Taylor, Kieron, Thormann, Anja, Trevanion, Stephen, White, Simon, Wilder, Steven P., Aken, Bronwen L., Birney, Ewan, Cunningham, Fiona, Dunham, Ian, Harrow, Jennifer, Herrero, Javier, Hubbard, Tim J. P., Johnson, Nathan, Kinsella, Rhoda, Parker, Anne, Spudich, Giulietta, Yates, Andy, Zadissa, Amonida, Searle, Stephen M. J.
Published 2013

Ensembl 2014

by Flicek, Paul, Amode, M. Ridwan, Barrell, Daniel, Beal, Kathryn, Billis, Konstantinos, Brent, Simon, Carvalho-Silva, Denise, Clapham, Peter, Coates, Guy, Fitzgerald, Stephen, Gil, Laurent, Girón, Carlos García, Gordon, Leo, Hourlier, Thibaut, Hunt, Sarah, Johnson, Nathan, Juettemann, Thomas, Kähäri, Andreas K., Keenan, Stephen, Kulesha, Eugene, Martin, Fergal J., Maurel, Thomas, McLaren, William M., Murphy, Daniel N., Nag, Rishi, Overduin, Bert, Pignatelli, Miguel, Pritchard, Bethan, Pritchard, Emily, Riat, Harpreet S., Ruffier, Magali, Sheppard, Daniel, Taylor, Kieron, Thormann, Anja, Trevanion, Stephen J., Vullo, Alessandro, Wilder, Steven P., Wilson, Mark, Zadissa, Amonida, Aken, Bronwen L., Birney, Ewan, Cunningham, Fiona, Harrow, Jennifer, Herrero, Javier, Hubbard, Tim J.P., Kinsella, Rhoda, Muffato, Matthieu, Parker, Anne, Spudich, Giulietta, Yates, Andy, Zerbino, Daniel R., Searle, Stephen M.J.
Published 2014

Ensembl 2015

by Cunningham, Fiona, Amode, M. Ridwan, Barrell, Daniel, Beal, Kathryn, Billis, Konstantinos, Brent, Simon, Carvalho-Silva, Denise, Clapham, Peter, Coates, Guy, Fitzgerald, Stephen, Gil, Laurent, Girón, Carlos García, Gordon, Leo, Hourlier, Thibaut, Hunt, Sarah E., Janacek, Sophie H., Johnson, Nathan, Juettemann, Thomas, Kähäri, Andreas K., Keenan, Stephen, Martin, Fergal J., Maurel, Thomas, McLaren, William, Murphy, Daniel N., Nag, Rishi, Overduin, Bert, Parker, Anne, Patricio, Mateus, Perry, Emily, Pignatelli, Miguel, Riat, Harpreet Singh, Sheppard, Daniel, Taylor, Kieron, Thormann, Anja, Vullo, Alessandro, Wilder, Steven P., Zadissa, Amonida, Aken, Bronwen L., Birney, Ewan, Harrow, Jennifer, Kinsella, Rhoda, Muffato, Matthieu, Ruffier, Magali, Searle, Stephen M.J., Spudich, Giulietta, Trevanion, Stephen J., Yates, Andy, Zerbino, Daniel R., Flicek, Paul
Published 2015

Gibbon genome and the fast karyotype evolution of small apes

by Carbone, Lucia, Harris, R. Alan, Gnerre, Sante, Veeramah, Krishna R., Lorente-Galdos, Belen, Huddleston, John, Meyer, Thomas J., Herrero, Javier, Roos, Christian, Aken, Bronwen, Anaclerio, Fabio, Archidiacono, Nicoletta, Baker, Carl, Barrell, Daniel, Batzer, Mark A., Beal, Kathryn, Blancher, Antoine, Bohrson, Craig L., Brameier, Markus, Campbell, Michael S., Capozzi, Oronzo, Casola, Claudio, Chiatante, Giorgia, Cree, Andrew, Damert, Annette, de Jong, Pieter J., Dumas, Laura, Fernandez-Callejo, Marcos, Flicek, Paul, Fuchs, Nina V., Gut, Marta, Gut, Ivo, Hahn, Matthew W., Hernandez-Rodriguez, Jessica, Hillier, LaDeana W., Hubley, Robert, Ianc, Bianca, Izsvák, Zsuzsanna, Jablonski, Nina G., Johnstone, Laurel M., Karimpour-Fard, Anis, Konkel, Miriam K., Kostka, Dennis, Lazar, Nathan H., Lee, Sandra L., Lewis, Lora R., Liu, Yue, Locke, Devin P., Mallick, Swapan, Mendez, Fernando L., Muffato, Matthieu, Nazareth, Lynne V., Nevonen, Kimberly A., O,Bleness, Majesta, Ochis, Cornelia, Odom, Duncan T., Pollard, Katherine S., Quilez, Javier, Reich, David, Rocchi, Mariano, Schumann, Gerald G., Searle, Stephen, Sikela, James M., Skollar, Gabriella, Smit, Arian, Sonmez, Kemal, Hallers, Boudewijn ten, Terhune, Elizabeth, Thomas, Gregg W.C., Ullmer, Brygg, Ventura, Mario, Walker, Jerilyn A., Wall, Jeffrey D., Walter, Lutz, Ward, Michelle C., Wheelan, Sarah J., Whelan, Christopher W., White, Simon, Wilhelm, Larry J., Woerner, August E., Yandell, Mark, Zhu, Baoli, Hammer, Michael F., Marques-Bonet, Tomas, Eichler, Evan E., Fulton, Lucinda, Fronick, Catrina, Muzny, Donna M., Warren, Wesley C., Worley, Kim C., Rogers, Jeffrey, Wilson, Richard K., Gibbs, Richard A.
Published 2014