Search Results - "Eyras, E."

Prediction of m6A and m5C at single-molecule resolution reveals a transcriptome-wide co-occurrence of RNA modifications by Acera Mateos, P, J Sethi, A, Ravindran, A, Srivastava, A, Woodward, K, Mahmud, S, Kanchi, M, Guarnacci, M, Xu, J, W S Yuen, Z, Zhou, Y, Sneddon, A, Hamilton, W, Gao, J, M Starrs, L, Hayashi, R, Wickramasinghe, V, Zarnack, K, Preiss, T, Burgio, G, Dehorter, N, E Shirokikh, N, Eyras, E

“…The epitranscriptome embodies many new and largely unexplored functions of RNA. A significant roadblock hindering progress in epitranscriptomics is the…”
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The prognostic potential of alternative transcript isoforms across human tumors by Trincado, Juan L, Sebestyén, E, Pagés, A, Eyras, E

“…Phenotypic changes during cancer progression are associated with alterations in gene expression, which can be exploited to build molecular signatures for tumor…”
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The Ensembl genome database project by Hubbard, T, Barker, D, Birney, E, Cameron, G, Chen, Y, Clark, L, Cox, T, Cuff, J, Curwen, V, Down, T, Durbin, R, Eyras, E, Gilbert, J, Hammond, M, Huminiecki, L, Kasprzyk, A, Lehvaslaiho, H, Lijnzaad, P, Melsopp, C, Mongin, E, Pettett, R, Pocock, M, Potter, S, Rust, A, Schmidt, E, Searle, S, Slater, G, Smith, J, Spooner, W, Stabenau, A, Stalker, J, Stupka, E, Ureta-Vidal, A, Vastrik, I, Clamp, M

“…The Ensembl (http://www.ensembl.org/) database project provides a bioinformatics framework to organise biology around the sequences of large genomes. It is a…”
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Ensembl 2002: accommodating comparative genomics by Clamp, M., Andrews, D., Barker, D., Bevan, P., Cameron, G., Chen, Y., Clark, L., Cox, T., Cuff, J., Curwen, V., Down, T., Durbin, R., Eyras, E., Gilbert, J., Hammond, M., Hubbard, T., Kasprzyk, A., Keefe, D., Lehvaslaiho, H., Iyer, V., Melsopp, C., Mongin, E., Pettett, R., Potter, S., Rust, A., Schmidt, E., Searle, S., Slater, G., Smith, J., Spooner, W., Stabenau, A., Stalker, J., Stupka, E., Ureta-Vidal, A., Vastrik, I., Birney, E.

“…The Ensembl (http://www.ensembl.org/) database project provides a bioinformatics framework to organise biology around the sequences of large genomes. It is a…”
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Ensembl 2004 by Birney, E., Andrews, D., Bevan, P., Caccamo, M., Cameron, G., Chen, Y., Clarke, L., Coates, G., Cox, T., Cuff, J., Curwen, V., Cutts, T., Down, T., Durbin, R., Eyras, E., Fernandez‐Suarez, X. M., Gane, P., Gibbins, B., Gilbert, J., Hammond, M., Hotz, H., Iyer, V., Kahari, A., Jekosch, K., Kasprzyk, A., Keefe, D., Keenan, S., Lehvaslaiho, H., McVicker, G., Melsopp, C., Meidl, P., Mongin, E., Pettett, R., Potter, S., Proctor, G., Rae, M., Searle, S., Slater, G., Smedley, D., Smith, J., Spooner, W., Stabenau, A., Stalker, J., Storey, R., Ureta‐Vidal, A., Woodwark, C., Clamp, M., Hubbard, T.

“…The Ensembl (http://www.ensembl.org/) database project provides a bioinformatics framework to organize biology around the sequences of large genomes. It is a…”
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Chromatin and alternative splicing by Alló, M, Schor, I E, Muñoz, M J, de la Mata, M, Agirre, E, Valcárcel, J, Eyras, E, Kornblihtt, A R

“…Alternative splicing affects more than 90% of human genes. Coupling between transcription and splicing has become crucial in the complex network underlying…”
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Multiple intersections of D-branes and M-branes by Bergshoeff, E., de Roo, M., Eyras, E., Janssen, B., van der Schaar, J.P.

“…We give a classification of all multiple intersections of D-branes in ten dimensions and M-branes in eleven dimensions that correspond to threshold BPS bound…”
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Gauged supergravity from dimensional reduction by Bergshoeff, E., de Roo, M., Eyras, E.

“…We perform a generalised Scherk-Schwarz reduction of the effective action of the heterotic string on T 6 to obtain a massive N = 4 supergravity theory in four…”
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Space-time-filling branes and strings with sixteen supercharges by Bergshoeff, E., Eyras, E., Halbersma, R., van der Schaar, J.P., Hull, C.M., Lozano, Y.

“…We discuss branes whose world-volume dimension equals the target space-time dimension, i.e. “space-time-filling branes”. In addition to the D9-branes, there…”
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IRFinder: assessing the impact of intron retention on mammalian gene expression by Middleton, Robert, Gao, Dadi, Thomas, Aubin, Singh, Babita, Au, Amy, Wong, Justin J-L, Bomane, Alexandra, Cosson, Bertrand, Eyras, Eduardo, Rasko, John E J, Ritchie, William

“…Intron retention (IR) occurs when an intron is transcribed into pre-mRNA and remains in the final mRNA. We have developed a program and database called…”
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The BioMart community portal: an innovative alternative to large, centralized data repositories by Smedley, Damian, Haider, Syed, Durinck, Steffen, Pandini, Luca, Provero, Paolo, Allen, James, Arnaiz, Olivier, Awedh, Mohammad Hamza, Baldock, Richard, Barbiera, Giulia, Bardou, Philippe, Beck, Tim, Blake, Andrew, Bonierbale, Merideth, Brookes, Anthony J, Bucci, Gabriele, Buetti, Iwan, Burge, Sarah, Cabau, Cédric, Carlson, Joseph W, Chelala, Claude, Chrysostomou, Charalambos, Cittaro, Davide, Collin, Olivier, Cordova, Raul, Cutts, Rosalind J, Dassi, Erik, Di Genova, Alex, Djari, Anis, Esposito, Anthony, Estrella, Heather, Eyras, Eduardo, Fernandez-Banet, Julio, Forbes, Simon, Free, Robert C, Fujisawa, Takatomo, Gadaleta, Emanuela, Garcia-Manteiga, Jose M, Goodstein, David, Gray, Kristian, Guerra-Assunção, José Afonso, Haggarty, Bernard, Han, Dong-Jin, Han, Byung Woo, Harris, Todd, Harshbarger, Jayson, Hastings, Robert K, Hayes, Richard D, Hoede, Claire, Hu, Shen, Hu, Zhi-Liang, Hutchins, Lucie, Kan, Zhengyan, Kawaji, Hideya, Keliet, Aminah, Kerhornou, Arnaud, Kim, Sunghoon, Kinsella, Rhoda, Klopp, Christophe, Kong, Lei, Lawson, Daniel, Lazarevic, Dejan, Lee, Ji-Hyun, Letellier, Thomas, Li, Chuan-Yun, Lio, Pietro, Liu, Chu-Jun, Luo, Jie, Maass, Alejandro, Mariette, Jerome, Maurel, Thomas, Merella, Stefania, Mohamed, Azza Mostafa, Moreews, Francois, Nabihoudine, Ibounyamine, Ndegwa, Nelson, Noirot, Céline, Perez-Llamas, Cristian, Primig, Michael, Quattrone, Alessandro, Quesneville, Hadi, Rambaldi, Davide, Reecy, James, Riba, Michela, Rosanoff, Steven, Saddiq, Amna Ali, Salas, Elisa, Sallou, Olivier, Shepherd, Rebecca, Simon, Reinhard, Sperling, Linda, Spooner, William, Staines, Daniel M, Steinbach, Delphine, Stone, Kevin, Stupka, Elia, Teague, Jon W, Dayem Ullah, Abu Z, Wang, Jun, Ware, Doreen

“…The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide a unified interface to biomedical databases that are distributed…”
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The ENCODE (ENCyclopedia of DNA Elements) Project by Feingold, E A, Good, P J, Guyer, M S, Kamholz, S

“…The ENCyclopedia of DNA Elements (ENCODE) Project aims to identify all functional elements in the human genome sequence. The pilot phase of the Project is…”
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Initial sequencing and comparative analysis of the mouse genome by Waterston, Robert H, Lindblad-Toh, Kerstin, Birney, Ewan, Rogers, Jane, Abril, Josep F, Agarwal, Pankaj, Agarwala, Richa, Ainscough, Rachel, Alexandersson, Marina, An, Peter, Antonarakis, Stylianos E, Attwood, John, Baertsch, Robert, Bailey, Jonathon, Barlow, Karen, Beck, Stephan, Berry, Eric, Birren, Bruce, Bloom, Toby, Bork, Peer, Botcherby, Marc, Bray, Nicolas, Brent, Michael R, Brown, Daniel G, Brown, Stephen D, Bult, Carol, Burton, John, Butler, Jonathan, Campbell, Robert D, Carninci, Piero, Cawley, Simon, Chiaromonte, Francesca, Chinwalla, Asif T, Church, Deanna M, Clamp, Michele, Clee, Christopher, Collins, Francis S, Cook, Lisa L, Copley, Richard R, Coulson, Alan, Couronne, Olivier, Cuff, James, Curwen, Val, Cutts, Tim, Daly, Mark, David, Robert, Davies, Joy, Delehaunty, Kimberly D, Deri, Justin, Dermitzakis, Emmanouil T, Dewey, Colin, Dickens, Nicholas J, Diekhans, Mark, Dodge, Sheila, Dubchak, Inna, Dunn, Diane M, Eddy, Sean R, Elnitski, Laura, Emes, Richard D, Eswara, Pallavi, Eyras, Eduardo, Felsenfeld, Adam, Fewell, Ginger A, Flicek, Paul, Foley, Karen, Frankel, Wayne N, Fulton, Lucinda A, Fulton, Robert S, Furey, Terrence S, Gage, Diane, Gibbs, Richard A, Glusman, Gustavo, Gnerre, Sante, Goldman, Nick, Goodstadt, Leo, Grafham, Darren, Graves, Tina A, Green, Eric D, Gregory, Simon, Guigó, Roderic, Guyer, Mark, Hardison, Ross C, Haussler, David, Hayashizaki, Yoshihide, Hillier, LaDeana W, Hinrichs, Angela, Hlavina, Wratko, Holzer, Timothy, Hsu, Fan, Hua, Axin, Hubbard, Tim, Hunt, Adrienne, Jackson, Ian, Jaffe, David B, Johnson, L Steven, Jones, Matthew, Jones, Thomas A, Joy, Ann, Kamal, Michael, Karlsson, Elinor K

“…The sequence of the mouse genome is a key informational tool for understanding the contents of the human genome and a key experimental tool for biomedical…”
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Kaluza-Klein Monopole and 5-brane Effective Actions by Eyras, Eduardo, Lozano, Yolanda

“…We review the construction of the Kaluza‐Klein monopole of the Type IIA theory in the most general case of a massive background, as well as its relation via…”
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The Ensembl automatic gene annotation system by Curwen, Val, Eyras, Eduardo, Andrews, T Daniel, Clarke, Laura, Mongin, Emmanuel, Searle, Steven M J, Clamp, Michele

“…As more genomes are sequenced, there is an increasing need for automated first-pass annotation which allows timely access to important genomic information. The…”
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An overview of Ensembl by Birney, Ewan, Andrews, T Daniel, Bevan, Paul, Caccamo, Mario, Chen, Yuan, Clarke, Laura, Coates, Guy, Cuff, James, Curwen, Val, Cutts, Tim, Down, Thomas, Eyras, Eduardo, Fernandez-Suarez, Xose M, Gane, Paul, Gibbins, Brian, Gilbert, James, Hammond, Martin, Hotz, Hans-Rudolf, Iyer, Vivek, Jekosch, Kerstin, Kahari, Andreas, Kasprzyk, Arek, Keefe, Damian, Keenan, Stephen, Lehvaslaiho, Heikki, McVicker, Graham, Melsopp, Craig, Meidl, Patrick, Mongin, Emmanuel, Pettett, Roger, Potter, Simon, Proctor, Glenn, Rae, Mark, Searle, Steve, Slater, Guy, Smedley, Damian, Smith, James, Spooner, Will, Stabenau, Arne, Stalker, James, Storey, Roy, Ureta-Vidal, Abel, Woodwark, K Cara, Cameron, Graham, Durbin, Richard, Cox, Anthony, Hubbard, Tim, Clamp, Michele

“…Ensembl (http://www.ensembl.org/) is a bioinformatics project to organize biological information around the sequences of large genomes. It is a comprehensive…”
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Integrative annotation of 21,037 human genes validated by full-length cDNA clones by Imanishi, Tadashi, Itoh, Takeshi, Suzuki, Yutaka, O'Donovan, Claire, Fukuchi, Satoshi, Koyanagi, Kanako O, Barrero, Roberto A, Tamura, Takuro, Yamaguchi-Kabata, Yumi, Tanino, Motohiko, Yura, Kei, Miyazaki, Satoru, Ikeo, Kazuho, Homma, Keiichi, Kasprzyk, Arek, Nishikawa, Tetsuo, Hirakawa, Mika, Thierry-Mieg, Jean, Thierry-Mieg, Danielle, Ashurst, Jennifer, Jia, Libin, Nakao, Mitsuteru, Thomas, Michael A, Mulder, Nicola, Karavidopoulou, Youla, Jin, Lihua, Kim, Sangsoo, Yasuda, Tomohiro, Lenhard, Boris, Eveno, Eric, Suzuki, Yoshiyuki, Yamasaki, Chisato, Takeda, Jun-ichi, Gough, Craig, Hilton, Phillip, Fujii, Yasuyuki, Sakai, Hiroaki, Tanaka, Susumu, Amid, Clara, Bellgard, Matthew, Bonaldo, Maria de Fatima, Bono, Hidemasa, Bromberg, Susan K, Brookes, Anthony J, Bruford, Elspeth, Carninci, Piero, Chelala, Claude, Couillault, Christine, de Souza, Sandro J, Debily, Marie-Anne, Devignes, Marie-Dominique, Dubchak, Inna, Endo, Toshinori, Estreicher, Anne, Eyras, Eduardo, Fukami-Kobayashi, Kaoru, Gopinath, Gopal R, Graudens, Esther, Hahn, Yoonsoo, Han, Michael, Han, Ze-Guang, Hanada, Kousuke, Hanaoka, Hideki, Harada, Erimi, Hashimoto, Katsuyuki, Hinz, Ursula, Hirai, Momoki, Hishiki, Teruyoshi, Hopkinson, Ian, Imbeaud, Sandrine, Inoko, Hidetoshi, Kanapin, Alexander, Kaneko, Yayoi, Kasukawa, Takeya, Kelso, Janet, Kersey, Paul, Kikuno, Reiko, Kimura, Kouichi, Korn, Bernhard, Kuryshev, Vladimir, Makalowska, Izabela, Makino, Takashi, Mano, Shuhei, Mariage-Samson, Regine, Mashima, Jun, Matsuda, Hideo, Mewes, Hans-Werner, Minoshima, Shinsei, Nagai, Keiichi, Nagasaki, Hideki, Nagata, Naoki, Nigam, Rajni, Ogasawara, Osamu, Ohara, Osamu, Ohtsubo, Masafumi, Okada, Norihiro, Okido, Toshihisa, Oota, Satoshi, Ota, Motonori, Ota, Toshio

“…The human genome sequence defines our inherent biological potential; the realization of the biology encoded therein requires knowledge of the function of each…”
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ASTD: The Alternative Splicing and Transcript Diversity database by Koscielny, Gautier, Texier, Vincent Le, Gopalakrishnan, Chellappa, Kumanduri, Vasudev, Riethoven, Jean-Jack, Nardone, Francesco, Stanley, Eleanor, Fallsehr, Christine, Hofmann, Oliver, Kull, Meelis, Harrington, Eoghan, Boué, Stéphanie, Eyras, Eduardo, Plass, Mireya, Lopez, Fabrice, Ritchie, William, Moucadel, Virginie, Ara, Takeshi, Pospisil, Heike, Herrmann, Alexander, G. Reich, Jens, Guigó, Roderic, Bork, Peer, Doeberitz, Magnus von Knebel, Vilo, Jaak, Hide, Winston, Apweiler, Rolf, Thanaraj, Thangavel Alphonse, Gautheret, Daniel

“…The Alternative Splicing and Transcript Diversity database (ASTD) gives access to a vast collection of alternative transcripts that integrate transcription…”
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Co-evolution of the branch site and SR proteins in eukaryotes by Plass, Mireya, Agirre, Eneritz, Reyes, Diana, Camara, Francisco, Eyras, Eduardo

“…Serine–arginine-rich (SR) proteins are essential for splicing in metazoans but are absent in yeast. By contrast, many fungi have SR protein homologs with…”
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ESTGenes: alternative splicing from ESTs in Ensembl by Eyras, Eduardo, Caccamo, Mario, Curwen, Val, Clamp, Michele

“…We describe a novel algorithm for deriving the minimal set of nonredundant transcripts compatible with the splicing structure of a set of ESTs mapped on a…”
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