Progress, Challenges, and Surprises in Annotating the Human Genome

por Zerbino, Daniel R., Frankish, Adam, Flicek, Paul
Publicado 2020

A unifying model of genome evolution under parsimony

por Paten, Benedict, Zerbino, Daniel R, Hickey, Glenn, Haussler, David
Publicado 2014

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

por Schulz, Marcel H., Zerbino, Daniel R., Vingron, Martin, Birney, Ewan
Publicado 2012

Representing and decomposing genomic structural variants as balanced integer flows on sequence graphs

por Zerbino, Daniel R., Ballinger, Tracy, Paten, Benedict, Hickey, Glenn, Haussler, David
Publicado 2016

Pebble and Rock Band: Heuristic Resolution of Repeats and Scaffolding in the Velvet Short-Read de Novo Assembler

por Zerbino, Daniel R., McEwen, Gayle K., Margulies, Elliott H., Birney, Ewan
Publicado 2009

WiggleTools: parallel processing of large collections of genome-wide datasets for visualization and statistical analysis

por Zerbino, Daniel R., Johnson, Nathan, Juettemann, Thomas, Wilder, Steven P., Flicek, Paul
Publicado 2014

The Ensembl Regulatory Build

por Zerbino, Daniel R, Wilder, Steven P, Johnson, Nathan, Juettemann, Thomas, Flicek, Paul R
Publicado 2015

Sequence tube maps: making graph genomes intuitive to commuters

por Beyer, Wolfgang, Novak, Adam M, Hickey, Glenn, Chan, Jeffrey, Tan, Vanessa, Paten, Benedict, Zerbino, Daniel R
Publicado 2019

Transcription and DNA Methylation Patterns of Blood-Derived CD8(+) T Cells Are Associated With Age and Inflammatory Bowel Disease But Do Not Predict Prognosis

por Gasparetto, Marco, Payne, Felicity, Nayak, Komal, Kraiczy, Judith, Glemas, Claire, Philip-McKenzie, Yosef, Ross, Alexander, Edgar, Rachel D., Zerbino, Daniel R., Salvestrini, Camilla, Torrente, Franco, Ventham, Nicholas T., Kalla, Rahul, Satsangi, Jack, Sarkies, Peter, Heuschkel, Robert, Zilbauer, Matthias
Publicado 2021

Culture-Associated DNA Methylation Changes Impact on Cellular Function of Human Intestinal Organoids

por Edgar, Rachel D., Perrone, Francesca, Foster, April R., Payne, Felicity, Lewis, Sophia, Nayak, Komal M., Kraiczy, Judith, Cenier, Aurélie, Torrente, Franco, Salvestrini, Camilla, Heuschkel, Robert, Hensel, Kai O., Harris, Rebecca, Jones, D. Leanne, Zerbino, Daniel R., Zilbauer, Matthias
Publicado 2022

A compendium of uniformly processed human gene expression and splicing quantitative trait loci

por Kerimov, Nurlan, Hayhurst, James D., Peikova, Kateryna, Manning, Jonathan R., Walter, Peter, Kolberg, Liis, Samoviča, Marija, Sakthivel, Manoj Pandian, Kuzmin, Ivan, Trevanion, Stephen J., Burdett, Tony, Jupp, Simon, Parkinson, Helen, Papatheodorou, Irene, Yates, Andrew D., Zerbino, Daniel R., Alasoo, Kaur
Publicado 2021

Ensembl regulation resources

por Zerbino, Daniel R., Johnson, Nathan, Juetteman, Thomas, Sheppard, Dan, Wilder, Steven P., Lavidas, Ilias, Nuhn, Michael, Perry, Emily, Raffaillac-Desfosses, Quentin, Sobral, Daniel, Keefe, Damian, Gräf, Stefan, Ahmed, Ikhlak, Kinsella, Rhoda, Pritchard, Bethan, Brent, Simon, Amode, Ridwan, Parker, Anne, Trevanion, Steven, Birney, Ewan, Dunham, Ian, Flicek, Paul
Publicado 2016

Perspectives on ENCODE

por Snyder, Michael P., Gingeras, Thomas R., Moore, Jill E., Weng, Zhiping, Gerstein, Mark B., Ren, Bing, Hardison, Ross C., Stamatoyannopoulos, John A., Graveley, Brenton R., Feingold, Elise A., Pazin, Michael J., Pagan, Michael, Gilchrist, Daniel A., Hitz, Benjamin C., Cherry, J. Michael, Bernstein, Bradley E., Mendenhall, Eric M., Zerbino, Daniel R., Frankish, Adam, Flicek, Paul, Myers, Richard M.
Publicado 2020

Author Correction: Perspectives on ENCODE

por Snyder, Michael P., Gingeras, Thomas R., Moore, Jill E., Weng, Zhiping, Gerstein, Mark B., Ren, Bing, Hardison, Ross C., Stamatoyannopoulos, John A., Graveley, Brenton R., Feingold, Elise A., Pazin, Michael J., Pagan, Michael, Gilchrist, Daniel A., Hitz, Benjamin C., Cherry, J. Michael, Bernstein, Bradley E., Mendenhall, Eric M., Zerbino, Daniel R., Frankish, Adam, Flicek, Paul, Myers, Richard M.
Publicado 2022

Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters

por Javierre, Biola M., Burren, Oliver S., Wilder, Steven P., Kreuzhuber, Roman, Hill, Steven M., Sewitz, Sven, Cairns, Jonathan, Wingett, Steven W., Várnai, Csilla, Thiecke, Michiel J., Burden, Frances, Farrow, Samantha, Cutler, Antony J., Rehnström, Karola, Downes, Kate, Grassi, Luigi, Kostadima, Myrto, Freire-Pritchett, Paula, Wang, Fan, Stunnenberg, Hendrik G., Todd, John A., Zerbino, Daniel R., Stegle, Oliver, Ouwehand, Willem H., Frontini, Mattia, Wallace, Chris, Spivakov, Mikhail, Fraser, Peter
Publicado 2016

The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data

por De Silva, Nishadi H, Bhai, Jyothish, Chakiachvili, Marc, Contreras-Moreira, Bruno, Cummins, Carla, Frankish, Adam, Gall, Astrid, Genez, Thiago, Howe, Kevin L, Hunt, Sarah E, Martin, Fergal J, Moore, Benjamin, Ogeh, Denye, Parker, Anne, Parton, Andrew, Ruffier, Magali, Sakthivel, Manoj Pandian, Sheppard, Dan, Tate, John, Thormann, Anja, Thybert, David, Trevanion, Stephen J, Winterbottom, Andrea, Zerbino, Daniel R, Finn, Robert D, Flicek, Paul, Yates, Andrew D
Publicado 2021

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

Ensembl 2015

por 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
Publicado 2014

Ensembl 2017

por Aken, Bronwen L., Achuthan, Premanand, Akanni, Wasiu, Amode, M. Ridwan, Bernsdorff, Friederike, Bhai, Jyothish, Billis, Konstantinos, Carvalho-Silva, Denise, Cummins, Carla, Clapham, Peter, Gil, Laurent, Girón, Carlos García, Gordon, Leo, Hourlier, Thibaut, Hunt, Sarah E., Janacek, Sophie H., Juettemann, Thomas, Keenan, Stephen, Laird, Matthew R., Lavidas, Ilias, Maurel, Thomas, McLaren, William, Moore, Benjamin, Murphy, Daniel N., Nag, Rishi, Newman, Victoria, Nuhn, Michael, Ong, Chuang Kee, Parker, Anne, Patricio, Mateus, Riat, Harpreet Singh, Sheppard, Daniel, Sparrow, Helen, Taylor, Kieron, Thormann, Anja, Vullo, Alessandro, Walts, Brandon, Wilder, Steven P., Zadissa, Amonida, Kostadima, Myrto, Martin, Fergal J., Muffato, Matthieu, Perry, Emily, Ruffier, Magali, Staines, Daniel M., Trevanion, Stephen J., Cunningham, Fiona, Yates, Andrew, Zerbino, Daniel R., Flicek, Paul
Publicado 2017

Ensembl 2014

por 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.
Publicado 2014