The importance of identifying alternative splicing in vertebrate genome annotation

by Frankish, Adam, Mudge, Jonathan M., Thomas, Mark, Harrow, Jennifer
Published 2012

Transcriptome analysis of human tissues and cell lines reveals one dominant transcript per gene

by Gonzàlez-Porta, Mar, Frankish, Adam, Rung, Johan, Harrow, Jennifer, Brazma, Alvis
Published 2013

Comparative Proteomics Reveals a Significant Bias Toward Alternative Protein Isoforms with Conserved Structure and Function

by Ezkurdia, Iakes, del Pozo, Angela, Frankish, Adam, Rodriguez, Jose Manuel, Harrow, Jennifer, Ashman, Keith, Valencia, Alfonso, Tress, Michael L.
Published 2012

Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes

by Ezkurdia, Iakes, Juan, David, Rodriguez, Jose Manuel, Frankish, Adam, Diekhans, Mark, Harrow, Jennifer, Vazquez, Jesus, Valencia, Alfonso, Tress, Michael L.
Published 2014

Polymorphic segmental duplications at 8p23.1 challenge the determination of individual defensin gene repertoires and the assembly of a contiguous human reference sequence

by Taudien, Stefan, Galgoczy, Petra, Huse, Klaus, Reichwald, Kathrin, Schilhabel, Markus, Szafranski, Karol, Shimizu, Atsushi, Asakawa, Shuichi, Frankish, Adam, Loncarevic, Ivan F, Shimizu, Nobuyoshi, Siddiqui, Roman, Platzer, Matthias
Published 2004

Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment

by Bajic, Vladimir B, Brent, Michael R, Brown, Randall H, Frankish, Adam, Harrow, Jennifer, Ohler, Uwe, Solovyev, Victor V, Tan, Sin Lam
Published 2006

The Origins, Evolution, and Functional Potential of Alternative Splicing in Vertebrates

by Mudge, Jonathan M., Frankish, Adam, Fernandez-Banet, Julio, Alioto, Tyler, Derrien, Thomas, Howald, Cédric, Reymond, Alexandre, Guigó, Roderic, Hubbard, Tim, Harrow, Jennifer
Published 2011

The Vertebrate Genome Annotation browser 10 years on

by Harrow, Jennifer L., Steward, Charles A., Frankish, Adam, Gilbert, James G., Gonzalez, Jose M., Loveland, Jane E., Mudge, Jonathan, Sheppard, Dan, Thomas, Mark, Trevanion, Stephen, Wilming, Laurens G.
Published 2014

Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction

by Frankish, Adam, Uszczynska, Barbara, Ritchie, Graham RS, Gonzalez, Jose M, Pervouchine, Dmitri, Petryszak, Robert, Mudge, Jonathan M, Fonseca, Nuno, Brazma, Alvis, Guigo, Roderic, Harrow, Jennifer
Published 2015

GENCODE: producing a reference annotation for ENCODE

by Harrow, Jennifer, Denoeud, France, Frankish, Adam, Reymond, Alexandre, Chen, Chao-Kung, Chrast, Jacqueline, Lagarde, Julien, Gilbert, James GR, Storey, Roy, Swarbreck, David, Rossier, Colette, Ucla, Catherine, Hubbard, Tim, Antonarakis, Stylianos E, Guigo, Roderic
Published 2006

Tracking and coordinating an international curation effort for the CCDS Project

by Harte, Rachel A., Farrell, Catherine M., Loveland, Jane E., Suner, Marie-Marthe, Wilming, Laurens, Aken, Bronwen, Barrell, Daniel, Frankish, Adam, Wallin, Craig, Searle, Steve, Diekhans, Mark, Harrow, Jennifer, Pruitt, Kim D.
Published 2012

The GENCODE pseudogene resource

by Pei, Baikang, Sisu, Cristina, Frankish, Adam, Howald, Cédric, Habegger, Lukas, Mu, Xinmeng Jasmine, Harte, Rachel, Balasubramanian, Suganthi, Tanzer, Andrea, Diekhans, Mark, Reymond, Alexandre, Hubbard, Tim J, Harrow, Jennifer, Gerstein, Mark B
Published 2012

Evidence for Transcript Networks Composed of Chimeric RNAs in Human Cells

by Djebali, Sarah, Lagarde, Julien, Kapranov, Philipp, Lacroix, Vincent, Borel, Christelle, Mudge, Jonathan M., Howald, Cédric, Foissac, Sylvain, Ucla, Catherine, Chrast, Jacqueline, Ribeca, Paolo, Martin, David, Murray, Ryan R., Yang, Xinping, Ghamsari, Lila, Lin, Chenwei, Bell, Ian, Dumais, Erica, Drenkow, Jorg, Tress, Michael L., Gelpí, Josep Lluís, Orozco, Modesto, Valencia, Alfonso, van Berkum, Nynke L., Lajoie, Bryan R., Vidal, Marc, Stamatoyannopoulos, John, Batut, Philippe, Dobin, Alex, Harrow, Jennifer, Hubbard, Tim, Dekker, Job, Frankish, Adam, Salehi-Ashtiani, Kourosh, Reymond, Alexandre, Antonarakis, Stylianos E., Guigó, Roderic, Gingeras, Thomas R.
Published 2012

Current status and new features of the Consensus Coding Sequence database

by Farrell, Catherine M., O’Leary, Nuala A., Harte, Rachel A., Loveland, Jane E., Wilming, Laurens G., Wallin, Craig, Diekhans, Mark, Barrell, Daniel, Searle, Stephen M. J., Aken, Bronwen, Hiatt, Susan M., Frankish, Adam, Suner, Marie-Marthe, Rajput, Bhanu, Steward, Charles A., Brown, Garth R., Bennett, Ruth, Murphy, Michael, Wu, Wendy, Kay, Mike P., Hart, Jennifer, Rajan, Jeena, Weber, Janet, Snow, Catherine, Riddick, Lillian D., Hunt, Toby, Webb, David, Thomas, Mark, Tamez, Pamela, Rangwala, Sanjida H., McGarvey, Kelly M., Pujar, Shashikant, Shkeda, Andrei, Mudge, Jonathan M., Gonzalez, Jose M., Gilbert, James G. R., Trevanion, Stephen J., Baertsch, Robert, Harrow, Jennifer L., Hubbard, Tim, Ostell, James M., Haussler, David, Pruitt, Kim D.
Published 2014

Comparative Analysis of the Transcriptome across Distant Species

by Gerstein, Mark B., Rozowsky, Joel, Yan, Koon-Kiu, Wang, Daifeng, Cheng, Chao, Brown, James B., Davis, Carrie A, Hillier, LaDeana, Sisu, Cristina, Li, Jingyi Jessica, Pei, Baikang, Harmanci, Arif O., Duff, Michael O., Djebali, Sarah, Alexander, Roger P., Alver, Burak H., Auerbach, Raymond, Bell, Kimberly, Bickel, Peter J., Boeck, Max E., Boley, Nathan P., Booth, Benjamin W., Cherbas, Lucy, Cherbas, Peter, Di, Chao, Dobin, Alex, Drenkow, Jorg, Ewing, Brent, Fang, Gang, Fastuca, Megan, Feingold, Elise A., Frankish, Adam, Gao, Guanjun, Good, Peter J., Guigó, Roderic, Hammonds, Ann, Harrow, Jen, Hoskins, Roger A., Howald, Cédric, Hu, Long, Huang, Haiyan, Hubbard, Tim J. P., Huynh, Chau, Jha, Sonali, Kasper, Dionna, Kato, Masaomi, Kaufman, Thomas C., Kitchen, Robert R., Ladewig, Erik, Lagarde, Julien, Lai, Eric, Leng, Jing, Lu, Zhi, MacCoss, Michael, May, Gemma, McWhirter, Rebecca, Merrihew, Gennifer, Miller, David M., Mortazavi, Ali, Murad, Rabi, Oliver, Brian, Olson, Sara, Park, Peter J., Pazin, Michael J., Perrimon, Norbert, Pervouchine, Dmitri, Reinke, Valerie, Reymond, Alexandre, Robinson, Garrett, Samsonova, Anastasia, Saunders, Gary I., Schlesinger, Felix, Sethi, Anurag, Slack, Frank J., Spencer, William C., Stoiber, Marcus H., Strasbourger, Pnina, Tanzer, Andrea, Thompson, Owen A., Wan, Kenneth H., Wang, Guilin, Wang, Huaien, Watkins, Kathie L., Wen, Jiayu, Wen, Kejia, Xue, Chenghai, Yang, Li, Yip, Kevin, Zaleski, Chris, Zhang, Yan, Zheng, Henry, Brenner, Steven E., Graveley, Brenton R., Celniker, Susan E., Gingeras, Thomas R, Waterston, Robert
Published 2014