Creating reference gene annotation for the mouse C57BL6/J genome assembly

Por Mudge, Jonathan M., Harrow, Jennifer
Publicado no Mamm Genome (2015)

Functional transcriptomics in the post-ENCODE era

Por Mudge, Jonathan M., Frankish, Adam, Harrow, Jennifer
Publicado em 2013

The importance of identifying alternative splicing in vertebrate genome annotation

Por Frankish, Adam, Mudge, Jonathan M., Thomas, Mark, Harrow, Jennifer
Publicado em 2012

Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow

Por Wright, James C., Mudge, Jonathan, Weisser, Hendrik, Barzine, Mitra P., Gonzalez, Jose M., Brazma, Alvis, Choudhary, Jyoti S., Harrow, Jennifer
Publicado no Nat Commun (2016)

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

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

Neocentromeres in 15q24-26 Map to Duplicons Which Flanked an Ancestral Centromere in 15q25

Por Ventura, Mario, Mudge, Jonathan M., Palumbo, Valeria, Burn, Sally, Blennow, Elisabeth, Pierluigi, Mauro, Giorda, Roberto, Zuffardi, Orsetta, Archidiacono, Nicoletta, Jackson, Michael S., Rocchi, Mariano
Publicado em 2003

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

Por 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
Publicado no BMC Genomics (2015)

Dynamic instability of the major urinary protein gene family revealed by genomic and phenotypic comparisons between C57 and 129 strain mice

Por Mudge, Jonathan M, Armstrong, Stuart D, McLaren, Karen, Beynon, Robert J, Hurst, Jane L, Nicholson, Christine, Robertson, Duncan H, Wilming, Laurens G, Harrow, Jennifer L
Publicado em 2008

The Vertebrate Genome Annotation browser 10 years on

Por 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.
Publicado em 2014

Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10p

Por Guy, Jane, Hearn, Tom, Crosier, Moira, Mudge, Jonathan, Viggiano, Luigi, Koczan, Dirk, Thiesen, Hans-Jurgen, Bailey, Jeffrey A., Horvath, Julie E., Eichler, Evan E., Earthrowl, Mark E., Deloukas, Panos, French, Lisa, Rogers, Jane, Bentley, David, Jackson, Michael S.
Publicado em 2003

Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)

Por Lagarde, Julien, Uszczynska-Ratajczak, Barbara, Santoyo-Lopez, Javier, Gonzalez, Jose Manuel, Tapanari, Electra, Mudge, Jonathan M., Steward, Charles A., Wilming, Laurens, Tanzer, Andrea, Howald, Cédric, Chrast, Jacqueline, Vela-Boza, Alicia, Rueda, Antonio, Lopez-Domingo, Francisco J., Dopazo, Joaquin, Reymond, Alexandre, Guigó, Roderic, Harrow, Jennifer
Publicado no Nat Commun (2016)

Evidence for Transcript Networks Composed of Chimeric RNAs in Human Cells

Por 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.
Publicado em 2012

Current status and new features of the Consensus Coding Sequence database

Por 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.
Publicado em 2014

The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes

Por Pruitt, Kim D., Harrow, Jennifer, Harte, Rachel A., Wallin, Craig, Diekhans, Mark, Maglott, Donna R., Searle, Steve, Farrell, Catherine M., Loveland, Jane E., Ruef, Barbara J., Hart, Elizabeth, Suner, Marie-Marthe, Landrum, Melissa J., Aken, Bronwen, Ayling, Sarah, Baertsch, Robert, Fernandez-Banet, Julio, Cherry, Joshua L., Curwen, Val, DiCuccio, Michael, Kellis, Manolis, Lee, Jennifer, Lin, Michael F., Schuster, Michael, Shkeda, Andrew, Amid, Clara, Brown, Garth, Dukhanina, Oksana, Frankish, Adam, Hart, Jennifer, Maidak, Bonnie L., Mudge, Jonathan, Murphy, Michael R., Murphy, Terence, Rajan, Jeena, Rajput, Bhanu, Riddick, Lillian D., Snow, Catherine, Steward, Charles, Webb, David, Weber, Janet A., Wilming, Laurens, Wu, Wenyu, Birney, Ewan, Haussler, David, Hubbard, Tim, Ostell, James, Durbin, Richard, Lipman, David
Publicado em 2009

Genomic anatomy of the Tyrp1 (brown) deletion complex

Por Smyth, Ian M., Wilming, Laurens, Lee, Angela W., Taylor, Martin S., Gautier, Phillipe, Barlow, Karen, Wallis, Justine, Martin, Sancha, Glithero, Rebecca, Phillimore, Ben, Pelan, Sarah, Andrew, Rob, Holt, Karen, Taylor, Ruth, McLaren, Stuart, Burton, John, Bailey, Jonathon, Sims, Sarah, Squares, Jan, Plumb, Bob, Joy, Ann, Gibson, Richard, Gilbert, James, Hart, Elizabeth, Laird, Gavin, Loveland, Jane, Mudge, Jonathan, Steward, Charlie, Swarbreck, David, Harrow, Jennifer, North, Philip, Leaves, Nicholas, Greystrong, John, Coppola, Maria, Manjunath, Shilpa, Campbell, Mark, Smith, Mark, Strachan, Gregory, Tofts, Calli, Boal, Esther, Cobley, Victoria, Hunter, Giselle, Kimberley, Christopher, Thomas, Daniel, Cave-Berry, Lee, Weston, Paul, Botcherby, Marc R. M., White, Sharon, Edgar, Ruth, Cross, Sally H., Irvani, Marjan, Hummerich, Holger, Simpson, Eleanor H., Johnson, Dabney, Hunsicker, Patricia R., Little, Peter F. R., Hubbard, Tim, Campbell, R. Duncan, Rogers, Jane, Jackson, Ian J.
Publicado em 2006

DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage

Por Zody, Michael C., Garber, Manuel, Adams, David J., Sharpe, Ted, Harrow, Jennifer, Lupski, James R., Nicholson, Christine, Searle, Steven M., Wilming, Laurens, Young, Sarah K., Abouelleil, Amr, Allen, Nicole R., Bi, Weimin, Bloom, Toby, Borowsky, Mark L., Bugalter, Boris E., Butler, Jonathan, Chang, Jean L., Chen, Chao-Kung, Cook, April, Corum, Benjamin, Cuomo, Christina A., de Jong, Pieter J., DeCaprio, David, Dewar, Ken, FitzGerald, Michael, Gilbert, James, Gibson, Richard, Gnerre, Sante, Goldstein, Steven, Grafham, Darren V., Grocock, Russell, Hafez, Nabil, Hagopian, Daniel S., Hart, Elizabeth, Norman, Catherine Hosage, Humphray, Sean, Jaffe, David B., Jones, Matt, Kamal, Michael, Khodiyar, Varsha K., LaButti, Kurt, Laird, Gavin, Lehoczky, Jessica, Liu, Xiaohong, Lokyitsang, Tashi, Loveland, Jane, Lui, Annie, Macdonald, Pendexter, Major, John E., Matthews, Lucy, Mauceli, Evan, McCarroll, Steven A., Mihalev, Atanas H., Mudge, Jonathan, Nguyen, Cindy, Nicol, Robert, O'Leary, Sinéad B., Osoegawa, Kazutoyo, Schwartz, David C., Shaw-Smith, Charles, Stankiewicz, Pawel, Steward, Charles, Swarbreck, David, Venkataraman, Vijay, Whittaker, Charles A., Yang, Xiaoping, Zimmer, Andrew R., Bradley, Allan, Hubbard, Tim, Birren, Bruce W., Rogers, Jane, Lander, Eric S., Nusbaum, Chad
Publicado em 2006