Zobrazeno 1 - 10
of 15
pro vyhledávání: '"Olivier Couronne"'
Autor:
Nadav Ahituv, Axel Visel, Simon Minovitsky, Sarah De Val, Jennifer A. Akiyama, Michael B. Eisen, Keith D. Lewis, Inna Dubchak, Edward M. Rubin, Alan M. Moses, Ingrid Plajzer-Frick, Veena Afzal, Shyam Prabhakar, Amy Holt, Len A. Pennacchio, Brian L. Black, Malak Shoukry, Olivier Couronne, Marcelo A. Nobrega
Publikováno v:
Nature. 444:499-502
Identifying the sequences that direct the spatial and temporal expression of genes and defining their function in vivo remains a significant challenge in the annotation of vertebrate genomes. One major obstacle is the lack of experimentally validated
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8039abdd96078c927c573de0bf030054
https://doi.org/10.1038/nature05295
https://doi.org/10.1038/nature05295
Autor:
Malak Shoukry, Francis Poulin, Olivier Couronne, Len A. Pennacchio, Shyam Prabhakar, Veena Afzal, Edward M. Rubin
Publikováno v:
Prabhakar, Shyam; Poulin, Francis; Shoukry, Malak; Afzal, Veena; Rubin, Edward M.; Couronne, Olivier; et al.(2005). Close Sequence Comparisons are Sufficient to Identify Human cis-Regulatory Elements. Lawrence Berkeley National Laboratory. Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/0zj6n800
Cross-species DNA sequence comparison is the primary method used to identify functional noncoding elements in human and other large genomes. However, little is known about the relative merits of evolutionarily close and distant sequence comparisons.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b0250bb737e98efe3deda26b60ea21bc
https://doi.org/10.1101/gr.4717506
https://doi.org/10.1101/gr.4717506
Autor:
Kevin R. Thornton, Michael L. Metzker, Peili Zhang, Stephen W. Schaeffer, Marinus F. van Batenburg, Steven E. Scherer, Melissa J. Hubisz, Catharine M. Rives, Paul Havlak, Yanmei Huang, David A. Wheeler, Cerissa Hamilton, Richard P. Meisel, Margaret Morgan, Bettencourt Brian, Graham R. Scott, Rui Chen, Mohamed A. F. Noor, Erica Sodergren, Lenee Waldron, Rasmus Nielsen, Olivier Couronne, Yue Liu, William M. Gelbart, Harmen J. Bussemaker, Andrew G. Clark, Donna M. Muzny, Inna Dubchak, Andrew J. Schroeder, Stan Letovsky, K. James Durbin, Rachel Gill, George Miner, Mark A. Smith, David Steffen, Madeline A. Crosby, Richard A. Gibbs, Kerstin P. Clerc-Blankenburg, Beverly B. Matthews, Stephen Richards, Kim C. Worley, Pavel Hradecky, Sally Howells, Wyatt W. Anderson, Amy Egan, George M. Weinstock, Sujun Hua, Jing Liu, Kevin P. White, Daniel Verduzco, Daniel Ortiz-Barrientos, Jennifer Hume
Publikováno v:
Genome Research. 15:1-18
We have sequenced the genome of a second Drosophila species, Drosophila pseudoobscura, and compared this to the genome sequence of Drosophila melanogaster, a primary model organism. Throughout evolution the vast majority of Drosophila genes have rema
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8b33a02dddcfc89c822cd2c4877a0712
https://doi.org/10.1101/gr.3059305
https://doi.org/10.1101/gr.3059305
Autor:
Nancy Hammon, Arthur Kobayashi, Stacey Black, Uffe Hellsten, Daniel S. Rokhsar, Lauren Haydu, Frederick Lopez, Nina Thayer, Diego Martinez, Mirian Denys, Paul Predki, Laurie Gordon, Eva Bajorek, Eidelyn Gonzales, Catherine Medina, Richard D. Nandkeshwar, Sanjay Israni, Richard M. Myers, Hope Tice, Jean F. Challacombe, Anne O. Olsen, Chenier Caoile, State Lowry, Alex Rodriguez, Paul G. Richardson, Kevin Wu, D. Scott, Xinwei She, Matthew Groza, James P. Noonan, Anna Ustaszewska, María Laura Ríos Gómez, Jane Grimwood, Jeremy Wheeler, Len A. Pennacchio, Martin O. Pollard, Tijana Glavina, Dea Fotopulos, Joel Martin, Heather Kimbal, Kristen Kadner, Dave Flowers, Joan Yang, Astrid Terry, Lucía Ramírez, Ming Tsai, Yee Man Chan, Michael R. Altherr, Susan Lucas, Jan Fang Cheng, Sam Pitluck, Sam Rash, Igor V. Grigoriev, Wayne Huang, Yunian Lou, Chris Detter, Shyam Prabhakar, James Priest, Angelica Salazar, Gary Xie, Nu Vo, Elbert Branscomb, Jamie Jett, Stephanie Rogers, David Goodstenin, Olivier Couronne, Julio Escobar, James Retterer, Mary Bao Tran-Gyamfi, Trevor Hawkins, Jeremy Schmutz, Evan E. Eichler, Andrea Aerts, Mark Dickson, Jenna Morgan, Edward M. Rubin, Asaf Salamov
Publikováno v:
Nature. 431:268-274
Chromosome 5 is one of the largest human chromosomes and contains numerous intrachromosomal duplications, yet it has one of the lowest gene densities. This is partially explained by numerous gene-poor regions that display a remarkable degree of nonco
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4ca31a764ab80f52f558ba05de9c0487
https://doi.org/10.1038/nature02919
https://doi.org/10.1038/nature02919
Autor:
Michael Brudno, Olivier Couronne, Serafim Batzoglou, Edward M. Rubin, E. Wes Bethel, Nameeta Shah, Inna Dubchak, Len A. Pennacchio, Bernd Hamann
Publikováno v:
Bioinformatics. 20:636-643
Motivation: The power of multi-sequence comparison for biological discovery is well established. The need for new capabilities to visualize and compare cross-species alignment data is intensified by the growing number of genomic sequence datasets bei
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8c8277e9af800e0f4cf2dbca79567254
https://doi.org/10.1093/bioinformatics/btg459
https://doi.org/10.1093/bioinformatics/btg459
Publikováno v:
Ahituv, Nadav; Prabhakar, Shyam; Poulin, Francis; Rubin, Edward M.; & Couronne, Olivier. (2005). Mapping cis-Regulatory Domains in the Human Genome Using Multi-Species Conservation of Synteny. Lawrence Berkeley National Laboratory. Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/1372x568
Our inability to associate distant regulatory elements with the genes that they regulate has largely precluded their examination for sequence alterations contributing to human disease. One major obstacle is the large genomic space surrounding targete
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::aabeb5a82489e70560da63c5320b58f4
http://www.escholarship.org/uc/item/1372x568
http://www.escholarship.org/uc/item/1372x568
Autor:
Kimberly L. Mcmurray, James Retterer, Nancy C. Brown, Dea Fotopulos, Michael R. Altherr, Judith G. Tesmer, Jane Grimwood, Joel Martin, Jonathan L. Longmire, Elizabeth Saunders, P. Scott White, Malinda Stalvey, Elbert Branscomb, Norman A. Doggett, Nina Thayer, C.E. Hildebrand, Mary Bao Tran-Gyamfi, Yunian Lou, Trevor Hawkins, Lucía Ramírez, Shyam Prabhakar, Ming Tsai, D. Scott, Hope Tice, Linda Meincke, Jean F. Challacombe, Gary Xie, Maria Gomez, Eidelyn Gonzales, Jeremy Schmutz, Kevin Wu, Marie-Claude Krawczyk, Heather Kimball, Graham A. Mark, David C. Torney, John C. Detter, Laurie Gordon, Albert L. Williams, Susan Lucas, Len A. Pennacchio, Linda S. Thompson, Robert K. Moyzis, Kristen Kadner, Arthur Kobayashi, Larry L. Deaven, Richard D. Nandkeshwar, E.W. Campbell, Patricia L. Wills, Andrea Aerts, Joan Yang, Darryl O. Ricke, Mark Dickson, Astrid Terry, Steve Lowry, Paul Gilna, Paul G. Richardson, Thom Ludeman, Olivier Couronne, Timothy Shough, Chitra Manohar, David Bruce, Jamie Jett, Evan E. Eichler, Pieter J. deJong, Mark Mundt, Judith M. Buckingham, Robert D. Sutherland, Roxanne Tapia, Heather Blumer, Wayne Huang, Leslie Chasteen, A. Christine Munk, Sanjay Israni, Deborah L. Grady, Igor V. Grigoriev, Stacey Black, Judith D. Cohn, David F. Callen, Han C. Chi, William J. Bruno, Cliff Han, Mirian Denys, Mira Dimitrijevic-Bussod, Martin Pollard, Connie S. Campbell, Richard M. Myers, Yee Man Chan, Sam Pitluck, Sam Rash, Joseph J. Fawcett, Mari Christensen, Lauren Haydu, Frederick Lopez, Lynn M. Clark, Julio Escobar, B. Parson-Quintana, Raymond L. Stallings, Tina Leyba, Dave Flowers, Eva Bajorek, Jenna Morgan, Mary L. Campbell, Anna Ustaszewska, Donna L. Robinson, Nu Vo, Edward M. Rubin, Lynne Goodwin, Paul Predki, Uffe Hellsten, Daniel S. Rokhsar, Phillip B. Jewett, Matthew Groza, Tijana Glavina, Chenier Caoile, Alex Rodriguez, Xinwei She, David Goodstein, Jung-Rung Wu, Levy E. Ulanovsky, Asaf Salamov, Nancy Hammon, Olga Chertkov
Publikováno v:
Nature. 432(7020)
Human chromosome 16 features one of the highest levels of segmentally duplicated sequence among the human autosomes. We report here the 78,884,754 base pairs of finished chromosome 16 sequence, representing over 99.9% of its euchromatin. Manual annot
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8c276ed50b94aee10912d5b8017726bd
https://pubmed.ncbi.nlm.nih.gov/15616553
https://pubmed.ncbi.nlm.nih.gov/15616553
Autor:
Nameeta Shah, Bernd Hamann, Len A. Pennacchio, Serafim Batzoglou, Inna Dubchak, E. Wes Bethel, Michael Brudno, Olivier Couronne, Edward M. Rubin
We have developed Phylo-VISTA (Shah et al., 2003), an interactive software tool for analyzing multiple alignments by visualizing a similarity measure for DNA sequences of multiple species. The complexity of visual presentation is effectively organize
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::1907835ccf46426b1cd0cb04ecb9c2e7
https://doi.org/10.2172/832965
https://doi.org/10.2172/832965
Autor:
Rui Chen, George M. Weinstock, Cynthia Pfannkoch, Chris P. Ponting, Mark S. Guyer, Manuel L. Gonzalez-Garay, James Taylor, Yixin Chen, Eric D. Green, Simon Cawley, Jo Gullings-Handley, Granger G. Sutton, Jose M. Duarte, Stephen M. J. Searle, Laura Elnitski, Aleksandar Milosavljevic, Alicia Hawes, Stephen C. Mockrin, Oliver Delgado, Shannon Dugan-Rocha, Christine Deramo, Dean Pasko, Marina Alexandersson, Eitan E. Winter, Robert W. Blakesley, Donna Karolchik, Huajun Wang, David Shteynberg, Diane M. Dunn, Carlos López-Otín, Abel Ureta-Vidal, Jia Qian Wu, A. Glodek, Shan Yang, Natasja Wye, Sue Daniels, Keita Geer, Arian F.A. Smit, Jozef Lazar, Pallavi Eswara, Carl Fosler, Douglas Smith, Martin Krzywinski, Uma Mudunuri, George Miner, Herbert Schulz, Angie S. Hinrichs, Manimozhiyan Arumugam, Josep F. Abril, Ursula Vitt, Andrei Volkov, Peter J. Tonellato, Von Bing Yap, Bingshan Li, Jyoti Shetty, Ian Bosdet, Evgeny M. Zdobnov, San Diego Glenn Tesler, Chris Fjell, Yi Zhang, Francis S. Collins, Serafim Batzoglou, Robert Baertsch, Laura Clarke, David Neil Cooper, Carrie Mathewson, Diana L. Kolbe, Kate R. Rosenbloom, Valerie Curwen, Bret A. Payseur, Gerard G. Bouffard, Michael R. Brent, Barbara J. Trask, Scott A. Beatson, Sourav Chatterji, Francisco Camara, Detlev Ganten, Andrew R. Jackson, Claire M. Fraser, Klaus Lindpaintner, Yue Liu, Mark Raymond Adams, Robert A. Holt, Erik Gustafson, Hiram Clawson, Michael L. Metzker, John Douglas Mcpherson, Gregory M. Cooper, Martin S. Taylor, Scott Schwartz, Hui Huang, Darryl Gietzen, Patrick Cahill, Geoffrey Okwuonu, Sandra Hines, J. Craig Venter, Jan Monti, David Steffen, Marco A. Marra, Arnold Kana, Richard D. Emes, Asim Sarosh Siddiqui, Erica Sodergren, Mario Caccamo, Jim Wingrove, Richard R. Copley, Leo Goodstadt, Francesca Chiaromonte, Davinder Virk, Kirt Martin, Colin N. Dewey, Xiang Qin, T. Dan Andrews, K. James Durbin, Michael P. McLeod, Susan Bromberg, Pavel A. Pevzner, Petra Brandt, Austin J. Cooney, Don Jennings, Baoli Zhu, Lynn Doucette-Stamm, Heather Trumbower, Eray Tüzün, Kristian Stevens, Norbert Hubner, Young-Ae Lee, Zhiping Gu, Harold Riethman, Xose S. Puente, Cynthia Sitter, Michael Brudno, Gerald Nyakatura, Oliver Hummel, Caleb Webber, Olivier Couronne, Kim Fechtel, W. J. Kent, Zhengdong D. Zhang, Xing Zhi Song, Matt Weirauch, Ewan Birney, Richard A. Gibbs, William C. Nierman, Anne E. Kwitek, Alexander Poliakov, Mary Barnstead, Jeanette Schmidt, Yanru Ren, Howard J. Jacob, Kateryna D. Makova, Edward M. Rubin, Susan Old, Trixie Nguyen, Arend Sidow, Nicolas Bray, Hong Mei Lee, Lisa M. D'Souza, Heinz Himmelbauer, Cara Woodwark, Peter G. Amanatides, Paul Havlak, Janet M. Young, Eduardo Eyras, Thomas Kreitler, Heming Xing, Sofiya Shatsman, Kushal Chakrabarti, Stephen Rice, Cheryl A. Evans, Kim C. Worley, Peter D. Stenson, Rachel Gill, Pieter J. de Jong, Jacqueline E. Schein, Lior Pachter, Steve Ferriera, Santa Cruz David Haussler, Ross C. Hardison, Holly Baden-Tillson, Margaret Adetobi, Krishna M. Roskin, Guillaume Bourque, Eric A. Stone, Emmanuel Mongin, Michele Clamp, Margaret Morgan, Richard Durbin, Cathy Riemer, Anton Nekrutenko, Mikita Suyama, Soo H. Chin, Kenneth J. Kalafus, Anat Caspi, Donna M. Muzny, Inna Dubchak, Shaying Zhao, Sofyia Abramzon, Michael I. Jensen-Seaman, Steven E. Scherer, Lora Lewis, M. Mar Albà, Terrence S. Furey, Peer Bork, Trevor Woodage, David A. Wheeler, Hans Lehrach, Graham R. Scott, Bin Ma, Paula E. Burch, Robert B. Weiss, Kazutoyo Osoegawa, Evan E. Eichler, Amy Egan, Webb Miller, Cheryl L. Kraft, Steven J.M. Jones, Jeffrey A. Bailey, Roderic Guigó, David Torrents, Heike Zimdahl, Adam Felsenfeld, Jane Peterson, Simon N. Twigger, Claudia Goesele, Keith Weinstock, Minmei Hou
Publikováno v:
Nature, Vol. 428, No 6982 (2004) pp. 493-521
The laboratory rat (Rattus norvegicus) is an indispensable tool in experimental medicine and drug development, having made inestimable contributions to human health. We report here the genome sequence of the Brown Norway (BN) rat strain. The sequence
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e940c464c711a6b2b6ace528d96e3f58
https://pubmed.ncbi.nlm.nih.gov/15057812
https://pubmed.ncbi.nlm.nih.gov/15057812
Autor:
Mary Bao Tran-Gyamfi, Ivan Ovcharenko, Trevor Hawkins, Maria Gomez, Mirian Denys, Victor V. Solovyev, Terrence S. Furey, Jamie Jett, Jeremy Schmutz, Dea Fotopulos, David Gordon, Tom Slezak, Kevin Wu, Heather Kimball, Pieter J. deJong, Catherine Medina, Vladimer Larionov, Paula McCready, Stephanine Rogers, James Retterer, John C. Detter, Diego Martinez, Richard M. Myers, Paul Predki, Stacey Black, Eva Bajorek, Chenier Caoile, Alex Rodriguez, Isaac Ho, Arthur Kobayashi, Jane Lamerdin, Xinwei She, Yunian Lou, Jane Grimwood, Kristen Kadner, Alex Copeland, Wayne Huang, Sanjay Israni, Carmen Rosa Albacete García, Gary Xie, Doug Smith, Anthony V. Carrano, Matthew Groza, Catherine A. Cleland, Matt Nolan, Paul G. Richardson, Eidelyn Gonzales, Nina Thayer, Anna Ustaszewska, Eileen Dalin, Olivier Couronne, Evan E. Eichler, Tijana Glavina, Astrid Terry, Sun-Hee Leem, Steve Lowry, Anne S. Olsen, Lucía Ramírez, Ming Tsai, Stephanie Malfatti, Hope Tice, Uffe Hellsten, David Goodstein, Martin Pollard, Daniel S. Rokhsar, Nancy Hammon, Angelica Salazar, Jenna Morgan, Yee Man Chan, Michael R. Altherr, Paramvir S. Dehal, Nu Vo, Linda K. Ashworth, Elbert Branscomb, Laurie Gordon, Julio Escobar, Anthony P. Popkie, Dave Flowers, Anca M. Georgescu, Len A. Pennacchio, Sam Pitluck, Sam Rash, Edward M. Rubin, Sean Caenepeel, Glenda Quan, Asaf Salamov, Inna Dubchak, Lisa Stubbs, Andrea Aerts, Mark Dickson, Kathryn Nelson, Mari Christensen, Lauren Haydu, Frederick Lopez, Mark C. Wagner, Jeremy Wheeler, Joan Yang, Susan Lucas
Publikováno v:
Nature. 428(6982)
Chromosome 19 has the highest gene density of all human chromosomes, more than double the genome-wide average. The large clustered gene families, corresponding high G + C content, CpG islands and density of repetitive DNA indicate a chromosome rich i
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0c13925344de9b7b7d0dfe16e81545dc
https://pubmed.ncbi.nlm.nih.gov/15057824
https://pubmed.ncbi.nlm.nih.gov/15057824