Zobrazeno 1 - 10
of 10
pro vyhledávání: '"Philippe Batut"'
Autor:
Sarah Djebali, Julien Lagarde, Philipp Kapranov, Vincent Lacroix, Christelle Borel, Jonathan M Mudge, Cédric Howald, Sylvain Foissac, Catherine Ucla, Jacqueline Chrast, Paolo Ribeca, David Martin, Ryan R Murray, Xinping Yang, Lila Ghamsari, Chenwei Lin, Ian Bell, Erica Dumais, Jorg Drenkow, Michael L Tress, Josep Lluís Gelpí, Modesto Orozco, Alfonso Valencia, Nynke L van Berkum, Bryan R Lajoie, Marc Vidal, John Stamatoyannopoulos, Philippe Batut, Alex Dobin, Jennifer Harrow, Tim Hubbard, Job Dekker, Adam Frankish, Kourosh Salehi-Ashtiani, Alexandre Reymond, Stylianos E Antonarakis, Roderic Guigó, Thomas R Gingeras
Publikováno v:
PLoS ONE, Vol 7, Iss 1, p e28213 (2012)
The classic organization of a gene structure has followed the Jacob and Monod bacterial gene model proposed more than 50 years ago. Since then, empirical determinations of the complexity of the transcriptomes found in yeast to human has blurred the d
Externí odkaz:
https://doaj.org/article/812c3a8d26464239be0aee257e827b33
Publikováno v:
Cell
Enhancers switch genes on and off in response to a variety of intrinsic and external cellular signals. They are the cornerstone of gene regulation and the most pervasive constituents of the regulatory genome. Sequence polymorphisms in enhancer DNAs a
Publikováno v:
Genome Research. 23:169-180
Many eukaryotic genes possess multiple alternative promoters with distinct expression specificities. Therefore, comprehensively annotating promoters and deciphering their individual regulatory dynamics is critical for gene expression profiling applic
Autor:
Philippe Batut, Thomas R. Gingeras
Publikováno v:
Current Protocols in Molecular Biology
This unit introduces RAMPAGE (RNA Annotation and Mapping of Promoters for the Analysis of Gene Expression), a method that harnesses highly specific sequencing of 5′-complete complementary DNAs to identify transcription start sites (TSSs) genome-wid
Autor:
Alexander Dobin, Philippe Batut, Felix Schlesinger, Jorg Drenkow, Carrie A. Davis, Thomas R. Gingeras, Chris Zaleski, Sonali Jha, Mark Chaisson
Publikováno v:
Bioinformatics (Oxford, England). 29(1)
Motivation: Accurate alignment of high-throughput RNA-seq data is a challenging and yet unsolved problem because of the non-contiguous transcript structure, relatively short read lengths and constantly increasing throughput of the sequencing technolo
Autor:
Vincent Lacroix, Sylvain Foissac, Ryan R. Murray, Sarah Djebali, Cédric Howald, Josep Lluís Gelpí, Paolo Ribeca, Alexandre Reymond, Kourosh Salehi-Ashtiani, Marc Vidal, Roderic Guigó, Thomas R. Gingeras, John A. Stamatoyannopoulos, Erica Dumais, Alexander Dobin, Bryan R. Lajoie, Tim Hubbard, Stylianos E. Antonarakis, Catherine Ucla, Ian Bell, Jacqueline Chrast, Alfonso Valencia, Modesto Orozco, Philippe Batut, Christelle Borel, Adam Frankish, Philipp Kapranov, Jorg Drenkow, Michael L. Tress, Chenwei Lin, Jennifer Harrow, Xinping Yang, Lila Ghamsari, Job Dekker, David C. Martin, Jonathan M. Mudge, Julien Lagarde, Nynke L. van Berkum
Publikováno v:
PLoS ONE
PLoS ONE, Vol 7, Iss 1, p e28213 (2012)
PLoS ONE, Public Library of Science, 2012, 7 (1), Non paginé. ⟨10.1371/journal.pone.0028213⟩
Recercat. Dipósit de la Recerca de Catalunya
instname
Dipòsit Digital de la UB
Universidad de Barcelona
PLoS ONE, Public Library of Science, 2012, 7, pp.1-22
PLoS ONE, 2012, 7 (1), Non paginé. ⟨10.1371/journal.pone.0028213⟩
PLoS One, vol. 7, no. 1, pp. e28213
Plos One 1 (7), Non paginé. (2012)
PloS one
PLoS ONE, 2012, 7, pp.1-22
PLOS ONE, Vol. 7, No 1 (2012) P. e28213
PLoS ONE, Vol 7, Iss 1, p e28213 (2012)
PLoS ONE, Public Library of Science, 2012, 7 (1), Non paginé. ⟨10.1371/journal.pone.0028213⟩
Recercat. Dipósit de la Recerca de Catalunya
instname
Dipòsit Digital de la UB
Universidad de Barcelona
PLoS ONE, Public Library of Science, 2012, 7, pp.1-22
PLoS ONE, 2012, 7 (1), Non paginé. ⟨10.1371/journal.pone.0028213⟩
PLoS One, vol. 7, no. 1, pp. e28213
Plos One 1 (7), Non paginé. (2012)
PloS one
PLoS ONE, 2012, 7, pp.1-22
PLOS ONE, Vol. 7, No 1 (2012) P. e28213
The classic organization of a gene structure has followed the Jacob and Monod bacterial gene model proposed more than 50 years ago. Since then, empirical determinations of the complexity of the transcriptomes found in yeast to human has blurred the d
Autor:
Robert Altshuler, Laura Elnitski, Michael Anaya, Alec Victorsen, Deborah Winter, Javier Herrero, Katherine Varley, Andrea Sboner, Oscar Junhong Luo, Marco Mariotti, Cristina Sisu, Mike Kay, Timothy Dreszer, Jane Loveland, Alexandra Bignell, Ewan Birney, Tim @timjph Hubbard, Kuljeet Sandhu, Eric Haugen, Chris Gunter, Alexej Abyzov, Lucas Ward, Georgi Marinov, Michael Pazin, Thomas Gingeras, Alexander Dobin, Kimberly Foss, Xianjun Dong, Benoit Miotto, Piotr Mieczkowski, Cedric Notredame, Andrew Berry, Shawn Gillespie, Axel Visel, Shawn Levy, Richard Sandstrom, Jose M Gonzalez, Melissa Fullwood, Timo Lassmann, Michael Tress, Julien Lagarde, Kevin Yip, Leslie Adams, Sylvain Foissac, Bronwen Aken, Piero Carninci, Suganthi Balasubramanian, Andrea Tanzer, Sarah Djebali, Michael Hoffman, Gloria Despacio-Reyes, Peter Park, Felix Kokocinski, Katherine Fisher-Aylor, Juan M Vaquerizas, Peggy Farnham, Patrick Collins, Amonida Zadissa, Pedro Ferreira, Philippe Batut, Michael Snyder, Electra Tapanari, Adam Frankish, Paul Flicek, AMARTYA SANYAL, Tyler Alioto, Giovanni Bussotti, Laurence Meyer, Jingyi Jessica Li, Matthew Blow, Tristan FRUM, Roger Alexander, Rory Johnson, Charles Steward, Meizhen Zheng, Margus Lukk, Ross Hardison, Claire Davidson, Gary Saunders, Alan Boyle, Luiz Penalva, Rajinder Kaul, Lazaro Centanin, Florencia Pauli Behn, Thomas Derrien, Nathan Sheffield, Toby Hunt, Eric Nguyen, Jeff Vierstra, Konrad Karczewski, Kimberly Bell, Yanbao Yu, Hagen U Tilgner, James Taylor, Balázs Bánfai, Catherine Snow, Benjamin Vernot, Stephan Kirchmaier, Michael Sammeth, Steven Wilder, Angelika Merkel, Joanna Mieczkowska, Guoliang Li, Wei Lin, Jennifer Harrow, Thomas Oliver Auer, Daniel Barrell, Eddie Park, Alvis Brazma, Hazuki Takahashi, Nathan Johnson, Daniel Sobral, Terry Furey, Alexandre Reymond, Jonathan Mudge, Anshul Kundaje, Jose Rodriguez, Akshay Bhinge, James Gilbert, Jakub Karczewski, Venkat Malladi, Troy Whitfield, Orion Buske, Ian Dunham, Jennifer Moran, Joachim Wittbrodt, Charles B. Epstein, Laurens Wilming, Jason Gertz, Joshua Akey, Joel Rozowsky
Publikováno v:
Nature
Nature, Nature Publishing Group, 2012, 489 (7414), pp.57-74. ⟨10.1038/nature11247⟩
NATURE
Nature, Vol. 489, No 7414 (2012) pp. 57-74
PMC
Recercat. Dipósit de la Recerca de Catalunya
instname
Nature, Nature Publishing Group, 2012, 489 (7414), pp.57-74. ⟨10.1038/nature11247⟩
NATURE
Nature, Vol. 489, No 7414 (2012) pp. 57-74
PMC
Recercat. Dipósit de la Recerca de Catalunya
instname
The human genome encodes the blueprint of life, but the function of the vast majority of its nearly three billion bases is unknown. The Encyclopedia of DNA Elements (ENCODE) project has systematically mapped regions of transcription, transcription fa
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2b208801384684d0028cc28316677b0d
https://hal.archives-ouvertes.fr/hal-01217624
https://hal.archives-ouvertes.fr/hal-01217624
Autor:
Tyler Alioto, Colin Kingswood, Lorian Schaffer, Sylvain Foissac, Kimberly Bell, Diane Trout, Wei Lin, Nathalie Walters, Thomas R. Gingeras, Oscar Junhong Luo, Pedro G. Ferreira, Atif Shahab, Assaf Gordon, Kata Fejes-Toth, Joao Curado, Jacqueline Chrast, Thomas Derrien, Georgi K. Marinov, Hazuki Takahashi, Alexander Dobin, Nadav Bar, Lei-Hoon See, Morgan C. Giddings, Erica Dumais, Michael Sammeth, Philipp Kapranov, Jainab Khatun, Meagan Fastuca, Jørgen Skancke, Ian Bell, Emilie Falconnet, Roderic Guigó, Huaien Wang, Kimberly Persaud, Alexandre Reymond, Carrie A. Davis, Xiaoan Ruan, Rehab F. Abdelhamid, Daniel Robyr, Joel Rozowsky, Ana Maria Suzuki, Sonali Jha, Marion S. Röder, Sudipto K. Chakrabortty, Brian A. Risk, Hagen Tilgner, Eddie Park, Stylianos E. Antonarakis, Piero Carninci, Hui Gao, Sarah Djebali, Timo Lassmann, Andrea Tanzer, Philippe Batut, Cédric Howald, Yanbao Yu, Ali Mortazavi, Felix Kokocinski, Jennifer Harrow, Mark Gerstein, Melissa J. Fullwood, Chenghai Xue, Gregory J. Hannon, Xian Chen, Igor Antoshechkin, Yoshihide Hayashizaki, Brian A. Williams, Chris Zaleski, John A. Wrobel, Radha Duttagupta, Barbara J. Wold, Julien Lagarde, David Gonzalez, Yijun Ruan, Tim Hubbard, Angelika Merkel, Rory Johnson, Jonathan B. Preall, Jorg Drenkow, Brandon King, Paolo Ribeca, Harsha P. Gunawardena, Jacqueline Dumais, Felix Schlesinger, Michael T. Baer
Publikováno v:
Nature
Nature, Nature Publishing Group, 2012, 489 (7414), pp.101-108. ⟨10.1038/nature11233⟩
Nature, Vol. 489, No 7414 (2012) pp. 101-8
Nature, vol 489, iss 7414
Nature, vol. 489, no. 7414, pp. 101-108
Nature 7414 (489), 101-108. (2012)
Recercat. Dipósit de la Recerca de Catalunya
instname
Nature, Nature Publishing Group, 2012, 489 (7414), pp.101-108. ⟨10.1038/nature11233⟩
Nature, Vol. 489, No 7414 (2012) pp. 101-8
Nature, vol 489, iss 7414
Nature, vol. 489, no. 7414, pp. 101-108
Nature 7414 (489), 101-108. (2012)
Recercat. Dipósit de la Recerca de Catalunya
instname
Eukaryotic cells make many types of primary and processed RNAs that are found either in specific subcellular compartments or throughout the cells. A complete catalogue of these RNAs is not yet available and their characteristic subcellular localizati
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ec675d7c36801cbe04b6d1fe4718f738
http://hdl.handle.net/10230/23073
http://hdl.handle.net/10230/23073
Autor:
Zhi Lu, Giltae Song, Troy W. Whitfield, Vishwanath R. Iyer, Teresa Vales, Angelika Merkel, Max Libbrecht, David Haussler, Ting Wang, Kristen Lee, Lingyun Song, Richard M. Myers, Alfonso Valencia, Rachel A. Harte, Xiaoqin Xu, Lucas D. Ward, Hazuki Takahashi, Nathan C. Sheffield, Thomas Derrien, Georgi K. Marinov, Eric D. Nguyen, Bernard B. Suh, Brian J. Raney, Richard Sandstrom, Thomas D. Tullius, Benoit Miotto, Alexander Dobin, Youhan Xu, Lukas Habegger, Ian Dunham, Brian A. Risk, Paul G. Giresi, Morgan C. Giddings, Hualin Xi, Anshul Kundaje, Robert S. Harris, Devin Absher, Peter J. Bickel, Yanbao Yu, Browen Aken, Colin Kingswood, Bryan R. Lajoie, Peter J. Good, Katrina Learned, Laura Elnitski, Shirley Pepke, Brandon King, Piero Carninci, Xinqiong Yang, Ghia Euskirchen, Kathryn Beal, Christelle Borel, Michael Muratet, Robert L. Grossman, David G. Knowles, Zarmik Moqtaderi, Veronika Boychenko, Steven P. Wilder, Michael L. Tress, Florencia Pauli, Alan P. Boyle, Andrea Tanzer, Philipp Kapranov, Serafim Batzoglou, Audra K. Johnson, Jun Neri, Nitin Bhardwaj, Elise A. Feingold, Venkat S. Malladi, Michael M. Hoffman, William Stafford Noble, Andrea Sboner, Mark Gerstein, Stephanie L. Parker, Jacqueline Dumais, Felix Schlesinger, Deborah R. Winter, Randall H. Brown, Thanh Truong, Rebecca F. Lowdon, Paolo Ribeca, Brooke Rhead, Peggy J. Farnham, Krista Thibeault, Terrence S. Furey, Donna Karolchik, Alec Victorsen, Xiaoan Ruan, Rehab F. Abdelhamid, Amy S. Nesmith, Jing Wang, Nicholas M. Luscombe, Alina R. Cao, Diane Trout, Teri Slifer, Peter E. Newburger, Cricket A. Sloan, Dimitra Lotakis, Stephen M. J. Searle, Ali Mortazavi, Alexandra Bignell, Alex Reynolds, Orion J. Buske, Chris Zaleski, Theresa K. Canfield, Ian Bell, Jin Lian, Vanessa K. Swing, Katalin Toth Fejes, Catherine Ucla, Robert E. Thurman, Jacqueline Chrast, Wei Lin, Tim Hubbard, Gary Saunders, Minyi Shi, Vihra Sotirova, Sherman M. Weissman, Jason D. Lieb, Richard Humbert, Kevin M. Bowling, Assaf Gordon, Tarjei S. Mikkelsen, Jing Leng, Thomas R. Gingeras, Fabian Grubert, Nader Jameel, Jost Vielmetter, Hannah Monahan, Preti Jain, Lindsay L. Waite, Tony Shafer, Joel Rozowsky, Michael Coyne, Brian Reed, M. Kay, Harsha P. Gunawardena, Ross C. Hardison, Gavin Sherlock, Alexandra Charos, Joseph D. Fleming, Ann S. Zweig, Jason Gertz, Rajinder Kaul, Xianjun Dong, Alexandre Reymond, Carrie A. Davis, Haiyan Huang, Chao Cheng, Marco Mariotti, Phil Lacroute, Jason A. Dilocker, Kenneth McCue, R. Robilotto, Stylianos E. Antonarakis, Sridar V. Chittur, Justin Jee, Barbara J. Wold, Sudipto K. Chakrabortty, Erica Dumais, Amartya Sanyal, Nathan Boley, Tianyuan Wang, Julien Lagarde, Anthony Kirilusha, Jonathan B. Preall, Kevin Roberts, Erika Giste, Hugo Y. K. Lam, Alvis Brazma, Gregory J. Hannon, Eric Rynes, Philippe Batut, Kevin Struhl, Margus Lukk, Manching Ku, Suganthi Balasubramanian, Sonali Jha, Jorg Drenkow, W. James Kent, Michael Snyder, Jie Wang, Anna Battenhouse, Charles B. Epstein, Rami Rauch, Christopher Shestak, John A. Stamatoyannopoulos, Gaurab Mukherjee, Cédric Howald, Tanya Kutyavin, Huaien Wang, Scott A. Tenenbaum, Wan Ting Poh, Kate R. Rosenbloom, Manolis Kellis, Pauline A. Fujita, Linfeng Wu, Anita Bansal, Molly Weaver, Linda L. Grasfeder, Peter J. Sabo, Qiang Li, Melissa S. Cline, Robert M. Kuhn, Darin London, Seth Frietze, Atif Shahab, Shane Neph, Damian Keefe, James B. Brown, Mark Diekhans, Webb Miller, Katherine Aylor Fisher, Jiang Du, Hadar H. Sheffer, Sarah Djebali, Frank Doyle, Nathan Lamarre-Vincent, Chia-Lin Wei, Laura A.L. Dillon, Jennifer Harrow, Robert C. Altshuler, Tyler Alioto, Raymond K. Auerbach, Adam Frankish, Rebekka O. Sprouse, Patrick J. Collins, E. Christopher Partridge, Zheng Liu, Yoichiro Shibata, Elliott H. Margulies, Abigail K. Ebersol, Kimberly A. Showers, Eric D. Green, Krishna M. Roskin, Job Dekker, Barbara N. Pusey, Ekta Khurana, Gilberto DeSalvo, Yijun Ruan, Hao Wang, Jainab Khatun, Henriette O'Geen, Alexej Abyzov, Brian Williams, Ryan M. McDaniell, Maya Kasowski, Manoj Hariharan, Felix Kokocinski, Gloria Despacio-Reyes, Zhancheng Zhang, Subhradip Karmakar, Ewan Birney, Koon-Kiu Yan, Xian Chen, Shinny Vong, Daniel Sobral, Nick Bild, Seul K.C. Kim, Timo Lassmann, Li Wang, Minerva E. Sanchez, Vaughan Roach, Theodore Gibson, Stephen C. J. Parker, Michael F. Lin, Patrick A. Navas, Laurence R. Meyer, Luiz O. F. Penalva, Bradley E. Bernstein, Kevin P. White, Emilie Aït Yahya Graison, Juan M. Vaquerizas, Sushma Iyengar, Kimberly M. Newberry, Akshay Bhinge, Xiaolan Zhang, Kim Bell, Yoshihide Hayashizaki, Lucas Lochovsky, Noam Shoresh, Hagen Tilgner, Philip Cayting, Dorrelyn Patacsil, Timothy E. Reddy, Eric Haugen, Katherine E. Varley, M. van Baren, Nathan D. Trinklein, Bum Kyu Lee, Tristan Frum, Marianne Lindahl-Allen, Timothy Durham, Roderic Guigó, Christopher W. Maier, Micha Sammeth, Debasish Raha, Timothy R. Dreszer, Benedict Paten, Robbyn Issner, Michael R. Brent, Kevin Y. Yip, Kim Blahnik, Jason Ernst, Zhiping Weng, Henry Amrhein, Arend Sidow, Javier Herrero, Hui Gao, Stephen G. Landt, Pouya Kheradpour, Galt P. Barber, Gregory E. Crawford, Toby Hunt
Publikováno v:
PLoS Biology
PLoS Biology, Public Library of Science, 2011, 9 (4), pp.e1001046. ⟨10.1371/journal.pbio.1001046⟩
PLoS biology, vol 9, iss 4
Recercat. Dipósit de la Recerca de Catalunya
instname
PLoS Biology, Vol 9, Iss 4, p e1001046 (2011)
PLoS biology
PLoS
PLOS Biology, Vol. 9, No 4 (2011) P. e1001046
PLoS Biology, Public Library of Science, 2011, 9 (4), pp.e1001046. ⟨10.1371/journal.pbio.1001046⟩
PLoS biology, vol 9, iss 4
Recercat. Dipósit de la Recerca de Catalunya
instname
PLoS Biology, Vol 9, Iss 4, p e1001046 (2011)
PLoS biology
PLoS
PLOS Biology, Vol. 9, No 4 (2011) P. e1001046
The mission of the Encyclopedia of DNA Elements (ENCODE) Project is to enable the scientific and medical communities to interpret the human genome sequence and apply it to understand human biology and improve health. The ENCODE Consortium is integrat