Zobrazeno 1 - 10
of 14
pro vyhledávání: '"Philip Cayting"'
Autor:
Pouya Kheradpour, Yi-Chieh Wu, Michael Snyder, Steven E. Brenner, Trupti Kawli, Mark Gerstein, Lixia Jiang, Robert Terrell, Anshul Kundaje, Wei Niu, Matthew Slattery, Manolis Kellis, Peter J. Good, LaDeana W. Hillier, Robert H. Waterston, Koon-Kiu Yan, Haiyan Huang, E. Jay Rehm, Carlos L. Araya, Philip Cayting, J. Janette, Jingyi Jessica Li, Chao Cheng, Elise A. Feingold, Alan P. Boyle, Michael J. Pazin, Peter Weisdepp, Joel Rozowsky, Lijia Ma, Peter J. Bickel, Dan Xie, D. Vafeados, Kathryn E. Gardner, Kevin P. White, Valerie Reinke, Dionna M. Kasper, Cathleen M. Brdlik, Daifeng Wang, Yong Cheng, Rebecca Spokony
Publikováno v:
Boyle, AP; Araya, CL; Brdlik, C; Cayting, P; Cheng, C; Cheng, Y; et al.(2014). Comparative analysis of regulatory information and circuits across distant species. Nature, 512(7515), 453-456. doi: 10.1038/nature13668. UC Berkeley: Retrieved from: http://www.escholarship.org/uc/item/1rj5c5wg
Nature, vol 512, iss 7515
PMC
Nature
Nature, vol 512, iss 7515
PMC
Nature
Despite the large evolutionary distances between metazoan species, they can show remarkable commonalities in their biology, and this has helped to establish fly and worm as model organisms for human biology. Although studies of individual elements an
Autor:
Debasish Raha, Seth Frietze, Renqiang Min, Peggy J. Farnham, Manoj Hariharan, Koon-Kiu Yan, Yong Cheng, Minyi Shi, Gili Zilberman-Schapira, Ekta Khurana, Nitin Bhardwaj, Preti Jain, Serafim Batzoglou, Yao Fu, Michael Snyder, Arif Harmanci, David Z. Chen, Richard M. Myers, Catharine L. Eastman, Anshul Kundaje, Fabian Grubert, Roger P. Alexander, Henriette O'Geen, Alexej Abyzov, P. Alves, E. Christopher Partridge, Jing Wang, Declan Clarke, Maya Kasowski, Jing Jane Leng, Joel Rozowsky, Linfeng Wu, Ghia Euskirchen, Nicholas Addleman, Sherman M. Weissman, Teri Slifer, Brian Reed, Jason Gertz, Chao Cheng, Florencia Pauli, Jin Lian, Lucía Ramírez, Zhengqing Ouyang, Xinmeng Jasmine Mu, Alexandra Charos, Hannah Monahan, Philip Cayting, Dorrelyn Patacsil, Timothy E. Reddy, Xinqiong Yang, Alan P. Boyle, Mark Gerstein, Phil Lacroute, Arend Sidow, Stephen G. Landt, Kevin Y. Yip
Publikováno v:
Nature. 489:91-100
Transcription factors bind in a combinatorial fashion to specify the on-and-off states of genes; the ensemble of these binding events forms a regulatory network, constituting the wiring diagram for a cell. To examine the principles of the human trans
Publikováno v:
Nucleic Acids Research
Duplicated pseudogenes in the human genome are disabled copies of functioning parent genes. They result from block duplication events occurring throughout evolutionary history. Relatively recent duplications (with sequence similarity ≥90% and lengt
Autor:
Ekta Khurana, Mark Gerstein, Kei-Hoi Cheung, Nicholas Carriero, Hugo Y. K. Lam, Philip Cayting, Gang Fang
Publikováno v:
Nucleic Acids Research
Pseudofam (http://pseudofam.pseudogene.org) is a database of pseudogene families based on the protein families from the Pfam database. It provides resources for analyzing the family structure of pseudogenes including query tools, statistical summarie
Autor:
Yangpan Yan, Deyou Zheng, John E. Karro, Nicholas Carriero, Zhaolei Zhang, Mark Gerstein, Philip Cayting, Paul Harrrison
Publikováno v:
Nucleic Acids Research
The Pseudogene.org knowledgebase serves as a comprehensive repository for pseudogene annotation. The definition of a pseudogene varies within the literature, resulting in significantly different approaches to the problem of identification. Consequent
Autor:
Vasavi Sundaram, Ting Wang, Ghia Euskirchen, Zhihai Ma, Anshul Kundaje, Axel Visel, Yong Cheng, Shin Lin, Yiing Lin, Xiaoyun Xing, Zhiping Weng, Bong Hyun Kim, Ross C. Hardison, Xinqiong Yang, Alan P. Boyle, Len A. Pennacchio, Nergiz Dogan, Weisheng Wu, Trupti Kawli, Cheryl A. Keller, Jingjing Li, Philip Cayting, Dorrelyn Patacsil, Belinda Giardine, Michael Snyder
To broaden our understanding of the evolution of gene regulation mechanisms, we generated occupancy profiles for 34 orthologous transcription factors (TFs) in human-mouse erythroid progenitor, lymphoblast and embryonic stem-cell lines. By combining t
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a1a60c6f479c5970d824240e5f3367a8
https://europepmc.org/articles/PMC4343047/
https://europepmc.org/articles/PMC4343047/
Autor:
Ting Wang, Matthew D. Rasmussen, Dana N. Levasseur, Thomas A. Reh, Fidencio Neri, Tanya Kutyavin, Peter J. Good, Katrina Learned, Kate R. Rosenbloom, Lei Hoon See, Cedric Notredame, Ross C. Hardison, Chris Zaleski, Gerd A. Blobel, Dmitri D. Pervouchine, Shane Neph, Ali Mortazavi, Tamer Kahveci, Arthur I. Skoultchi, Peter J. Sabo, Jorg Drenkow, Alex Reynolds, Rebecca F. Lowdon, Marella F. T. R. de Bruijn, John A. Stamatoyannopoulos, Yin Shen, Richard Humbert, Anthony Kirilusha, Sherman M. Weissman, Roderic Guigó, James Taylor, Paul Flicek, Kristen Lee, Shinny Vong, Xiaoyi Cao, Douglas Dunn, Alessandra Breschi, Elise A. Feingold, Michael A. Beer, Piper M. Treuting, Igor Antoshechkin, Thomas R. Gingeras, Georgi K. Marinov, Tyrone Ryba, Jin Lian, Christine M. Disteche, Javier Herrero, Eric Rynes, Sheng Zhong, Weisheng Wu, Richard Sandstrom, Gilberto DeSalvo, Michael Snyder, Meagan Fastuca, Miguel Pignatelli, Mark Groudine, Sarah Djebali, Nergiz Dogan, Rajinder Kaul, Giovanni Bussotti, Henry Amrhein, Daniel Bates, Matthew S. Wilken, Alexander Dobin, Manolis Kellis, Licia Selleri, Diane Trout, Morgan Diegel, David M. Gilbert, Zhihai Ma, Jeff Vierstra, Xiao Qiao Zhou, Theresa K. Canfield, Venkat S. Malladi, Zhen Ye, Anthony Shafer, Tejaswini Mishra, Yiing Lin, Samantha Kuan, Anshul Kundaje, Thalia Papayannopoulou, Pablo Prieto, Robert E. Thurman, Long Pham, Cricket A. Sloan, Olgert Denas, Kathryn Beal, Erika Giste, Andrea Tanzer, Katherine I. Fisher-Aylor, Shin Lin, M. A. Bender, Stuart H. Orkin, Carrie A. Davis, Benjamin D. Pope, Rachel Byron, Srikanta Gosh, Beatriz Lacerda de Sousa, R. Scott Hansen, Brian A. Williams, Yong Cheng, Kanwei Li, Dongwon Lee, Yanli Wang, Evan E. Eichler, Camden Jansen, Feng Yue, Deepti Jain, Miaohua Zhang, David McCleary, W. James Kent, Melissa S. Cline, Kai Hsin Chang, Leslie B. Adams, Robert S. Harris, Ghia Euskirchen, Christapher S. Morrissey, Alexander Y. Rudensky, Philip Cayting, Drew T. Erickson, Eric Haugen, Michael J. Pazin, Vanessa M. Kirkup, Yi-Chieh Wu, Trupti Kawli, Mukul S. Bansal, Cheryl A. Keller, Lee Edsall, Robert M. Samstein, Bing Ren, Miguel Santos, Steven Z. Josefowicz, Barbara J. Wold, Julien Lagarde, Alan P. Boyle, Mitchell J. Weiss, Audra K. Johnson
Publikováno v:
PMC
Nature
Recercat. Dipósit de la Recerca de Catalunya
instname
Nature
Recercat. Dipósit de la Recerca de Catalunya
instname
The laboratory mouse shares the majority of its protein-coding genes with humans, making it the premier model organism in biomedical research, yet the two mammals differ in significant ways. To gain greater insights into both shared and species-speci
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f6f145cfce45bc7081d45dad46f8b765
http://hdl.handle.net/1721.1/100777
http://hdl.handle.net/1721.1/100777
Autor:
Youngsook L. Jung, Marc D. Perry, Michael M. Hoffman, Joel Rozowsky, Florencia Pauli, Tao Liu, Matthew Slattery, Yiwen Chen, Qiang Li, Michael Snyder, Debasish Raha, Noam Shoresh, Anshul Kundaje, Katherine I. Fisher-Aylor, Gilberto DeSalvo, John A. Stamatoyannopoulos, Charles B. Epstein, Arend Sidow, Jason Gertz, Stephen G. Landt, Pouya Kheradpour, X. Shirley Liu, Manolis Kellis, Peggy J. Farnham, Ghia Euskirchen, Peter V. Kharchenko, Michael Y. Tolstorukov, Lijia Ma, Jason D. Lieb, Subhradip Karmakar, Aleksandar Milosavljevic, James B. Brown, Mark Gerstein, Philip Cayting, Timothy E. Reddy, Richard M. Myers, Peter J. Bickel, Alexander J. Hartemink, Michael J. Pazin, Peter J. Park, Barbara J. Wold, Kevin P. White, Georgi K. Marinov, Bradley E. Bernstein, Vishwanath R. Iyer, Simon Xi, Serafim Batzoglou
Publikováno v:
Genome Research
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-seq) has become a valuable and widely used approach for mapping the genomic location of transcription-factor binding and histone modifications in living cells. Desp
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5616e0d5640a45f356b2f95f7da55246
https://resolver.caltech.edu/CaltechAUTHORS:20120927-133114530
https://resolver.caltech.edu/CaltechAUTHORS:20120927-133114530
Autor:
David M. Gilbert, A Sandra Stehling, Zhihai Ma, Barbara J. Wold, Sonali Jha, Theresa K. Canfield, Julien Lagarde, Vanessa M. Kirkup, W. James Kent, Olgert Denas, M. A. Bender, Erica Giste, Mark Groudine, Yong Cheng, Sarah Djebali, Tyrone Ryba, Marta Byrska-Bishop, Jin Lian, Zhen Ye, Philip Cayting, Michael Snyder, Cheryl A. Keller, Alexander Dobin, Anthony Kiralusha, Tejaswini Mishra, Gayathri Balasundaram, Wulan Deng, Gaurav Jain, Ross C. Hardison, Michael J. Pazin, Stephen G. Landt, Takayo Sasaki, Mia Zhang, Manoj Hariharan, Job Dekker, Peter J. Sabo, Diane Trout, Bing Ren, Mitchell J. Weiss, Audra K. Johnson, Sherman M. Weissman, Deepti Jain, Venkat S. Malladi, Huaien Wang, David McCleary, Melissa S. Cline, Robert E. Thurman, Weisheng Wu, Samantha Kuan, Gregory E. Crawford, Yin Shen, Daniel Blankenberg, Wei Lin, Thomas R. Gingeras, Vaughan Roach, Roderic Guigó, James Taylor, Rajinder Kaul, Gilberto DeSalvo, Henry Amrhein, Carrie A. Davis, Lee Edsall, Amartya Sanyal, Katherine I. Fisher-Aylor, Feng Yue, Ali Mortazavi, Brian A. Williams, Gerd A. Blobel, Rebecca F. Lowdon, Chris Zaleski, Bryan R. Lajoie, John A. Stamatoyannopoulos, Peter J. Good, Katrina Learned, Christopher T. Morrissey, Georgi K. Marinov, Kaun-Bei Chen, Richard Sandstrom, Meagan Fastuca, Elise A. Feingold, Kate R. Rosenbloom, Max Pimkin, Leslie B Adams, Chenghai Xue, Rachel Byron, Swathi Ashok Kumar
Publikováno v:
Genome Biology
Recercat. Dipósit de la Recerca de Catalunya
instname
Recercat. Dipósit de la Recerca de Catalunya
instname
To complement the human Encyclopedia of DNA Elements (ENCODE) project and to enable a broad range of mouse genomics efforts, the Mouse ENCODE Consortium is applying the same experimental pipelines developed for human ENCODE to annotate the mouse geno
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
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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