Search Results - Shane Neph

  • Showing 1 - 20 results of 20
Refine Results
  1. 1
    Circuitry and Dynamics of Human Transcription Factor Regulatory Networks

    Circuitry and Dynamics of Human Transcription Factor Regulatory Networks by Shane Neph, Andrew B. Stergachis, Alex Reynolds, Richard Sandstrom, Elhanan Borenstein, J Stamatoyannopoulos

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  2. 2
    A Computational Pipeline for High- Throughput Discovery of cis-Regulatory Noncoding RNA in Prokaryotes

    A Computational Pipeline for High- Throughput Discovery of cis-Regulatory Noncoding RNA in Prokaryotes by Zizhen Yao, Jeffrey E. Barrick, Zasha Weinberg, Shane Neph, Ronald R. Breaker, Martin Tompa, Walter L. Ruzzo

    Published 2007
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  3. 3
    Personal and population genomics of human regulatory variation

    Personal and population genomics of human regulatory variation by Benjamin Vernot, Andrew B. Stergachis, Matthew T. Maurano, Jeff Vierstra, Shane Neph, Robert E. Thurman, J Stamatoyannopoulos, Joshua M. Akey

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  4. 4
    eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data

    eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data by Charles E. Breeze, Alex Reynolds, Jenny van Dongen, Ian Dunham, John Lazar, Shane Neph, Jeff Vierstra, Guillaume Bourque, Andrew E. Teschendorff, J Stamatoyannopoulos, Stephan Beck

    Published 2019
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  5. 5
    BEDOPS: high-performance genomic feature operations

    BEDOPS: high-performance genomic feature operations by Shane Neph, Michael S. Kuehn, Alex Reynolds, Eric Haugen, Robert E. Thurman, Audra Johnson, Eric Rynes, Matthew T. Maurano, Jeff Vierstra, Sean Thomas, Richard Sandstrom, Richard Humbert, J Stamatoyannopoulos

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  6. 6
    Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

    Global mapping of protein-DNA interactions in vivo by digital genomic footprinting by Jay R. Hesselberth, Xiaoyu Chen, Zhihong Zhang, Peter J. Sabo, Richard Sandstrom, Alex Reynolds, Robert E. Thurman, Shane Neph, Michael S. Kuehn, William Stafford Noble, Stanley Fields, J Stamatoyannopoulos

    Published 2009
    Get full text
    Artigo
    Save to List
    Saved in:
  7. 7
    The Human Mitochondrial Transcriptome

    The Human Mitochondrial Transcriptome by Tim R. Mercer, Shane Neph, Marcel E. Dinger, Joanna Crawford, Martin A. Smith, Anne-Marie J. Shearwood, Eric Haugen, Cameron P. Bracken, Oliver Rackham, J Stamatoyannopoulos, Aleksandra Filipovska, John S. Mattick

    Published 2011
    Get full text
    Artigo
    Save to List
    Saved in:
  8. 8
    Foxp3 Exploits a Pre-Existent Enhancer Landscape for Regulatory T Cell Lineage Specification

    Foxp3 Exploits a Pre-Existent Enhancer Landscape for Regulatory T Cell Lineage Specification by Robert M. Samstein, Aaron Arvey, Steven Z. Josefowicz, Xiao Peng, Alex Reynolds, Richard Sandstrom, Shane Neph, Peter J. Sabo, Jeong Kim, Will Liao, Ming O. Li, Christina Leslie, J Stamatoyannopoulos, Alexander Y. Rudensky

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  9. 9
    DNase I–hypersensitive exons colocalize with promoters and distal regulatory elements

    DNase I–hypersensitive exons colocalize with promoters and distal regulatory elements by Tim R. Mercer, Stacey L. Edwards, Michael B. Clark, Shane Neph, Hao Wang, Andrew B. Stergachis, Sam John, Richard Sandstrom, Guoliang Li, Kuljeet Singh Sandhu, Yijun Ruan, Lars K. Nielsen, John S. Mattick, J Stamatoyannopoulos

    Published 2013
    Get full text
    Artigo
    Save to List
    Saved in:
  10. 10
    Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline

    Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline by Zasha Weinberg, Jeffrey E. Barrick, Zizhen Yao, Adam Roth, Jane N. Kim, Jeremy Gore, Joy Xin Wang, Elaine R. Lee, Kirsten F. Block, Narasimhan Sudarsan, Shane Neph, Martin Tompa, Walter L. Ruzzo, Ronald R. Breaker

    Published 2007
    Get full text
    Artigo
    Save to List
    Saved in:
  11. 11
    Developmental Fate and Cellular Maturity Encoded in Human Regulatory DNA Landscapes

    Developmental Fate and Cellular Maturity Encoded in Human Regulatory DNA Landscapes by Andrew B. Stergachis, Shane Neph, Alex Reynolds, Richard Humbert, Brady Miller, Sharon L. Paige, Benjamin Vernot, Jeffrey B. Cheng, Robert E. Thurman, Richard Sandstrom, Eric Haugen, Shelly Heimfeld, Charles E. Murry, Joshua M. Akey, J Stamatoyannopoulos

    Published 2013
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  12. 12
    A haplotype-resolved view of human gene regulation

    A haplotype-resolved view of human gene regulation by Mitchell R. Vollger, Elliott Swanson, Shane Neph, Jane Ranchalis, Katherine M. Munson, Ching‐Huang Ho, Adriana E. Sedeño-Cortés, William E. Fondrie, Stephanie C. Bohaczuk, Yizi Mao, Nancy L. Parmalee, Benjamin J. Mallory, William T. Harvey, Young-Jun Kwon, Gage H. Garcia, Kendra Hoekzema, Jeffrey G. Meyer, Mine S. Cicek, Evan E. Eichler, William Stafford Noble, Daniela Witten, James T. Bennett, John Ray, Andrew B. Stergachis

    Published 2024
    Get full text Get full text
    Pré-impressão
    Save to List
    Saved in:
  13. 13
    Conservation of trans-acting circuitry during mammalian regulatory evolution

    Conservation of trans-acting circuitry during mammalian regulatory evolution by Andrew B. Stergachis, Shane Neph, Richard Sandstrom, Eric Haugen, Alex Reynolds, Miaohua Zhang, Rachel Byron, Theresa K. Canfield, Sandra Stelhing-Sun, Kristen Lee, Robert E. Thurman, Shinny Vong, Daniel Bates, Fidencio Neri, Morgan Diegel, Erika Giste, Douglas Dunn, Jeff Vierstra, R. Scott Hansen, Audra Johnson, Peter J. Sabo, Matthew S. Wilken, Thomas A. Reh, Piper M. Treuting, Rajinder Kaul, Mark Groudine, M. A. Bender, Elhanan Borenstein, J Stamatoyannopoulos

    Published 2014
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  14. 14
    Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

    Systematic Localization of Common Disease-Associated Variation in Regulatory DNA by Matthew T. Maurano, Richard Humbert, Eric Rynes, Robert E. Thurman, Eric Haugen, Hao Wang, Alex Reynolds, Richard Sandstrom, Hongzhu Qu, Jennifer A. Brody, Anthony Shafer, Fidencio Neri, Kristen Lee, Tanya Kutyavin, Sandra Stehling-Sun, Audra Johnson, Theresa K. Canfield, Erika Giste, Morgan Diegel, Daniel Bates, R. Scott Hansen, Shane Neph, Peter J. Sabo, Shelly Heimfeld, Antony Raubitschek, Steven F. Ziegler, Chris Cotsapas, Nona Sotoodehnia, Ian Glass, Shamil Sunyaev, Rajinder Kaul, J Stamatoyannopoulos

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  15. 15
    An expansive human regulatory lexicon encoded in transcription factor footprints

    An expansive human regulatory lexicon encoded in transcription factor footprints by Shane Neph, Jeff Vierstra, Andrew B. Stergachis, Alex Reynolds, Eric Haugen, Benjamin Vernot, Robert E. Thurman, Sam John, Richard Sandstrom, Audra Johnson, Matthew T. Maurano, Richard Humbert, Eric Rynes, Hao Wang, Shinny Vong, Kristen Lee, Daniel Bates, Morgan Diegel, Vaughn Roach, Douglas Dunn, Jun Neri, Anthony Schafer, R. Scott Hansen, Tanya Kutyavin, Erika Giste, Molly Weaver, Theresa K. Canfield, Peter J. Sabo, Miaohua Zhang, Gayathri Balasundaram, Rachel Byron, Michael J. MacCoss, Joshua M. Akey, M. A. Bender, Mark Groudine, Rajinder Kaul, J Stamatoyannopoulos

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  16. 16
    The accessible chromatin landscape of the human genome

    The accessible chromatin landscape of the human genome by Robert E. Thurman, Eric Rynes, Richard Humbert, Jeff Vierstra, Matthew T. Maurano, Eric Haugen, Nathan C. Sheffield, Andrew B. Stergachis, Hao Wang, Benjamin Vernot, Kavita S. Garg, Sam John, Richard Sandstrom, Daniel Bates, Lisa Boatman, Theresa K. Canfield, Morgan Diegel, Douglas Dunn, Abigail K. Ebersol, Tristan Frum, Erika Giste, Audra Johnson, Ericka M. Johnson, Tanya Kutyavin, Bryan R. Lajoie, Bum-Kyu Lee, Kristen Lee, Darin London, Dimitra M. Lotakis, Shane Neph, Fidencio Neri, Éric Nguyen, Hongzhu Qu, Alex Reynolds, Vaughn Roach, Alexias Safi, Minerva E. Sanchez, Amartya Sanyal, Anthony Shafer, Jeremy M. Simon, Lingyun Song, Shinny Vong, Molly Weaver, Yongqi Yan, Zhancheng Zhang, Zhuzhu Zhang, Boris Lenhard, Muneesh Tewari, Michael O. Dorschner, R. Scott Hansen, Patrick A. Navas, George Stamatoyannopoulos, Vishwanath R. Iyer, Jason D. Lieb, Shamil Sunyaev, Joshua M. Akey, Peter J. Sabo, Rajinder Kaul, Terrence S. Furey, Job Dekker, Gregory E. Crawford, J Stamatoyannopoulos

    Published 2012
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  17. 17
    A comparative encyclopedia of DNA elements in the mouse genome

    A comparative encyclopedia of DNA elements in the mouse genome by Feng Yue, Yong Cheng, Alessandra Breschi, Jeff Vierstra, Wei-Sheng Wu, Tyrone Ryba, Richard Sandstrom, Zhihai Ma, Carrie Davis, Benjamin D. Pope, Yin Shen, Dmitri D. Pervouchine, Sarah Djebali, Robert E. Thurman, Rajinder Kaul, Eric Rynes, Anthony Kirilusha, Georgi K. Marinov, Brian A. Williams, Diane Trout, Henry Amrhein, Katherine Fisher-Aylor, Igor Antoshechkin, Gilberto DeSalvo, Lei-Hoon See, Meagan Fastuca, Jörg Drenkow, Chris Zaleski, Alexander Dobin, Pablo Prieto, Julien Lagarde, Giovanni Bussotti, Andrea Tanzer, Olgert Denas, Kanwei Li, M. A. Bender, Miaohua Zhang, Rachel Byron, Mark Groudine, David McCleary, Long Pham, Zhen Ye, Samantha Kuan, Lee Edsall, Yi-Chieh Wu, Matthew D. Rasmussen, Mukul S. Bansal, Manolis Kellis, Cheryl A. Keller, Christapher S. Morrissey, Tejaswini Mishra, Deepti Jain, Nergiz Doğan, Robert S. Harris, Philip Cayting, Trupti Kawli, Alan P. Boyle, Ghia Euskirchen, Anshul Kundaje, Shin Lin, Yiing Lin, Camden Jansen, Venkat S. Malladi, Melissa Cline, Drew T. Erickson, Vanessa M. Kirkup, Katrina Learned, Cricket A. Sloan, Kate R. Rosenbloom, Beatriz Lacerda de Sousa, Kathryn Beal, Miguel Pignatelli, Paul Flicek, Lian Jin, Tamer Kahveci, Dongwon Lee, W. James Kent, Miguel Ramalho Santos, Javier Herrero, Cédric Notredame, Audra Johnson, Shinny Vong, Kristen Lee, Daniel Bates, Fidencio Neri, Morgan Diegel, Theresa K. Canfield, Peter J. Sabo, Matthew S. Wilken, Thomas A. Reh, Erika Giste, Anthony Shafer, Tanya Kutyavin, Eric Haugen, Douglas Dunn, Alex Reynolds, Shane Neph, Richard Humbert, R. Scott Hansen, Marella de Bruijn

    Published 2014
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  18. 18
    Integrative analysis of 111 reference human epigenomes

    Integrative analysis of 111 reference human epigenomes by Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi‐Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J. Ziller, Viren Amin, John W. Whitaker, Matthew D. Schultz, Lucas D. Ward, Abhishek Sarkar, Gerald Quon, Richard Sandstrom, Matthew L. Eaton, Yi-Chieh Wu, Andreas R. Pfenning, Xinchen Wang, Melina Claussnitzer, Yaping Liu, Cristian Coarfa, R. Alan Harris, Noam Shoresh, Charles B. Epstein, Elizabeta Gjoneska, Danny Leung, Wei Xie, R. David Hawkins, Ryan Lister, Chibo Hong, Philippe Gascard, Andrew J. Mungall, Richard A. Moore, Eric Chuah, Angela Tam, Theresa K. Canfield, R. Scott Hansen, Rajinder Kaul, Peter J. Sabo, Mukul S. Bansal, Annaïck Carles, Jesse R. Dixon, Kai-How Farh, Soheil Feizi, Rosa Karlić, Ah-Ram Kim, Ashwinikumar Kulkarni, Daofeng Li, Rebecca F. Lowdon, GiNell Elliott, Tim R. Mercer, Shane Neph, Vitor Onuchic, Paz Polak, Nisha Rajagopal, Pradipta Ray, Richard Sallari, Kyle Siebenthall, Nicholas A. Sinnott‐Armstrong, Michael Stevens, Robert E. Thurman, Jie Wu, Bo Zhang, Xin Zhou, Arthur E. Beaudet, Laurie A. Boyer, Philip L. De Jager, Peggy Farnham, Susan J. Fisher, David Haussler, Steven J.M. Jones, Wei Li, Marco A. Marra, Michael T. McManus, Shamil Sunyaev, James A. Thomson, Thea D. Tlsty, Linus Tsai, Wei Wang, Robert A. Waterland, Michael Q. Zhang, Lisa H. Chadwick, B Bernstein, J Costello, Joseph R. Ecker, Martin Hirst, Alexander Meissner, Aleksandar Milosavljević, Bing Ren, J Stamatoyannopoulos, Ting Wang, Manolis Kellis

    Published 2015
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  19. 19
    Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

    Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project by Ewan Birney, J Stamatoyannopoulos, Anindya Dutta, Roderic Guigó, T Gingeras, Elliott H. Margulies, Zhiping Weng, M Snyder, Emmanouil T. Dermitzakis, Robert E. Thurman, Michael S. Kuehn, Christopher M. Taylor, Shane Neph, Christof Koch, Saurabh Asthana, Ankit Malhotra, Ivan Adzhubei, Jason Greenbaum, Robert Andrews, Paul Flicek, Patrick J. Boyle, Hua Cao, N. P. Carter, Gayle K. Clelland, Sean Davis, Nathan Day, Pawandeep Dhami, Shane C. Dillon, Michael O. Dorschner, Heike Fiegler, Paul G. Giresi, Jeff Goldy, Michael Hawrylycz, Andrew Haydock, Richard Humbert, Keith James, Brett Johnson, Ericka M. Johnson, Tristan Frum, Elizabeth Rosenzweig, Neerja Karnani, Kirsten Lee, Grégory Lefebvre, Patrick A. Navas, Fidencio Neri, Stephen C. J. Parker, Peter J. Sabo, Richard Sandstrom, Anthony Shafer, David Vetrie, Molly Weaver, Sarah Wilcox, Man Yu, Francis S. Collins, Job Dekker, Jason D. Lieb, Thomas D. Tullius, Gregory E. Crawford, Shamil Sunyaev, William Stafford Noble, Ian Dunham, Alexandre Reymond, Philipp Kapranov, Joel Rozowsky, Deyou Zheng, Robert Castelo, Adam Frankish, Jennifer Harrow, Srinka Ghosh, Albin Sandelin, Ivo L. Hofacker, Robert Baertsch, Damian Keefe, Sujit Dike, Jill Cheng, Heather A. Hirsch, Edward A. Sekinger, Julien Lagarde, Josep F. Abril, Atif Shahab, Christoph Flamm, Claudia Fried, Jörg Hackermüller, Jana Hertel, Manja Lindemeyer, Kristin Missal, Andrea Tanzer, Stefan Washietl, Jan O. Korbel, Olof Emanuelsson, Jakob Skou Pedersen, Nancy Holroyd, Ruth Taylor, David Swarbreck, Nicholas Matthews, Mark Dickson, Daryl J. Thomas, Matthew T. Weirauch, James Gilbert, Jörg Drenkow

    Published 2007
    Get full text Get full text
    Artigo
    Save to List
    Saved in:
  20. 20
    52 Genetic Loci Influencing Myocardial Mass

    52 Genetic Loci Influencing Myocardial Mass by Pim van der Harst, Jessica van Setten, Niek Verweij, Georg Vogler, Lude Franke, Matthew T. Maurano, Xinchen Wang, Irene Mateo Leach, Mark Eijgelsheim, Nona Sotoodehnia, Caroline Hayward, Rossella Sorice, Osorio Meirelles, Leo‐Pekka Lyytikäinen, Ozren Polašek, Toshiko Tanaka, Dan E. Arking, Sheila Ulivi, Stella Trompet, Martina Müller‐Nurasyid, Albert V. Smith, Marcus Dörr, Kathleen F. Kerr, Jared W. Magnani, Fabiola Del Greco M, Weihua Zhang, Ilja M. Nolte, Claudia Silva, Sandosh Padmanabhan, Vinicius Tragante, Tõnu Esko, Gonçalo R. Abecasis, Michiel Adriaens, Karl Andersen, Phil Barnett, Joshua C. Bis, Rolf Bodmer, Brendan M. Buckley, Harry Campbell, Megan V. Cannon, Aravinda Chakravarti, Lin Y. Chen, Alessandro Delitala, Richard B. Devereux, Pieter A. Doevendans, Anna F. Dominiczak, Luigi Ferrucci, Ian Ford, Christian Gieger, Tamara B. Harris, Eric Haugen, Matthias Heinig, Dena Hernandez, Hans L. Hillege, Joel N. Hirschhorn, Albert Hofman, Norbert Hübner, Shih-Jen Hwang, Alfonso Iorio, Mika Kähönen, Manolis Kellis, Ivana Kolčić, Ishminder K. Kooner, Jaspal S. Kooner, Jan A. Kors, Edward G. Lakatta, Kasper Lage, Lenore J. Launer, Daniel Levy, Alicia Lundby, Peter W. Macfarlane, Dalit May, Thomas Meitinger, Andres Metspalu, Stefania Nappo, Silvia Naitza, Shane Neph, Alex S. Nord, Teresa Nutile, Peter M. Okin, Jesper V. Olsen, Ben A. Oostra, Josef Penninger, L Pennacchio, Tune H. Pers, Siegfried Perz, Annette Peters, Yigal M. Pinto, Arne Pfeufer, Maria Grazia Pilia, Peter P. Pramstaller, Bram P. Prins, Olli T. Raitakari, Soumya Raychaudhuri, Kenneth Rice, Elizabeth J. Rossin, Jerome I. Rotter, Sebastian Schäfer, David Schlessinger, Carsten Oliver Schmidt

    Published 2016
    Get full text
    Artigo
    Save to List
    Saved in:

Search Tools: