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Global transcriptional activity dynamics reveal functional enhancer RNAs

  • Yoon Jung Kim
  • Peng Xie
  • Lian Cao
  • Michael Q. Zhang
  • Tae Hoon Kim
  • First Published October 23, 2018

Long genes linked to autism spectrum disorders harbor broad enhancer-like chromatin domains

  • Ying-Tao Zhao
  • Deborah Y. Kwon
  • Brian S. Johnson
  • Maria Fasolino
  • Janine M. Lamonica
  • Yoon Jung Kim Boxuan Simen Zhao
  • ... [+2 authors] ...,
  • Chuan He
  • Golnaz Vahedi
  • Tae Hoon Kim
  • Zhaolan Zhou
  • First Published May 30, 2018

Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration

  • Weisheng Wu
  • Yong Cheng
  • Cheryl A. Keller
  • Jason Ernst
  • Swathi Ashok Kumar
  • Tejaswini Mishra Christapher Morrissey Christine M. Dorman Kuan-Bei Chen Daniela Drautz Belinda Giardine Yoichiro Shibata Lingyun Song Max Pimkin Gregory E. Crawford Terrence S. Furey Manolis Kellis Webb Miller James Taylor Stephan C. Schuster Yu Zhang
  • ... [+16 authors] ...,
  • Francesca Chiaromonte
  • Gerd A. Blobel
  • Mitchell J. Weiss
  • Ross C. Hardison
  • First Published July 27, 2011

Genome-wide identification of conserved regulatory function in diverged sequences

  • Leila Taher
  • David M. McGaughey
  • Samantha Maragh
  • Ivy Aneas
  • Seneca L. Bessling
  • Webb Miller
  • Marcelo A. Nobrega
  • Andrew S. McCallion
  • Ivan Ovcharenko
  • First Published May 31, 2011

Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression

  • Yong Cheng
  • Weisheng Wu
  • Swathi Ashok Kumar
  • Duonan Yu
  • Wulan Deng
  • Tamara Tripic David C. King Kuan-Bei Chen Ying Zhang Daniela Drautz Belinda Giardine Stephan C. Schuster Webb Miller Francesca Chiaromonte
  • ... [+9 authors] ...,
  • Yu Zhang
  • Gerd A. Blobel
  • Mitchell J. Weiss
  • Ross C. Hardison
  • First Published November 3, 2009

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome

  • Elliott H. Margulies
  • Gregory M. Cooper
  • George Asimenos
  • Daryl J. Thomas
  • Colin N. Dewey
  • Adam Siepel Ewan Birney Damian Keefe Ariel S. Schwartz Minmei Hou James Taylor Sergey Nikolaev Juan I. Montoya-Burgos Ari Löytynoja Simon Whelan Fabio Pardi Tim Massingham James B. Brown Peter Bickel Ian Holmes James C. Mullikin Abel Ureta-Vidal Benedict Paten Eric A. Stone Kate R. Rosenbloom W. James Kent Gerard G. Bouffard Xiaobin Guan Nancy F. Hansen Jacquelyn R. Idol Valerie V.B. Maduro Baishali Maskeri Jennifer C. McDowell Morgan Park Pamela J. Thomas Alice C. Young Robert W. Blakesley Donna M. Muzny Erica Sodergren David A. Wheeler Kim C. Worley Huaiyang Jiang George M. Weinstock Richard A. Gibbs Tina Graves Robert Fulton Elaine R. Mardis Richard K. Wilson Michele Clamp James Cuff Sante Gnerre David B. Jaffe Jean L. Chang Kerstin Lindblad-Toh Eric S. Lander Angie Hinrichs Heather Trumbower Hiram Clawson Ann Zweig Robert M. Kuhn Galt Barber Rachel Harte Donna Karolchik Matthew A. Field Richard A. Moore Carrie A. Matthewson Jacqueline E. Schein Marco A. Marra Stylianos E. Antonarakis Serafim Batzoglou Nick Goldman Ross Hardison David Haussler
  • ... [+68 authors] ...,
  • Webb Miller
  • Lior Pachter
  • Eric D. Green
  • Arend Sidow
  • First Published June 13, 2007

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

  • Adam Siepel
  • Gill Bejerano
  • Jakob S. Pedersen
  • Angie S. Hinrichs
  • Minmei Hou
  • Kate Rosenbloom Hiram Clawson John Spieth LaDeana W. Hillier Stephen Richards George M. Weinstock Richard K. Wilson
  • ... [+7 authors] ...,
  • Richard A. Gibbs
  • W. James Kent
  • Webb Miller
  • David Haussler
  • First Published July 15, 2005

Direct isolation and identification of promoters in the human genome

  • Tae Hoon Kim
  • Leah O. Barrera
  • Chunxu Qu
  • Sara Van Calcar
  • Nathan D. Trinklein
  • Sara J. Cooper Rosa M. Luna
  • ... [+2 authors] ...,
  • Christopher K. Glass
  • Michael G. Rosenfeld
  • Richard M. Myers
  • Bing Ren
  • First Published May 17, 2005

Mulan: Multiple-sequence local alignment and visualization for studying function and evolution

  • Ivan Ovcharenko
  • Gabriela G. Loots
  • Belinda M. Giardine
  • Minmei Hou
  • Jian Ma
  • Ross C. Hardison
  • Lisa Stubbs
  • Webb Miller
  • First Published December 8, 2004

Regulatory Potential Scores From Genome-Wide Three-Way Alignments of Human, Mouse, and Rat

  • Diana Kolbe
  • James Taylor
  • Laura Elnitski
  • Pallavi Eswara
  • Jia Li
  • Webb Miller
  • Ross Hardison
  • Francesca Chiaromonte
  • First Published April 1, 2004
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