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Research

Local features determine Ty3 targeting frequency at RNA polymerase III transcription start sites

  • Kurt Patterson
  • Farbod Shavarebi
  • Christophe Magnan
  • Ivan Chang
  • Xiaojie Qi
  • Pierre Baldi
  • Virginia Bilanchone
  • Suzanne B. Sandmeyer
  • First Published June 27, 2019
Research

D. melanogaster is found at specific short motifs and is independent of DNMT2 activity" > Genome methylation in D. melanogaster is found at specific short motifs and is independent of DNMT2 activity

  • Sachiko Takayama
  • Joseph Dhahbi
  • Adam Roberts
  • Guanxiong Mao
  • Seok-Jin Heo
  • Lior Pachter
  • David I.K. Martin
  • Dario Boffelli
  • First Published February 20, 2014
Research

Retrotransposon profiling of RNA polymerase III initiation sites

  • Xiaojie Qi
  • Kenneth Daily
  • Kim Nguyen
  • Haoyi Wang
  • David Mayhew
  • Paul Rigor Sholeh Forouzan
  • ... [+2 authors] ...,
  • Mark Johnston
  • Robi David Mitra
  • Pierre Baldi
  • Suzanne Sandmeyer
  • First Published January 27, 2012
Research

Phyloepigenomic comparison of great apes reveals a correlation between somatic and germline methylation states

  • David I.K. Martin
  • Meromit Singer
  • Joseph Dhahbi
  • Guanxiong Mao
  • Lu Zhang
  • Gary P. Schroth
  • Lior Pachter
  • Dario Boffelli
  • First Published September 9, 2011
ARTICLE

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
Methods

Identification of transposable elements using multiple alignments of related genomes

  • Anat Caspi
  • Lior Pachter
  • First Published December 14, 2005
ARTICLE

Retroviruses and yeast retrotransposons use overlapping sets of host genes

  • Becky Irwin
  • Michael Aye
  • Pierre Baldi
  • Nadejda Beliakova-Bethell
  • Henry Cheng
  • Yimeng Dou
  • Willy Liou
  • Suzanne Sandmeyer
  • First Published April 18, 2005
LETTER

Intraspecies sequence comparisons for annotating genomes

  • Dario Boffelli
  • Claire V. Weer
  • Li Weng
  • Keith D. Lewis
  • Malak I. Shoukry
  • Lior Pachter
  • David N. Keys
  • Edward M. Rubin
  • First Published November 15, 2004
RESOURCE

Visualization of Multiple Genome Annotations and Alignments With the K-BROWSER

  • Kushal Chakrabarti
  • Lior Pachter
  • First Published April 1, 2004
Methods

MAVID: Constrained Ancestral Alignment of Multiple Sequences

  • Nicolas Bray
  • Lior Pachter
  • First Published April 1, 2004
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