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Research

The contributions from the progenitor genomes of the mesopolyploid Brassiceae are evolutionarily distinct but functionally compatible

  • Yue Hao
  • Makenzie E. Mabry
  • Patrick P. Edger
  • Michael Freeling
  • Chunfang Zheng
  • Lingling Jin Robert VanBuren Marivi Colle Hong An R. Shawn Abrahams Jacob D. Washburn Xinshuai Qi Kerrie Barry Christopher Daum Shengqiang Shu Jeremy Schmutz David Sankoff
  • ... [+12 authors] ...,
  • Michael S. Barker
  • Eric Lyons
  • J. Chris Pires
  • Gavin C. Conant
  • First Published April 16, 2021
Research

Pangolin genomes and the evolution of mammalian scales and immunity

  • Siew Woh Choo
  • Mike Rayko
  • Tze King Tan
  • Ranjeev Hari
  • Aleksey Komissarov
  • Wei Yee Wee Andrey A. Yurchenko Sergey Kliver Gaik Tamazian Agostinho Antunes Richard K. Wilson Wesley C. Warren Klaus-Peter Koepfli Patrick Minx Ksenia Krasheninnikova Antoinette Kotze Desire L. Dalton Elaine Vermaak Ian C. Paterson Pavel Dobrynin Frankie Thomas Sitam Jeffrine J. Rovie-Ryan Warren E. Johnson Aini Mohamed Yusoff Shu-Jin Luo Kayal Vizi Karuppannan Gang Fang Deyou Zheng
  • ... [+23 authors] ...,
  • Mark B. Gerstein
  • Leonard Lipovich
  • Stephen J. O'Brien
  • Guat Jah Wong
  • First Published August 10, 2016
Resource

High-resolution mapping of open chromatin in the rice genome

  • Wenli Zhang
  • Yufeng Wu
  • James C. Schnable
  • Zixian Zeng
  • Michael Freeling
  • Gregory E. Crawford
  • Jiming Jiang
  • First Published November 22, 2011
LETTER

Arabidopsis transposed after the origin of the order Brassicales" > Many or most genes in Arabidopsis transposed after the origin of the order Brassicales

  • Michael Freeling
  • Eric Lyons
  • Brent Pedersen
  • Maqsudul Alam
  • Ray Ming
  • Damon Lisch
  • First Published October 3, 2008
LETTER

Pseudogenes in the ENCODE regions: Consensus annotation, analysis of transcription, and evolution

  • Deyou Zheng
  • Adam Frankish
  • Robert Baertsch
  • Philipp Kapranov
  • Alexandre Reymond
  • Siew Woh Choo Yontao Lu France Denoeud Stylianos E. Antonarakis Michael Snyder Yijun Ruan Chia-Lin Wei
  • ... [+7 authors] ...,
  • Thomas R. Gingeras
  • Roderic Guigó
  • Jennifer Harrow
  • Mark B. Gerstein
  • First Published June 13, 2007
ARTICLE

The DART classification of unannotated transcription within the ENCODE regions: Associating transcription with known and novel loci

  • Joel S. Rozowsky
  • Daniel Newburger
  • Fred Sayward
  • Jiaqian Wu
  • Greg Jordan
  • Jan O. Korbel Ugrappa Nagalakshmi Jin Yang Deyou Zheng Roderic Guigó Thomas R. Gingeras
  • ... [+6 authors] ...,
  • Sherman Weissman
  • Perry Miller
  • Michael Snyder
  • Mark B. Gerstein
  • First Published June 13, 2007
ARTICLE

Integrated analysis of experimental data sets reveals many novel promoters in 1% of the human genome

  • Nathan D. Trinklein
  • Ulaş Karaöz
  • Jiaqian Wu
  • Anason Halees
  • Shelley Force Aldred
  • Patrick J. Collins Deyou Zheng Zhengdong D. Zhang
  • ... [+3 authors] ...,
  • Mark B. Gerstein
  • Michael Snyder
  • Richard M. Myers
  • Zhiping Weng
  • First Published June 13, 2007
PERSPECTIVE

What is a gene, post-ENCODE? History and updated definition

  • Mark B. Gerstein
  • Can Bruce
  • Joel S. Rozowsky
  • Deyou Zheng
  • Jiang Du
  • Jan O. Korbel
  • ... [+1 authors] ...,
  • Olof Emanuelsson
  • Zhengdong D. Zhang
  • Sherman Weissman
  • Michael Snyder
  • First Published June 13, 2007
Methods

Assessing the performance of different high-density tiling microarray strategies for mapping transcribed regions of the human genome

  • Olof Emanuelsson
  • Ugrappa Nagalakshmi
  • Deyou Zheng
  • Joel S. Rozowsky
  • Alexander E. Urban
  • Jiang Du Zheng Lian
  • ... [+2 authors] ...,
  • Viktor Stolc
  • Sherman Weissman
  • Michael Snyder
  • Mark B. Gerstein
  • First Published November 21, 2006
PERSPECTIVE

Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity

  • Michael Freeling
  • Brian C. Thomas
  • First Published July 3, 2006
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