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Drosophila" > Extensive cross-regulation of post-transcriptional regulatory networks in Drosophila

  • Marcus H. Stoiber
  • Sara Olson
  • Gemma E. May
  • Michael O. Duff
  • Jan Manent
  • Robert Obar K.G. Guruharsha Peter J. Bickel
  • ... [+3 authors] ...,
  • Spyros Artavanis-Tsakonas
  • James B. Brown
  • Brenton R. Graveley
  • Susan E. Celniker
  • First Published August 20, 2015

D. melanogaster modENCODE transcriptome annotation" > Comparative validation of the D. melanogaster modENCODE transcriptome annotation

  • Zhen-Xia Chen
  • David Sturgill
  • Jiaxin Qu
  • Huaiyang Jiang
  • Soo Park
  • Nathan Boley Ana Maria Suzuki Anthony R. Fletcher David C. Plachetzki Peter C. FitzGerald Carlo G. Artieri Joel Atallah Olga Barmina James B. Brown Kerstin P. Blankenburg Emily Clough Abhijit Dasgupta Sai Gubbala Yi Han Joy C. Jayaseelan Divya Kalra Yoo-Ah Kim Christie L. Kovar Sandra L. Lee Mingmei Li James D. Malley John H. Malone Tittu Mathew Nicolas R. Mattiuzzo Mala Munidasa Donna M. Muzny Fiona Ongeri Lora Perales Teresa M. Przytycka Ling-Ling Pu Garrett Robinson Rebecca L. Thornton Nehad Saada Steven E. Scherer Harold E. Smith Charles Vinson Crystal B. Warner Kim C. Worley Yuan-Qing Wu Xiaoyan Zou Peter Cherbas Manolis Kellis Michael B. Eisen Fabio Piano Karin Kionte David H. Fitch Paul W. Sternberg Asher D. Cutter Michael O. Duff Roger A. Hoskins Brenton R. Graveley Richard A. Gibbs Peter J. Bickel Artyom Kopp
  • ... [+54 authors] ...,
  • Piero Carninci
  • Susan E. Celniker
  • Brian Oliver
  • Stephen Richards
  • First Published July 1, 2014

Long noncoding RNAs are rarely translated in two human cell lines

  • Balázs Bánfai
  • Hui Jia
  • Jainab Khatun
  • Emily Wood
  • Brian Risk
  • William E. Gundling Anshul Kundaje Harsha P. Gunawardena Yanbao Yu Ling Xie Krzysztof Krajewski Brian D. Strahl Xian Chen
  • ... [+8 authors] ...,
  • Peter Bickel
  • Morgan C. Giddings
  • James B. Brown
  • Leonard Lipovich
  • First Published September 5, 2012

Understanding transcriptional regulation by integrative analysis of transcription factor binding data

  • Chao Cheng
  • Roger Alexander
  • Renqiang Min
  • Jing Leng
  • Kevin Y. Yip
  • Joel Rozowsky Koon-Kiu Yan Xianjun Dong Sarah Djebali Yijun Ruan Carrie A. Davis Piero Carninci Timo Lassman Thomas R. Gingeras Roderic Guigó
  • ... [+10 authors] ...,
  • Ewan Birney
  • Zhiping Weng
  • Michael Snyder
  • Mark Gerstein
  • First Published September 5, 2012

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

  • Thomas Derrien
  • Rory Johnson
  • Giovanni Bussotti
  • Andrea Tanzer
  • Sarah Djebali
  • Hagen Tilgner Gregory Guernec David Martin Angelika Merkel David G. Knowles Julien Lagarde Lavanya Veeravalli Xiaoan Ruan Yijun Ruan Timo Lassmann Piero Carninci James B. Brown Leonard Lipovich Jose M. Gonzalez Mark Thomas Carrie A. Davis Ramin Shiekhattar Thomas R. Gingeras
  • ... [+18 authors] ...,
  • Tim J. Hubbard
  • Cedric Notredame
  • Jennifer Harrow
  • Roderic Guigó
  • First Published September 5, 2012

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

  • Jie Wang
  • Jiali Zhuang
  • Sowmya Iyer
  • XinYing Lin
  • Troy W. Whitfield
  • Melissa C. Greven Brian G. Pierce Xianjun Dong Anshul Kundaje Yong Cheng Oliver J. Rando Ewan Birney
  • ... [+7 authors] ...,
  • Richard M. Myers
  • William S. Noble
  • Michael Snyder
  • Zhiping Weng
  • First Published September 5, 2012

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

  • Stephen G. Landt
  • Georgi K. Marinov
  • Anshul Kundaje
  • Pouya Kheradpour
  • Florencia Pauli
  • Serafim Batzoglou Bradley E. Bernstein Peter Bickel James B. Brown Philip Cayting Yiwen Chen Gilberto DeSalvo Charles Epstein Katherine I. Fisher-Aylor Ghia Euskirchen Mark Gerstein Jason Gertz Alexander J. Hartemink Michael M. Hoffman Vishwanath R. Iyer Youngsook L. Jung Subhradip Karmakar Manolis Kellis Peter V. Kharchenko Qunhua Li Tao Liu X. Shirley Liu Lijia Ma Aleksandar Milosavljevic Richard M. Myers Peter J. Park Michael J. Pazin Marc D. Perry Debasish Raha Timothy E. Reddy Joel Rozowsky Noam Shoresh Arend Sidow Matthew Slattery John A. Stamatoyannopoulos Michael Y. Tolstorukov Kevin P. White Simon Xi
  • ... [+38 authors] ...,
  • Peggy J. Farnham
  • Jason D. Lieb
  • Barbara J. Wold
  • Michael Snyder
  • First Published September 5, 2012

Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells

  • Bum-Kyu Lee
  • Akshay A. Bhinge
  • Anna Battenhouse
  • Ryan M. McDaniell
  • Zheng Liu
  • Lingyun Song Yunyun Ni Ewan Birney
  • ... [+3 authors] ...,
  • Jason D. Lieb
  • Terrence S. Furey
  • Gregory E. Crawford
  • Vishwanath R. Iyer
  • First Published November 16, 2011

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

  • Lingyun Song
  • Zhancheng Zhang
  • Linda L. Grasfeder
  • Alan P. Boyle
  • Paul G. Giresi
  • Bum-Kyu Lee Nathan C. Sheffield Stefan Gräf Mikael Huss Damian Keefe Zheng Liu Darin London Ryan M. McDaniell Yoichiro Shibata Kimberly A. Showers Jeremy M. Simon Teresa Vales Tianyuan Wang Deborah Winter Zhuzhu Zhang Neil D. Clarke Ewan Birney
  • ... [+17 authors] ...,
  • Vishwanath R. Iyer
  • Gregory E. Crawford
  • Jason D. Lieb
  • Terrence S. Furey
  • First Published July 12, 2011

Efficient storage of high throughput DNA sequencing data using reference-based compression

  • Markus Hsi-Yang Fritz
  • Rasko Leinonen
  • Guy Cochrane
  • Ewan Birney
  • First Published January 18, 2011
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