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Research

TBR1 regulates autism risk genes in the developing neocortex

James H. Notwell
Whitney E. Heavner
Siavash Fazel Darbandi
Sol Katzman
William L. McKenna
Christian F. Ortiz-Londono David Tastad Matthew J. Eckler
... [+3 authors] ...,
John L.R. Rubenstein
Susan K. McConnell
Bin Chen
Gill Bejerano

First Published June 20, 2016

Method

Read clouds uncover variation in complex regions of the human genome

Alex Bishara
Yuling Liu
Ziming Weng
Dorna Kashef-Haghighi
Daniel E. Newburger
Robert West
Arend Sidow
Serafim Batzoglou

First Published August 18, 2015

Method

Parente2: a fast and accurate method for detecting identity by descent

Jesse M. Rodriguez
Sivan Bercovici
Lin Huang
Roy Frostig
Serafim Batzoglou

First Published October 1, 2014

Research

Microbiota modulate transcription in the intestinal epithelium without remodeling the accessible chromatin landscape

J. Gray Camp
Christopher L. Frank
Colin R. Lickwar
Harendra Guturu
Tomas Rube
Aaron M. Wenger
... [+1 authors] ...,
Jenny Chen
Gill Bejerano
Gregory E. Crawford
John F. Rawls

First Published June 24, 2014

Research

Genome evolution during progression to breast cancer

Daniel E. Newburger
Dorna Kashef-Haghighi
Ziming Weng
Raheleh Salari
Robert T. Sweeney
Alayne L. Brunner Shirley X. Zhu Xiangqian Guo Sushama Varma
... [+4 authors] ...,
Megan L. Troxell
Robert B. West
Serafim Batzoglou
Arend Sidow

First Published April 8, 2013

Resource

PRISM offers a comprehensive genomic approach to transcription factor function prediction

Aaron M. Wenger
Shoa L. Clarke
Harendra Guturu
Jenny Chen
Bruce T. Schaar
Cory Y. McLean
Gill Bejerano

First Published February 4, 2013

Method

Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements

Anshul Kundaje
Sofia Kyriazopoulou-Panagiotopoulou
Max Libbrecht
Cheryl L. Smith
Debasish Raha
Elliott E. Winters
... [+1 authors] ...,
Steven M. Johnson
Michael Snyder
Serafim Batzoglou
Arend Sidow

First Published September 5, 2012

Method

Linking disease associations with regulatory information in the human genome

Marc A. Schaub
Alan P. Boyle
Anshul Kundaje
Serafim Batzoglou
Michael Snyder

First Published September 5, 2012

Resource

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

Research

Coding exons function as tissue-specific enhancers of nearby genes

Ramon Y. Birnbaum
E. Josephine Clowney
Orly Agamy
Mee J. Kim
Jingjing Zhao
Takayuki Yamanaka Zachary Pappalardo Shoa L. Clarke Aaron M. Wenger Loan Nguyen Fiorella Gurrieri David B. Everman Charles E. Schwartz
... [+8 authors] ...,
Ohad S. Birk
Gill Bejerano
Stavros Lomvardas
Nadav Ahituv

First Published March 22, 2012

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