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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

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

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

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

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

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

A DNA methylation fingerprint of 1628 human samples

  • Agustin F. Fernandez
  • Yassen Assenov
  • Jose Ignacio Martin-Subero
  • Balazs Balint
  • Reiner Siebert
  • Hiroaki Taniguchi Hiroyuki Yamamoto Manuel Hidalgo Aik-Choon Tan Oliver Galm Isidre Ferrer Montse Sanchez-Cespedes Alberto Villanueva Javier Carmona Jose V. Sanchez-Mut Maria Berdasco Victor Moreno Gabriel Capella David Monk Esteban Ballestar Santiago Ropero Ramon Martinez Marta Sanchez-Carbayo Felipe Prosper Xabier Agirre Mario F. Fraga Osvaldo Graña Luis Perez-Jurado Jaume Mora Susana Puig Jaime Prat Lina Badimon Annibale A. Puca Stephen J. Meltzer
  • ... [+29 authors] ...,
  • Thomas Lengauer
  • John Bridgewater
  • Christoph Bock
  • Manel Esteller
  • First Published May 25, 2011

Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes

  • David L. Goode
  • Gregory M. Cooper
  • Jeremy Schmutz
  • Mark Dickson
  • Eidelyn Gonzales
  • Ming Tsai Kalpana Karra
  • ... [+2 authors] ...,
  • Eugene Davydov
  • Serafim Batzoglou
  • Richard M. Myers
  • Arend Sidow
  • First Published January 12, 2010

Changes in the pattern of DNA methylation associate with twin discordance in systemic lupus erythematosus

  • Biola M. Javierre
  • Agustin F. Fernandez
  • Julia Richter
  • Fatima Al-Shahrour
  • J. Ignacio Martin-Subero
  • Javier Rodriguez-Ubreva Maria Berdasco Mario F. Fraga Terrance P. O'Hanlon Lisa G. Rider Filipe V. Jacinto F. Javier Lopez-Longo Joaquin Dopazo Marta Forn Miguel A. Peinado Luis Carreño Amr H. Sawalha John B. Harley
  • ... [+13 authors] ...,
  • Reiner Siebert
  • Manel Esteller
  • Frederick W. Miller
  • Esteban Ballestar
  • First Published December 22, 2009

The dynamic DNA methylomes of double-stranded DNA viruses associated with human cancer

  • Agustin F. Fernandez
  • Cecilia Rosales
  • Pilar Lopez-Nieva
  • Osvaldo Graña
  • Esteban Ballestar
  • Santiago Ropero Jesus Espada Sonia A. Melo Amaia Lujambio Mario F. Fraga Irene Pino Biola Javierre Francisco J. Carmona Francesco Acquadro Renske D.M. Steenbergen Peter J.F. Snijders Chris J. Meijer Pascal Pineau Anne Dejean Belen Lloveras Gabriel Capella Josep Quer Maria Buti Juan-Ignacio Esteban Helena Allende Francisco Rodriguez-Frias Xavier Castellsague Janos Minarovits Jordi Ponce Daniela Capello Gianluca Gaidano Juan Cruz Cigudosa Gonzalo Gomez-Lopez David G. Pisano Alfonso Valencia Miguel Angel Piris
  • ... [+31 authors] ...,
  • Francesc X. Bosch
  • Ellen Cahir-McFarland
  • Elliott Kieff
  • Manel Esteller
  • First Published February 10, 2009
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