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Resource

Single-nucleus multiomic profiling of the aging mouse substantia nigra reveals conserved gene alterations linked to Parkinson's disease

  • Kangli Wang
  • Weikun Xia
  • Yingli Gu
  • Songpeng Zu
  • Qian Yang
  • Maria Luisa Amaral Yaozhi Wang
  • ... [+2 authors] ...,
  • Allen Wang
  • Xiang-Dong Fu
  • William C. Mobley
  • Bing Ren
  • First Published March 4, 2026
Method

A new class of temporarily phenotypic enhancers identified by CRISPR/Cas9-mediated genetic screening

  • Yarui Diao
  • Bin Li
  • Zhipeng Meng
  • Inkyung Jung
  • Ah Young Lee
  • Jesse Dixon
  • ... [+1 authors] ...,
  • Lenka Maliskova
  • Kun-liang Guan
  • Yin Shen
  • Bing Ren
  • First Published January 26, 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

Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis

  • Catia Attanasio
  • Alex S. Nord
  • Yiwen Zhu
  • Matthew J. Blow
  • Simon C. Biddie
  • Eric M. Mendenhall Jesse Dixon Crystal Wright Roya Hosseini Jennifer A. Akiyama Amy Holt Ingrid Plajzer-Frick Malak Shoukry Veena Afzal Bing Ren
  • ... [+10 authors] ...,
  • Bradley E. Bernstein
  • Edward M. Rubin
  • Axel Visel
  • Len A. Pennacchio
  • First Published April 21, 2014
Research

cis-mediated silencing in somatic cells" > Systematic mapping of occluded genes by cell fusion reveals prevalence and stability of cis-mediated silencing in somatic cells

  • Timothy J. Looney
  • Li Zhang
  • Chih-Hsin Chen
  • Jae Hyun Lee
  • Sheila Chari
  • Frank Fuxiang Mao Mattia Pelizzola Lu Zhang Ryan Lister Samuel W. Baker Croydon J. Fernandes Jedidiah Gaetz Kara M. Foshay Kayla L. Clift Zhenyu Zhang Wei-Qiang Li Eric J. Vallender Ulrich Wagner Jane Yuxia Qin Katelyn J. Michelini Branimir Bugarija Donghyun Park Emmanuel Aryee Thomas Stricker Jie Zhou Kevin P. White Bing Ren
  • ... [+22 authors] ...,
  • Gary P. Schroth
  • Joseph R. Ecker
  • Andy Peng Xiang
  • Bruce T. Lahn
  • First Published December 5, 2013
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
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
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
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
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