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Your search for returned 25 results

Method

Deciphering context-specific gene programs from single-cell and spatial transcriptomics data with DeCEP

Lin Li
Xianbin Su
Ze-Guang Han

First Published August 21, 2025

Research

A high-resolution gene expression atlas links dedicated meristem genes to key architectural traits

Steffen Knauer
Marie Javelle
Lin Li
Xianran Li
Xiaoli Ma
Kokulapalan Wimalanathan Sunita Kumari Robyn Johnston Samuel Leiboff Robert Meeley Patrick S. Schnable Doreen Ware Carolyn Lawrence-Dill
... [+8 authors] ...,
Jianming Yu
Gary J. Muehlbauer
Michael J. Scanlon
Marja C.P. Timmermans

First Published November 19, 2019

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

Whole-genome sequencing identifies recurrent mutations in hepatocellular carcinoma

Zhengyan Kan
Hancheng Zheng
Xiao Liu
Shuyu Li
Thomas D. Barber
Zhuolin Gong Huan Gao Ke Hao Melinda D. Willard Jiangchun Xu Robert Hauptschein Paul A. Rejto Julio Fernandez Guan Wang Qinghui Zhang Bo Wang Ronghua Chen Jian Wang Nikki P. Lee Wei Zhou Zhao Lin Zhiyu Peng Kang Yi Shengpei Chen Lin Li Xiaomei Fan Jie Yang Rui Ye Jia Ju Kai Wang Heather Estrella Shibing Deng Ping Wei Ming Qiu Isabella H. Wulur Jiangang Liu Mariam E. Ehsani Chunsheng Zhang Andrey Loboda Wing Kin Sung Amit Aggarwal Ronnie T. Poon Sheung Tat Fan Jun Wang James Hardwick Christoph Reinhard
... [+41 authors] ...,
Hongyue Dai
Yingrui Li
John M. Luk
Mao Mao

First Published June 20, 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

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

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

Letter

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

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