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Method

Highly accurate assembly polishing with DeepPolisher

  • Mira Mastoras
  • Mobin Asri
  • Lucas Brambrink
  • Prajna Hebbar
  • Alexey Kolesnikov
  • Daniel E. Cook Maria Nattestad Julian Lucas Taylor S. Won Pi-Chuan Chang Andrew Carroll Benedict Paten Kishwar Shafin Ahmad Abou Tayoun Derek Albracht Jamie Allen Alawi A. Alsheikh-Ali Casey Andrews Dmitry Antipov Lucinda Antonacci-Fulton Mobin Asri Marcelo Ayllon Jennifer R. Balacco Edward A. Belter Halle D. Bender Andrew P. Blair Silvia Buonaiuto Davide Bolognini Katherine E. Bonini Christina Boucher Guillaume Bourque Shuo Cao Andrew Carroll Ann M. Mc Cartney Monika Cechova Pi-Chuan Chang Xian Chang Jitender Cheema Haoyu Cheng Claudio Ciofi Sarah Cody Vincenza Colonna Holland C. Conwell Robert Cook-Deegan Mark Diekhans Maria Angela Diroma Daniel Doerr Zheng Dong Richard Durbin Jana Ebler Evan E Eichler Jordan M. Eizenga Parsa Eskandar Eddie Ferro Anna-Sophie Fiston-Lavier Sarah M. Ford Willard W. Ford Giulio Formenti Adam Frankish Mallory A. Freeberg Qichen Fu Stephanie M. Fullerton Robert S. Fulton Yan Gao Gage H. Garcia Obed A. Garcia Joshua M.V. Gardner Shilpa Garg Erik Garrison Nanibaa' A. Garrison John Garza Mohammadmersad Ghorbani Tina Graves-Lindsay Richard E. Green Cristian Groza Andrea Guarracino Melissa Gymrek Leanne Haggerty Ira M. Hall Nancy F. Hansen Mohammad Amiruddin Hashmi Maximilian Haeussler David Haussler Prajna Hebbar Peter Heringer Glenn Hickey Todd L. Hillaker S. Nakib Hossain Neng Huang Sarah E. Hunt Toby Hunt Nafiseh Jafarzadeh Nivesh Jain Erich D. Jarvis Juan Jiang Jonathan LoTempio Eimear E. Kenny Juhyun Kim Bonhwang Koo Sergey Koren Milinn Kremitzki Ben Langmead Xiaoyu Zhuo Heather A. Lawson Daofeng Li Heng Li Wen-Wei Liao Jiadong Lin Tianjie Liu Glennis A. Logsdon Ryan Lorig-Roach Hailey Loucks Jane E. Loveland Jianguo Lu Shuangjia Lu Julian K. Lucas Juan F. Macias-Velasco Maximillian G. Marin Franco L. Marsico Kateryna D. Makova Christopher Markovic Tobias Marschall Fergal J. Martin Mira Mastoras Capucine Mayoud Brandy McNulty Jack A. Medico Julian M. Menendez Karen H. Miga Anna Minkina Matthew W. Mitchell Saswat K. Mohanty Younes Mokrab Jean Monlong Shabir Moosa Avelina Moreno-Ochando Shinichi Morishita Jonathan M. Mudge Katherine M. Munson Njagi Mwaniki Nasna Nassir Chiara Natali Shloka Negi Lingbin Ni Adam M. Novak Chie Owa Sadye Paez Benedict Paten Hiram Clawson Clelia Peano Adam M. Phillippy Brandon D. Pickett Laura Pignata Nadia Pisanti David Porubsky Pjotr Prins Anandi Radhakrishnan Brian J. Raney Mikko Rautiainen Alessandro Raveane Luyao Ren Arang Rhie Farnaz Salehi Samuel Sacco Michael C. Schatz Laura B. Scheinfeldt Aarushi Sehgal William E. Seligmann Mahsa Shabani Kishwar Shafin Shadi Shahatit Ruhollah Shemirani Vikram S. Shivakumar Swati Sinha Jouni Sirén Linnéa Smeds Steven J. Solar Marco Sollitto Nicole Soranzo Andrew B. Stergachis Marie-Marthe Suner Yoshihiko Suzuki Arda Söylev Jack A.S. Tierney Chad Tomlinson Francesca Floriana Tricomi Mohammed Uddin Matteo Tommaso Ungaro Rahul Varki Flavia Villani Mitchell R. Vollger Brian P. Walenz Charles Wang Lisa E. Wang Ting Wang Aaron M. Wenger Conor V. Whelan Zilan Xin Zheng Xu Kai Ye DongAhn Yoo
  • ... [+196 authors] ...,
  • Wenjin Zhang
  • Ying Zhou
  • Ivo Violich
  • Giulia Zunino
  • First Published May 19, 2025
Research

HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes" > A HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes

  • Lei Zhang
  • Anshun He
  • Bohan Chen
  • Jinfang Bi
  • Jun Chen
  • Dianhao Guo Yuyang Qian Wenbin Wang Tengfei Shi Zhongfang Zhao
  • ... [+5 authors] ...,
  • Jiandang Shi
  • Woojin An
  • Frank Attenello
  • Wange Lu
  • First Published January 17, 2020
Resource

Systematic genome editing of the genes on zebrafish Chromosome 1 by CRISPR/Cas9

  • Yonghua Sun
  • Bo Zhang
  • Lingfei Luo
  • De-Li Shi
  • Han Wang
  • Zongbin Cui Honghui Huang Ying Cao Xiaodong Shu Wenqing Zhang Jianfeng Zhou Yun Li Jiulin Du Qingshun Zhao Jun Chen Hanbing Zhong Tao P. Zhong Li Li Jing-Wei Xiong Jinrong Peng Wuhan Xiao Jian Zhang Jihua Yao Zhan Yin Xianming Mo Gang Peng Jun Zhu Yan Chen Yong Zhou Dong Liu Weijun Pan Yiyue Zhang Hua Ruan Feng Liu Zuoyan Zhu Anming Meng The ZAKOC Consortium Yonghua Sun Luyuan Pan Houpeng Wang Weixun Xie Mudan He Ding Ye Kuoyu Li Feng Xiong Liyue Liu Linglu Li Yun Zhang Bo Zhang Da Liu Zhenchao Cheng Yingying Hu Qian Wu Zhou Luo Yutian Zhang Yingdan Wu Wenyuan Li Lingfei Luo Jianlong Ma Dashuang Mo Pengcheng Cai Jinzi Chen Junhui Sun Yang Zhou Chuan Wu Rui Ni De-Li Shi Ming Shao Yan-Jun Zhang Li-Jun Feng Xiao-Ning Cheng Ji-Tong Li Yan-Yi Xing Yan Zhang Ya-Ping Meng Bei-Bei Yu Han Wang Jian Huang Shuqing Zhang Cheng Ji Yicheng Tan Jingjing Wang Fanmiao Zhang Mingyong Wang Guodong Huang Zhaomin Zhong Wei Zhang Zongbin Cui Yong Long Guili Song Xiaohui Li Xixi Li Kai Chen Jing Ren Junjun Yan Qing Li Honghui Huang Hua Ruan Shicheng Zhu Xuejiao Chen Jingjing Pan Faming Jiang Jiehui Chen Chao Huang Guoping Dong Xiaogui Yi Ying Cao Ruikun Hu Weilai Huang Jiangfang Liu Hong WangXiao Dong Shu Jianhong Xia Shaoyang Zhao Pengtao Wang Xiuhua Wu Wenqing Zhang Yiyue Zhang Mengchang Xu Wei Liu Zhibing Huang Qing Lin Mei Wu Jianfeng Zhou Aibo Sheng Peipei Tang Xiaoxia Gong Wei Mou Congcong Zu Yun Li Ling Lu Yunzhang Liu Xiaozhi Rong Jianyang Chen Jiulin Du Jiwen Bu Xufei Du Tingting Liu Shanye Gu Qingshun Zhao Zhangji Dong Xiaohua Dong Shasha Cao Yunyun Yue Chun Gu Meijing Liu Jun Chen Hongjian Gong Hanbing Zhong Xuanjun Yang Jiahao Chen Qiushi Xu Tao P. Zhong Daqin Jin Peilu She Jianjian Sun Kaa Seng Lai Li Li Yu Zhang Yanyan Shi Fangying Zhao Jing-Wei Xiong Meijun Pang Lu Gao Lei Lei Jinrong Peng Jane Lo Wuhan Xiao Xiaolian Cai Gang Ouyang Jian Zhang Weirui Ma Liyun Miao Jihua Yao Yu Hu Zhan Yin Xianming Mo Xue Li Gang Peng Cuizhen Zhang Fenghua Wang Jun Zhu Ruimeng Yang Hao Yuan Yan Chen Yi Pan Yong Zhou Dong Liu Feng Zhao Weijun Pan Feng Liu Yanyan Ding Yuanyuan Xue Lu Wang Yifan Zhang Dongyuan Ma Xinyan Lu Shuai Gao Jun Xia Zuoyan Zhu Anming Meng Xingfeng Liu Juhui Qiu Bo Gong Luxi Chen Cong Xiong Likun Yao
  • ... [+202 authors] ...,
  • Cencan Xing
  • Yixia Wang
  • Weimin Shen
  • Jiawei Sun
  • First Published December 12, 2019
Resource

A chromosome-level assembly of the Atlantic herring genome—detection of a supergene and other signals of selection

  • Mats E. Pettersson
  • Christina M. Rochus
  • Fan Han
  • Junfeng Chen
  • Jason Hill
  • Ola Wallerman Guangyi Fan Xiaoning Hong Qiwu Xu He Zhang Shanshan Liu Xin Liu Leanne Haggerty Toby Hunt Fergal J. Martin
  • ... [+10 authors] ...,
  • Paul Flicek
  • Ignas Bunikis
  • Arild Folkvord
  • Leif Andersson
  • First Published October 24, 2019
Resource

Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci

  • Jonathan M. Mudge
  • Irwin Jungreis
  • Toby Hunt
  • Jose Manuel Gonzalez
  • James C. Wright
  • Mike Kay Claire Davidson Stephen Fitzgerald Ruth Seal Susan Tweedie Liang He Robert M. Waterhouse Yue Li
  • ... [+8 authors] ...,
  • Elspeth Bruford
  • Jyoti S. Choudhary
  • Adam Frankish
  • Manolis Kellis
  • First Published September 19, 2019
Resource

The pig X and Y Chromosomes: structure, sequence, and evolution

  • Benjamin M. Skinner
  • Carole A. Sargent
  • Carol Churcher
  • Toby Hunt
  • Javier Herrero
  • Jane E. Loveland Matt Dunn Sandra Louzada Beiyuan Fu William Chow James Gilbert Siobhan Austin-Guest Kathryn Beal Denise Carvalho-Silva William Cheng Daria Gordon Darren Grafham Matt Hardy Jo Harley Heidi Hauser Philip Howden Kerstin Howe Kim Lachani Peter J.I. Ellis Daniel Kelly Giselle Kerry James Kerwin Bee Ling Ng Glen Threadgold Thomas Wileman Jonathan M.D. Wood
  • ... [+26 authors] ...,
  • Fengtang Yang
  • Jen Harrow
  • Nabeel A. Affara
  • Chris Tyler-Smith
  • First Published November 11, 2015
Resource

GENCODE: The reference human genome annotation for The ENCODE Project

  • Jennifer Harrow
  • Adam Frankish
  • Jose M. Gonzalez
  • Electra Tapanari
  • Mark Diekhans
  • Felix Kokocinski Bronwen L. Aken Daniel Barrell Amonida Zadissa Stephen Searle If Barnes Alexandra Bignell Veronika Boychenko Toby Hunt Mike Kay Gaurab Mukherjee Jeena Rajan Gloria Despacio-Reyes Gary Saunders Charles Steward Rachel Harte Michael Lin Cédric Howald Andrea Tanzer Thomas Derrien Jacqueline Chrast Nathalie Walters Suganthi Balasubramanian Baikang Pei Michael Tress Jose Manuel Rodriguez Iakes Ezkurdia Jeltje van Baren Michael Brent David Haussler Manolis Kellis Alfonso Valencia
  • ... [+32 authors] ...,
  • Alexandre Reymond
  • Mark Gerstein
  • Roderic Guigó
  • Tim J. Hubbard
  • First Published September 5, 2012
Research

The human gut virome: Inter-individual variation and dynamic response to diet

  • Samuel Minot
  • Rohini Sinha
  • Jun Chen
  • Hongzhe Li
  • Sue A. Keilbaugh
  • Gary D. Wu
  • James D. Lewis
  • Frederic D. Bushman
  • First Published August 31, 2011
Methods

Scanning the human genome at kilobase resolution

  • Jun Chen
  • Yeong C. Kim
  • Yong-Chul Jung
  • Zhenyu Xuan
  • Geoff Dworkin
  • Yanming Zhang
  • Michael Q. Zhang
  • San Ming Wang
  • First Published February 21, 2008
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