Search | Genome Research

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

Integrating genetic variation with deep learning provides context for variants impacting transcription factor binding during embryogenesis

Olga M. Sigalova
Mattia Forneris
Frosina Stojanovska
Bingqing Zhao
Rebecca R. Viales
Adam Rabinowitz
... [+1 authors] ...,
Fayrouz Hammal
Benoît Ballester
Judith B. Zaugg
Eileen E.M. Furlong

First Published April 15, 2025

Research

Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements

Fu Xiang Quah
Miguel Vasconcelos Almeida
Moritz Blumer
Chengwei Ulrika Yuan
Bettina Fischer
Kirsten See Ben Jackson Richard Zatha Bosco Rusuwa George F. Turner M. Emília Santos
... [+6 authors] ...,
Hannes Svardal
Martin Hemberg
Richard Durbin
Eric Miska

First Published April 10, 2025

Method

MCHelper automatically curates transposable element libraries across eukaryotic species

Simon Orozco-Arias
Pío Sierra
Richard Durbin
Josefa González

First Published December 9, 2024

Method

Ultrafast genome-wide inference of pairwise coalescence times

Regev Schweiger
Richard Durbin

First Published August 10, 2023

Research

Diversity, duplication, and genomic organization of homeobox genes in Lepidoptera

Peter O. Mulhair
Liam Crowley
Douglas H. Boyes
Amber Harper
Owen T. Lewis
Peter W.H. Holland Mark Blaxter Nova Mieszkowska Federica Di Palma Peter Holland Richard Durbin Thomas Richards Matthew Berriman Paul Kersey Peter Hollingsworth Willie Wilson Alex Twyford Ester Gaya Mara Lawniczak Owen Lewis Gavin Broad
... [+16 authors] ...,
Kevin Howe
Michelle Hart
Paul Flicek
Ian Barnes

First Published December 8, 2022

Research

The hourglass model of evolutionary conservation during embryogenesis extends to developmental enhancers with signatures of positive selection

Jialin Liu
Rebecca R. Viales
Pierre Khoueiry
James P. Reddington
Charles Girardot
Eileen E.M. Furlong
Marc Robinson-Rechavi

First Published July 15, 2021

Research

Cis-acting variation is common across regulatory layers but is often buffered during embryonic development" > Cis-acting variation is common across regulatory layers but is often buffered during embryonic development

Swann Floc'hlay
Emily S. Wong
Bingqing Zhao
Rebecca R. Viales
Morgane Thomas-Chollier
Denis Thieffry
David A. Garfield
Eileen E.M. Furlong

First Published December 11, 2020

Resource

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

Valerie A. Schneider
Tina Graves-Lindsay
Kerstin Howe
Nathan Bouk
Hsiu-Chuan Chen
Paul A. Kitts Terence D. Murphy Kim D. Pruitt Françoise Thibaud-Nissen Derek Albracht Robert S. Fulton Milinn Kremitzki Vincent Magrini Chris Markovic Sean McGrath Karyn Meltz Steinberg Kate Auger William Chow Joanna Collins Glenn Harden Timothy Hubbard Sarah Pelan Jared T. Simpson Glen Threadgold James Torrance Jonathan M. Wood Laura Clarke Sergey Koren Matthew Boitano Paul Peluso Heng Li Chen-Shan Chin Adam M. Phillippy Richard Durbin
... [+29 authors] ...,
Richard K. Wilson
Paul Flicek
Evan E. Eichler
Deanna M. Church

First Published April 10, 2017

Method

Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes

Dirk D. Dolle
Zhicheng Liu
Matthew Cotten
Jared T. Simpson
Zamin Iqbal
Richard Durbin
Shane A. McCarthy
Thomas M. Keane

First Published December 16, 2016

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Your search for returned 26 results

Method

Highly accurate assembly polishing with DeepPolisher

Research

Integrating genetic variation with deep learning provides context for variants impacting transcription factor binding during embryogenesis

Research

Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements

Method

MCHelper automatically curates transposable element libraries across eukaryotic species

Method

Ultrafast genome-wide inference of pairwise coalescence times

Research

Diversity, duplication, and genomic organization of homeobox genes in Lepidoptera

Research

The hourglass model of evolutionary conservation during embryogenesis extends to developmental enhancers with signatures of positive selection

Research

Cis-acting variation is common across regulatory layers but is often buffered during embryonic development" > Cis-acting variation is common across regulatory layers but is often buffered during embryonic development

Resource

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

Method

Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes

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