Search | Genome Research

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

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

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

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

Corrigendum: Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells

Jennifer Y. Tan
Tamara Sirey
Frantisek Honti
Bryony Graham
Allison Piovesan
Matthias Merkenschlager
Caleb Webber
Chris P. Ponting
Ana C. Marques

First Published September 1, 2015

Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells

Jennifer Y. Tan
Tamara Sirey
Frantisek Honti
Bryony Graham
Allison Piovesan
Matthias Merkenschlager
Caleb Webber
Chris P. Ponting
Ana C. Marques

First Published March 19, 2015

RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts

Yang I. Li
Luis Sanchez-Pulido
Wilfried Haerty
Chris P. Ponting

First Published December 18, 2014

Violation of the 12/23 rule of genomic V(D)J recombination is common in lymphocytes

Nicholas J. Parkinson
Matthew Roddis
Ben Ferneyhough
Gang Zhang
Adam J. Marsden
Siarhei Maslau Yasmin Sanchez-Pearson Thomas Barthlott Ian R. Humphreys Kristin Ladell
... [+5 authors] ...,
David A. Price
Chris P. Ponting
Georg Hollander
Michael D. Fischer

First Published November 3, 2014

Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia" > Population and single-cell genomics reveal the Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia

Stephen N. Sansom
Noriko Shikama-Dorn
Saule Zhanybekova
Gretel Nusspaumer
Iain C. Macaulay
Mary E. Deadman
Andreas Heger
Chris P. Ponting
Georg A. Holländer

First Published September 15, 2014

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

Preparation of high-quality next-generation sequencing libraries from picogram quantities of target DNA

Nicholas J. Parkinson
Siarhei Maslau
Ben Ferneyhough
Gang Zhang
Lorna Gregory
David Buck
Jiannis Ragoussis
Chris P. Ponting
Michael D. Fischer

First Published November 16, 2011

PRDM9 coincides with stabilization of the recombination landscape in the dog genome" > Death of PRDM9 coincides with stabilization of the recombination landscape in the dog genome

Erik Axelsson
Matthew T. Webster
Abhirami Ratnakumar
Chris P. Ponting
Kerstin Lindblad-Toh

First Published October 17, 2011

$What fraction of the human genome is functional?$

What fraction of the human genome is functional?

Chris P. Ponting
Ross C. Hardison

First Published August 29, 2011

Natural genetic variation caused by small insertions and deletions in the human genome

Ryan E. Mills
W. Stephen Pittard
Julienne M. Mullaney
Umar Farooq
Todd H. Creasy
Anup A. Mahurkar David M. Kemeza
... [+2 authors] ...,
Daniel S. Strassler
Chris P. Ponting
Caleb Webber
Scott E. Devine

First Published April 1, 2011

A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution

Sreeram V. Ramagopalan
Andreas Heger
Antonio J. Berlanga
Narelle J. Maugeri
Matthew R. Lincoln
Amy Burrell Lahiru Handunnetthi Adam E. Handel Giulio Disanto Sarah-Michelle Orton Corey T. Watson Julia M. Morahan
... [+7 authors] ...,
Gavin Giovannoni
Chris P. Ponting
George C. Ebers
Julian C. Knight

First Published August 24, 2010

Massive turnover of functional sequence in human and other mammalian genomes

Stephen Meader
Chris P. Ponting
Gerton Lunter

First Published August 6, 2010

Genome assembly quality: Assessment and improvement using the neutral indel model

Stephen Meader
LaDeana W. Hillier
Devin Locke
Chris P. Ponting
Gerton Lunter

First Published March 19, 2010

Reduced purifying selection prevails over positive selection in human copy number variant evolution

Duc-Quang Nguyen
Caleb Webber
Jayne Hehir-Kwa
Rolph Pfundt
Joris Veltman
Chris P. Ponting

First Published August 7, 2008

Defensins and the convergent evolution of platypus and reptile venom genes

Camilla M. Whittington
Anthony T. Papenfuss
Paramjit Bansal
Allan M. Torres
Emily S.W. Wong
Janine E. Deakin Tina Graves Amber Alsop Kyriena Schatzkamer Colin Kremitzki Chris P. Ponting
... [+6 authors] ...,
Peter Temple-Smith
Wesley C. Warren
Philip W. Kuchel
Katherine Belov

First Published May 7, 2008

Drosophila genomes" > Evolutionary rate analyses of orthologs and paralogs from 12 Drosophila genomes

Andreas Heger
Chris P. Ponting

First Published November 7, 2007

Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes" > An analysis of the gene complement of a marsupial, Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes

Leo Goodstadt
Andreas Heger
Caleb Webber
Chris P. Ponting

First Published May 10, 2007

Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs

Jasmina Ponjavic
Chris P. Ponting
Gerton Lunter

First Published March 26, 2007

Hotspots of mutation and breakage in dog and human chromosomes

Caleb Webber
Chris P. Ponting

First Published December 8, 2005

Comparative Evolutionary Genomics of Androgen-Binding Protein Genes

Richard D. Emes
Matthew C. Riley
Christina M. Laukaitis
Leo Goodstadt
Robert C. Karn
Chris P. Ponting

First Published July 15, 2004

Evolution and Comparative Genomics of Odorant- and Pheromone-Associated Genes in Rodents

Richard D. Emes
Scott A. Beatson
Chris P. Ponting
Leo Goodstadt

First Published April 1, 2004

Occurrence and Consequences of Coding Sequence Insertions and Deletions in Mammalian Genomes

Martin S. Taylor
Chris P. Ponting
Richard R. Copley

First Published April 1, 2004

Elevated Rates of Protein Secretion, Evolution, and Disease Among Tissue-Specific Genes

Eitan E. Winter
Leo Goodstadt
Chris P. Ponting

First Published January 5, 2004

Predicting Protein Cellular Localization Using a Domain Projection Method

Richard Mott
Jörg Schultz
Peer Bork
Chris P. Ponting

First Published August 1, 2002

Systematic Identification of Novel Protein Domain Families Associated with Nuclear Functions

Tobias Doerks
Richard R. Copley
Jörg Schultz
Chris P. Ponting
Peer Bork

First Published January 1, 2002

Drosophila melanogaster: Insights into Structure, Function, and Evolution" > Novel Protein Domains and Repeats in Drosophila melanogaster: Insights into Structure, Function, and Evolution

Chris P. Ponting
Richard Mott
Peer Bork
Richard R. Copley

First Published November 12, 2001

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Your search for returned 30 results

Highly accurate assembly polishing with DeepPolisher

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

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

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

Corrigendum: Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells

Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells

RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts

Violation of the 12/23 rule of genomic V(D)J recombination is common in lymphocytes

Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia" > Population and single-cell genomics reveal the Aire dependency, relief from Polycomb silencing, and distribution of self-antigen expression in thymic epithelia

GENCODE: The reference human genome annotation for The ENCODE Project

Preparation of high-quality next-generation sequencing libraries from picogram quantities of target DNA

PRDM9 coincides with stabilization of the recombination landscape in the dog genome" > Death of PRDM9 coincides with stabilization of the recombination landscape in the dog genome

What fraction of the human genome is functional?

Natural genetic variation caused by small insertions and deletions in the human genome

A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution

Massive turnover of functional sequence in human and other mammalian genomes

Genome assembly quality: Assessment and improvement using the neutral indel model

Reduced purifying selection prevails over positive selection in human copy number variant evolution

Defensins and the convergent evolution of platypus and reptile venom genes

Drosophila genomes" > Evolutionary rate analyses of orthologs and paralogs from 12 Drosophila genomes

Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes" > An analysis of the gene complement of a marsupial, Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes

Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs

Hotspots of mutation and breakage in dog and human chromosomes

Comparative Evolutionary Genomics of Androgen-Binding Protein Genes

Evolution and Comparative Genomics of Odorant- and Pheromone-Associated Genes in Rodents

Occurrence and Consequences of Coding Sequence Insertions and Deletions in Mammalian Genomes

Elevated Rates of Protein Secretion, Evolution, and Disease Among Tissue-Specific Genes

Predicting Protein Cellular Localization Using a Domain Projection Method

Systematic Identification of Novel Protein Domain Families Associated with Nuclear Functions

Drosophila melanogaster: Insights into Structure, Function, and Evolution" > Novel Protein Domains and Repeats in Drosophila melanogaster: Insights into Structure, Function, and Evolution

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Your search for returned 30 results