R
Richard Hall
Researcher at Pacific Biosciences
Publications - 37
Citations - 4345
Richard Hall is an academic researcher from Pacific Biosciences. The author has contributed to research in topics: Genome & Genomics. The author has an hindex of 19, co-authored 35 publications receiving 2201 citations. Previous affiliations of Richard Hall include National Institutes of Health.
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Journal ArticleDOI
Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome.
Aaron M. Wenger,Paul Peluso,William J Rowell,Pi-Chuan Chang,Richard Hall,Gregory T. Concepcion,Jana Ebler,Arkarachai Fungtammasan,Alexander Kolesnikov,Nathan D. Olson,Armin Töpfer,Michael Alonge,Medhat Mahmoud,Yufeng Qian,Chen-Shan Chin,Adam M. Phillippy,Michael C. Schatz,Gene Myers,Mark A. DePristo,Jue Ruan,Tobias Marschall,Tobias Marschall,Fritz J. Sedlazeck,Justin M. Zook,Heng Li,Sergey Koren,Andrew Carroll,David R. Rank,Michael W. Hunkapiller +28 more
TL;DR: The optimization of circular consensus sequencing (CCS) is reported to improve the accuracy of single-molecule real-time (SMRT) sequencing (PacBio) and generate highly accurate (99.8%) long high-fidelity (HiFi) reads with an average length of 13.5 kilobases (kb).
Journal ArticleDOI
Towards complete and error-free genome assemblies of all vertebrate species
Arang Rhie,Shane A. McCarthy,Shane A. McCarthy,Olivier Fedrigo,Joana Damas,Giulio Formenti,Sergey Koren,Marcela Uliano-Silva,William Chow,Arkarachai Fungtammasan,J. H. Kim,Chul Hee Lee,Byung June Ko,Mark Chaisson,Gregory Gedman,Lindsey J. Cantin,Françoise Thibaud-Nissen,Leanne Haggerty,Iliana Bista,Iliana Bista,Michelle Smith,Bettina Haase,Jacquelyn Mountcastle,Sylke Winkler,Sylke Winkler,Sadye Paez,Jason T. Howard,Sonja C. Vernes,Sonja C. Vernes,Sonja C. Vernes,Tanya M. Lama,Frank Grützner,Wesley C. Warren,Christopher N. Balakrishnan,Dave W Burt,Jimin George,Matthew T. Biegler,David Iorns,Andrew Digby,Daryl Eason,Bruce C. Robertson,Taylor Edwards,Mark Wilkinson,George F. Turner,Axel Meyer,Andreas F. Kautt,Andreas F. Kautt,Paolo Franchini,H. William Detrich,Hannes Svardal,Hannes Svardal,Maximilian Wagner,Gavin J. P. Naylor,Martin Pippel,Milan Malinsky,Milan Malinsky,Mark Mooney,Maria Simbirsky,Brett T. Hannigan,Trevor Pesout,Marlys L. Houck,Ann C Misuraca,Sarah B. Kingan,Richard Hall,Zev N. Kronenberg,Ivan Sović,Christopher Dunn,Zemin Ning,Alex Hastie,Joyce V. Lee,Siddarth Selvaraj,Richard E. Green,Nicholas H. Putnam,Ivo Gut,Jay Ghurye,Erik Garrison,Ying Sims,Joanna Collins,Sarah Pelan,James Torrance,Alan Tracey,Jonathan Wood,Robel E. Dagnew,Dengfeng Guan,Dengfeng Guan,Sarah E. London,David F. Clayton,Claudio V. Mello,Samantha R. Friedrich,Peter V. Lovell,Ekaterina Osipova,Farooq O. Al-Ajli,Farooq O. Al-Ajli,Simona Secomandi,Heebal Kim,Constantina Theofanopoulou,Michael Hiller,Yang Zhou,Robert S. Harris,Kateryna D. Makova,Paul Medvedev,Jinna Hoffman,Patrick Masterson,Karen Clark,Fergal J. Martin,Kevin L. Howe,Paul Flicek,Brian P. Walenz,Woori Kwak,Hiram Clawson,Mark Diekhans,Luis R Nassar,Benedict Paten,Robert H. S. Kraus,Robert H. S. Kraus,Andrew J. Crawford,M. Thomas P. Gilbert,M. Thomas P. Gilbert,Guojie Zhang,Byrappa Venkatesh,Robert W. Murphy,Klaus-Peter Koepfli,Beth Shapiro,Beth Shapiro,Warren E. Johnson,Warren E. Johnson,Federica Di Palma,Tomas Marques-Bonet,Emma C. Teeling,Tandy Warnow,Jennifer A. Marshall Graves,Oliver A. Ryder,Oliver A. Ryder,David Haussler,Stephen J. O'Brien,Jonas Korlach,Harris A. Lewin,Kerstin Howe,Eugene W. Myers,Eugene W. Myers,Richard Durbin,Richard Durbin,Adam M. Phillippy,Erich D. Jarvis,Erich D. Jarvis +144 more
TL;DR: The Vertebrate Genomes Project (VGP) as mentioned in this paper is an international effort to generate high quality, complete reference genomes for all of the roughly 70,000 extant vertebrate species and to help to enable a new era of discovery across the life sciences.
Posted ContentDOI
Towards complete and error-free genome assemblies of all vertebrate species
Arang Rhie,Shane A. McCarthy,Olivier Fedrigo,Joana Damas,Giulio Formenti,Sergey Koren,Marcela Uliano-Silva,William Chow,Arkarachai Fungtammasan,Gregory Gedman,Lindsey J. Cantin,Françoise Thibaud-Nissen,Leanne Haggerty,Chul Hee Lee,Byung June Ko,J. H. Kim,Iliana Bista,Michelle Smith,Bettina Haase,Jacquelyn Mountcastle,Sylke Winkler,Sadye Paez,Jason T. Howard,Sonja C. Vernes,Tanya M. Lama,Frank Grützner,Wesley C. Warren,Christopher N. Balakrishnan,Dave W Burt,Jimin George,Matthew T. Biegler,David Iorns,Andrew Digby,Daryl Eason,Taylor Edwards,Mark Wilkinson,George F. Turner,Axel Meyer,Andreas F. Kautt,Paolo Franchini,H. William Detrich,Hannes Svardal,Maximilian Wagner,Gavin J. P. Naylor,Martin Pippel,Milan Malinsky,Mark Mooney,Maria Simbirsky,Brett T. Hannigan,Trevor Pesout,Marlys L. Houck,Ann C Misuraca,Sarah B. Kingan,Richard Hall,Zev N. Kronenberg,Jonas Korlach,Ivan Sović,Christopher Dunn,Zemin Ning,Alex Hastie,Joyce V. Lee,Siddarth Selvaraj,Richard E. Green,Nicholas H. Putnam,Jay Ghurye,Erik Garrison,Ying Sims,Joanna Collins,Sarah Pelan,James Torrance,Alan Tracey,Jonathan Wood,Dengfeng Guan,Sarah E. London,David F. Clayton,Claudio V. Mello,Samantha R. Friedrich,Peter V. Lovell,Ekaterina Osipova,Farooq O. Al-Ajli,Simona Secomandi,Heebal Kim,Constantina Theofanopoulou,Yang Zhou,Robert S. Harris,Kateryna D. Makova,Paul Medvedev,Jinna Hoffman,Patrick Masterson,Karen Clark,Fergal J. Martin,Kevin L. Howe,Paul Flicek,Brian P. Walenz,Woori Kwak,Hiram Clawson,Mark Diekhans,Luis R Nassar,Benedict Paten,Robert H. S. Kraus,Harris A. Lewin,Andrew J. Crawford,M. Thomas P. Gilbert,Guojie Zhang,Byrappa Venkatesh,Robert W. Murphy,Klaus-Peter Koepfli,Beth Shapiro,Warren E. Johnson,Federica Di Palma,Tomas Marques-Bonet,Emma C. Teeling,Tandy Warnow,Jennifer A. Marshall Graves,Oliver A. Ryder,David Haussler,Stephen J. O'Brien,Kerstin Howe,Eugene W. Myers,Richard Durbin,Adam M. Phillippy,Erich D. Jarvis +121 more
TL;DR: The Vertebrate Genomes Project is embarked on, an effort to generate high-quality, complete reference genomes for all ~70,000 extant vertebrate species and help enable a new era of discovery across the life sciences.
Journal ArticleDOI
Improved reference genome of Aedes aegypti informs arbovirus vector control
Benjamin J. Matthews,Benjamin J. Matthews,Olga Dudchenko,Olga Dudchenko,Sarah B. Kingan,Sergey Koren,Igor Antoshechkin,Jacob E. Crawford,William J. Glassford,Margaret Herre,Seth Redmond,Seth Redmond,Noah H. Rose,Gareth D. Weedall,Gareth D. Weedall,Yang Wu,Yang Wu,Sanjit S. Batra,Sanjit S. Batra,Carlos A Brito-Sierra,Steven D. Buckingham,Corey L. Campbell,Saki Chan,Eric Cox,Benjamin R. Evans,Thanyalak Fansiri,Igor Filipović,Albin Fontaine,Andrea Gloria-Soria,Andrea Gloria-Soria,Richard Hall,Vinita Joardar,Andrew K. Jones,Raissa G.G. Kay,Vamsi K. Kodali,Joyce Lee,Gareth J Lycett,Sara N. Mitchell,Jill Muehling,Michael R. Murphy,Arina D. Omer,Arina D. Omer,Frederick A. Partridge,Paul Peluso,Aviva Presser Aiden,Aviva Presser Aiden,Vidya Ramasamy,Gordana Rašić,Sourav Roy,Karla Saavedra-Rodriguez,Shruti Sharan,Atashi Sharma,Melissa Smith,Joe Turner,Allison M Weakley,Zhilei Zhao,Omar S. Akbari,William C. Black,Han Cao,Alistair C. Darby,Catherine A. Hill,J. Spencer Johnston,Terence Murphy,Alexander S. Raikhel,David B. Sattelle,Igor V. Sharakhov,Igor V. Sharakhov,Bradley J. White,Li Zhao,Erez Lieberman Aiden,Erez Lieberman Aiden,Erez Lieberman Aiden,Richard S. Mann,Louis Lambrechts,Louis Lambrechts,Jeffrey R. Powell,Maria V. Sharakhova,Maria V. Sharakhova,Zhijian Tu,Hugh M. Robertson,Carolyn S. McBride,Alex Hastie,Jonas Korlach,Daniel E. Neafsey,Daniel E. Neafsey,Adam M. Phillippy,Leslie B. Vosshall,Leslie B. Vosshall +87 more
TL;DR: An improved, fully re-annotated Aedes aegypti genome assembly (AaegL5) provides insights into the sex-determining M locus, chemosensory systems that help mosquitoes to hunt humans and loci involved in insecticide resistance and will help to generate intervention strategies to fight this deadly disease vector.
Journal ArticleDOI
De novo assembly of the cattle reference genome with single-molecule sequencing.
Benjamin D. Rosen,Derek M. Bickhart,Robert D. Schnabel,Sergey Koren,Christine G. Elsik,Elizabeth Tseng,Troy N. Rowan,Wai Yee Low,Aleksey V. Zimin,Christine Couldrey,Richard Hall,Wenli Li,Arang Rhie,Jay Ghurye,Stephanie D. McKay,Françoise Thibaud-Nissen,Jinna Hoffman,Brenda M. Murdoch,Warren M Snelling,Tara G. McDaneld,John A. Hammond,John C. Schwartz,Wilson Nandolo,Wilson Nandolo,Darren E. Hagen,Christian Dreischer,Sebastian J. Schultheiss,Steven G. Schroeder,Adam M. Phillippy,John B. Cole,Curtis P. Van Tassell,George E. Liu,Timothy P. L. Smith,Juan F. Medrano +33 more
TL;DR: It is demonstrated that improved continuity of assembled sequence warrants the adoption of ARS-UCD1.2 as the new cattle reference genome and that increased assembly accuracy will benefit future research on this species.