D
David R. Rank
Researcher at Pacific Biosciences
Publications - 51
Citations - 10750
David R. Rank is an academic researcher from Pacific Biosciences. The author has contributed to research in topics: Genome & Sequence assembly. The author has an hindex of 25, co-authored 50 publications receiving 8953 citations. Previous affiliations of David R. Rank include Amersham plc & University of Wisconsin-Madison.
Papers
More filters
Journal ArticleDOI
Real-Time DNA Sequencing from Single Polymerase Molecules
John Eid,Adrian Fehr,Jeremy Gray,Khai Luong,John Lyle,Geoff Otto,Paul Peluso,David R. Rank,Primo Baybayan,Brad Bettman,Arkadiusz Bibillo,Keith Bjornson,Bidhan Chaudhuri,Fred Christians,Ronald L. Cicero,Sonya Clark,Ravindra V. Dalal,Alex DeWinter,John Dixon,Mathieu Foquet,Alfred Gaertner,Paul Hardenbol,Cheryl Heiner,Kevin Hester,David P. Holden,Gregory J. Kearns,Xiangxu Kong,Ronald Kuse,Yves Lacroix,Steven Lin,Paul Lundquist,Congcong Ma,Patrick Marks,Mark Maxham,Devon Murphy,Insil Park,Thang Pham,Michael Phillips,Joy Roy,Robert Sebra,Gene Shen,Jon M. Sorenson,Austin B. Tomaney,Kevin Travers,Mark Trulson,John Vieceli,Jeffrey Wegener,Dawn Wu,Alicia Yang,Denis Zaccarin,Peter Zhao,Frank Zhong,Jonas Korlach,Stephen Turner +53 more
TL;DR: Single-molecule, real-time sequencing data obtained from a DNA polymerase performing uninterrupted template-directed synthesis using four distinguishable fluorescently labeled deoxyribonucleoside triphosphates (dNTPs) are presented.
Journal ArticleDOI
Phased diploid genome assembly with single-molecule real-time sequencing
Chen-Shan Chin,Paul Peluso,Fritz J. Sedlazeck,Maria Nattestad,Gregory T. Concepcion,Alicia Clum,Christopher Dunn,Ronan C. O'Malley,Rosa Figueroa-Balderas,Abraham Morales-Cruz,Grant R. Cramer,Massimo Delledonne,Chongyuan Luo,Joseph R. Ecker,Dario Cantu,David R. Rank,Michael C. Schatz,Michael C. Schatz +17 more
TL;DR: The open-source FALCON and FALcon-Unzip algorithms are introduced to assemble long-read sequencing data into highly accurate, contiguous, and correctly phased diploid genomes.
Journal ArticleDOI
Improved maize reference genome with single-molecule technologies
Yinping Jiao,Paul Peluso,Jinghua Shi,Tiffany Y. Liang,Michelle C. Stitzer,Bo Wang,Michael S. Campbell,Joshua C. Stein,Xuehong Wei,Chen-Shan Chin,Katherine E. Guill,Michael Regulski,Sunita Kumari,Andrew Olson,Jonathan I. Gent,Kevin L. Schneider,Thomas K. Wolfgruber,Michael R. May,Nathan M. Springer,Eric Antoniou,W. Richard McCombie,Gernot G. Presting,Michael D. McMullen,Jeffrey Ross-Ibarra,R. Kelly Dawe,Alex Hastie,David R. Rank,Doreen Ware,Doreen Ware +28 more
TL;DR: The assembly and annotation of a reference genome of maize is reported, using single-molecule real-time sequencing and high-resolution optical mapping to identify transposable element lineage expansions that are unique to maize.
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
Origins of the E. coli Strain Causing an Outbreak of Hemolytic–Uremic Syndrome in Germany
David A. Rasko,Dale R. Webster,Jason W. Sahl,Ali Bashir,Nadia Boisen,Flemming Scheutz,Ellen E. Paxinos,Robert Sebra,Chen-Shan Chin,Dimitris Iliopoulos,Aaron Klammer,Paul Peluso,Lawrence Lee,Andrey Kislyuk,James H. Bullard,Andrew Kasarskis,Susanna Wang,John Eid,David R. Rank,Julia C. Redman,Susan R. Steyert,Jakob Frimodt-Møller,Carsten Struve,Andreas Petersen,Karen A. Krogfelt,James P. Nataro,Eric E. Schadt,Matthew K. Waldor +27 more
TL;DR: The findings suggest that horizontal genetic exchange allowed for the emergence of the highly virulent Shiga-toxin-producing enteroaggregative E. coli O104:H4 strain that caused the German outbreak, and highlight the way in which the plasticity of bacterial genomes facilitates the emerged of new pathogens.