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Nikos C. Kyrpides
Researcher at Joint Genome Institute
Publications - 735
Citations - 73233
Nikos C. Kyrpides is an academic researcher from Joint Genome Institute. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 96, co-authored 711 publications receiving 62360 citations. Previous affiliations of Nikos C. Kyrpides include University of Crete & Oak Ridge National Laboratory.
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Journal ArticleDOI
Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains
Nikos C. Kyrpides,Philip Hugenholtz,Jonathan A. Eisen,Tanja Woyke,Markus Göker,Charles Thomas Parker,Rudolf Amann,Brian Beck,Patrick S. G. Chain,Jongsik Chun,Rita R. Colwell,Antoine Danchin,Peter Dawyndt,Tom Dedeurwaerdere,Edward F. DeLong,John C. Detter,Paul De Vos,Timothy J. Donohue,Xiu-Zhu Dong,Dusko Ehrlich,Claire M. Fraser,Richard A. Gibbs,Jack A. Gilbert,Paul Gilna,Frank Oliver Glöckner,Janet K. Jansson,Jay D. Keasling,Rob Knight,David P. Labeda,Alla Lapidus,Jung-Sook Lee,Wen-Jun Li,Juncai Ma,Victor M. Markowitz,Edward R. B. Moore,Mark Morrison,Folker Meyer,Karen E. Nelson,Moriya Ohkuma,Christos A. Ouzounis,Norman R. Pace,Julian Parkhill,Nan Qin,Ramon Rosselló-Móra,Johannes Sikorski,David Smith,M L Sogin,Rick Stevens,Uli Stingl,Ken-ichiro Suzuki,Dorothea Taylor,James M. Tiedje,Brian J. Tindall,Michael Wagner,George M. Weinstock,Jean Weissenbach,Owen White,Jun Wang,Lixin Zhang,Yu Guang Zhou,Dawn Field,William B. Whitman,George M. Garrity,Hans-Peter Klenk +63 more
TL;DR: This article proposed a systematic effort to produce a comprehensive genomic catalog of all cultured Bacteria and Archaea by sequencing, where available, the type strain of each species with a validly published name.
Journal ArticleDOI
Genomes OnLine database (GOLD) v.7: updates and new features
Supratim Mukherjee,Dimitri Stamatis,Jon Bertsch,Galina Ovchinnikova,Hema Y Katta,Alejandro Mojica,I-Min A. Chen,Nikos C. Kyrpides,T. B. K. Reddy +8 more
TL;DR: The current version of GOLD (v.7) has seen the number of projects and associated metadata increase exponentially over the years and the new features added over the last two years are highlighted.
Journal ArticleDOI
Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome.
Stephen Nayfach,David Paez-Espino,David Paez-Espino,Lee Call,Lee Call,Soo Jen Low,Hila Sberro,Natalia Ivanova,Natalia Ivanova,Amy D Proal,Michael A. Fischbach,Ami S. Bhatt,Philip Hugenholtz,Nikos C. Kyrpides,Nikos C. Kyrpides +14 more
TL;DR: The Metagenomic Gut Virus catalogue as discussed by the authors contains 189,680 genomes from 11,810 publicly available human stool metagenomes and identified 54,118 candidate viral species, 92% of which were not found in existing databases.
Journal ArticleDOI
Genome-Based Taxonomic Classification of Bacteroidetes.
Richard L. Hahnke,Jan P. Meier-Kolthoff,Marina García-López,Supratim Mukherjee,Marcel Huntemann,Natalia Ivanova,Tanja Woyke,Nikos C. Kyrpides,Hans-Peter Klenk,Markus Göker +9 more
TL;DR: A large collection of type-strain genomes from Bacteroidetes and closely related phyla are assessed based on the principles of phylogenetic classification and trees inferred from genome-scale data and corrected G+C content values have a significantly better fit to the phylogeny.
Journal ArticleDOI
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses.
David Paez-Espino,I. Min A. Chen,Krishna Palaniappan,Anna Ratner,Ken Chu,Ernest Szeto,Manoj Pillay,Jinghua Huang,Victor Markowitz,Torben Nielsen,Marcel Huntemann,T. B. K. Reddy,Georgios A. Pavlopoulos,Matthew B. Sullivan,Barbara J. Campbell,Feng Chen,Katherine D. McMahon,Steve J. Hallam,Vincent J. Denef,Ricardo Cavicchioli,Sean M. Caffrey,Wolfgang R. Streit,John Webster,Kim M. Handley,Ghasem Hosseini Salekdeh,Nicolas Tsesmetzis,João C. Setubal,Phillip B. Pope,Wen Tso Liu,Adam R. Rivers,Natalia Ivanova,Nikos C. Kyrpides +31 more
TL;DR: IMG/VR is presented, the largest publicly available database of 3908 isolate reference DNA viruses with 264 413 computationally identified viral contigs from >6000 ecologically diverse metagenomic samples, serving as an essential resource in the viral genomics community.