G
Gary J. Olsen
Researcher at University of Illinois at Urbana–Champaign
Publications - 133
Citations - 49718
Gary J. Olsen is an academic researcher from University of Illinois at Urbana–Champaign. The author has contributed to research in topics: Ribosomal RNA & Genome. The author has an hindex of 69, co-authored 132 publications receiving 44988 citations. Previous affiliations of Gary J. Olsen include University of California, San Diego & Kobe University.
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Journal ArticleDOI
The RAST Server: Rapid Annotations using Subsystems Technology
Ramy K. Aziz,Ramy K. Aziz,Daniela Bartels,Aaron A. Best,Matthew DeJongh,Terrence Disz,Terrence Disz,Robert Edwards,Kevin Formsma,Svetlana Gerdes,Elizabeth M. Glass,Michael Kubal,Folker Meyer,Folker Meyer,Gary J. Olsen,Gary J. Olsen,Robert Olson,Robert Olson,Andrei L. Osterman,Ross Overbeek,Leslie Klis McNeil,Daniel Paarmann,Tobias Paczian,Bruce Parrello,Gordon D. Pusch,Claudia I. Reich,Rick Stevens,Rick Stevens,Olga Vassieva,Veronika Vonstein,Andreas Wilke,Olga Zagnitko +31 more
TL;DR: A fully automated service for annotating bacterial and archaeal genomes that identifies protein-encoding, rRNA and tRNA genes, assigns functions to the genes, predicts which subsystems are represented in the genome, uses this information to reconstruct the metabolic network and makes the output easily downloadable for the user.
Journal ArticleDOI
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
Ross Overbeek,Robert Olson,Gordon D. Pusch,Gary J. Olsen,James J. Davis,Terry Disz,Robert Edwards,Svetlana Gerdes,Bruce Parrello,Maulik Shukla,Veronika Vonstein,Alice R. Wattam,Fangfang Xia,Rick Stevens +13 more
TL;DR: The interconnectedness of the SEED database and RAST, the RAST annotation pipeline and updates to both resources are described.
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Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses
TL;DR: A protocol is described for rapidly generating large blocks of 16S rRNA sequence data without isolation of the 16 S rRNA or cloning of its gene, and its phylogenetic usefulness is evaluated by examination of several 17S rRNAs whose gene sequences are known.
Journal ArticleDOI
The rdp (ribosomal database project)
Bonnie L. Maidak,Gary J. Olsen,Niels Larsen,Ross Overbeek,Michael J. McCaughey,Carl R. Woese +5 more
TL;DR: The Ribosomal Database Project (RDP-II), previously described by Maidak et al. (2000), continued during the past year to add new rRNA sequences to the aligned data and to improve the analysis commands.
Journal ArticleDOI
The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes
Ross Overbeek,Tadhg P. Begley,Ralph Butler,Jomuna V. Choudhuri,Han-Yu Chuang,Matthew P. Cohoon,Valérie de Crécy-Lagard,Naryttza N. Diaz,Terry Disz,Robert D. Edwards,Robert D. Edwards,Michael Fonstein,Ed D. Frank,Svetlana Gerdes,Elizabeth M. Glass,Alexander Goesmann,Andrew C. Hanson,Dirk Iwata-Reuyl,Roy A. Jensen,Neema Jamshidi,Lutz Krause,Michael Kubal,Niels Bent Larsen,Burkhard Linke,Alice C. McHardy,Folker Meyer,Heiko Neuweger,Gary J. Olsen,Robert Olson,Andrei L. Osterman,Vasiliy A. Portnoy,Gordon D. Pusch,Dmitry A. Rodionov,Christian Rückert,Jason Steiner,Rick Stevens,Rick Stevens,Ines Thiele,Olga Vassieva,Yuzhen Ye,Olga Zagnitko,Veronika Vonstein +41 more
TL;DR: The subsystem approach is described, the first release of the growing library of populated subsystems is offered, and the SEED is the first annotation environment that supports this model of annotation.