O
Olga Zagnitko
Researcher at University of Texas Southwestern Medical Center
Publications - 10
Citations - 11918
Olga Zagnitko is an academic researcher from University of Texas Southwestern Medical Center. The author has contributed to research in topics: Shewanella & Gene. The author has an hindex of 8, co-authored 9 publications receiving 10439 citations.
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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 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.
Journal ArticleDOI
PA700, an ATP-dependent activator of the 20 S proteasome, is an ATPase containing multiple members of a nucleotide-binding protein family.
George N. DeMartino,Carolyn R. Moomaw,Olga Zagnitko,Rita J. Proske,Ma Chu-Ping,Steven J. Afendis,Jonathan C. Swaffield,Clive A. Slaughter +7 more
TL;DR: PA700 is composed of multiple members of a protein family that may function in the ATP-dependent regulation of proteasome activity, and treatment of PA700 with alkylating agents, such as N-ethylmaleimide, inhibited with similar kinetics both proteasomes activation and ATPase activity, suggesting that these two activities are functionally linked.
Journal ArticleDOI
Comparative genomics and experimental characterization of N-acetylglucosamine utilization pathway of Shewanella oneidensis.
Chen Yang,Dmitry A. Rodionov,Dmitry A. Rodionov,Xiaoqing Li,Olga N. Laikova,Mikhail S. Gelfand,Mikhail S. Gelfand,Olga Zagnitko,Margaret F. Romine,Anna Obraztsova,Kenneth H. Nealson,Andrei L. Osterman +11 more
TL;DR: This study expands the range of carbon substrates utilized by Shewanella spp.
Journal ArticleDOI
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation
Leslie Klis McNeil,Claudia I. Reich,Ramy K. Aziz,Daniela Bartels,Matthew P. Cohoon,Terry Disz,Robert Edwards,Robert Edwards,Svetlana Gerdes,Kaitlyn Hwang,Michael Kubal,Gohar Rem Margaryan,Folker Meyer,William Mihalo,Gary J. Olsen,Robert Olson,Andrei L. Osterman,Daniel Paarmann,Tobias Paczian,Bruce Parrello,Gordon D. Pusch,Dmitry A. Rodionov,Xinghua Shi,Olga Vassieva,Veronika Vonstein,Olga Zagnitko,Fangfang Xia,Jenifer F. Zinner,Ross Overbeek,Rick Stevens +29 more
TL;DR: The National Microbial Pathogen Data Resource (NMPDR) contains the complete genomes of ∼50 strains of pathogenic bacteria that are the focus of the curators, as well as >400 other genomes that provide a broad context for comparative analysis across the three phylogenetic Domains.