V
Vasiliy A. Portnoy
Researcher at University of California, San Diego
Publications - 13
Citations - 2941
Vasiliy A. Portnoy is an academic researcher from University of California, San Diego. The author has contributed to research in topics: Thermotoga maritima & Escherichia coli. The author has an hindex of 11, co-authored 13 publications receiving 2700 citations. Previous affiliations of Vasiliy A. Portnoy include University of California.
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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.
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In silico method for modelling metabolism and gene product expression at genome scale
Joshua A. Lerman,Daniel R. Hyduke,Haythem Latif,Vasiliy A. Portnoy,Nathan E. Lewis,Jeffrey D. Orth,Alexandra C. Schrimpe-Rutledge,Richard D. Smith,Joshua N. Adkins,Karsten Zengler,Bernhard O. Palsson +10 more
TL;DR: The method presents a framework for investigating molecular biology and cellular physiology in silico and may allow quantitative interpretation of multi-omics data sets in the context of an integrated biochemical description of an organism.
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Adaptive laboratory evolution — harnessing the power of biology for metabolic engineering
TL;DR: This review will focus on current applications of ALE as a tool for metabolic engineering and discuss advancements and achievements that have been made in this field.
Journal ArticleDOI
Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae.
TL;DR: The use of model-driven analysis of multiple data types relevant to transcriptional regulation of metabolism to discover novel regulatory mechanisms in Saccharomyces cerevisiae and the ability of an integrated metabolic and regulatory network model to predict growth phenotypes of transcription factor knockout strains are described.
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Aerobic fermentation of D-glucose by an evolved cytochrome oxidase-deficient Escherichia coli strain.
TL;DR: It is demonstrated that three independently adaptively evolved ECOM3 populations acquired different phenotypes: one produced lactate as a sole fermentation product, while the other two strains exhibited a mixed-acid fermentation under oxic growth conditions with lactate remaining as the major product.