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A consensus yeast m...
A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology
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Herrgård, Markus J (author)
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Swainston, Neil (author)
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Dobson, Paul (author)
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Dunn, Warwick B (author)
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Arga, K Yalçin (author)
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Arvas, Mikko (author)
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Blüthgen, Nils (author)
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Borger, Simon (author)
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Coestenoble, Roeland (author)
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Heinemann, Matthias (author)
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Hucka, Michael (author)
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Le Novère, Nicolas (author)
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Li, Peter (author)
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Liebermeister, Wolfram (author)
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Mo, Monica L (author)
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Oliveira, Ana Paula (author)
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- Petranovic Nielsen, Dina, 1975 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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Pettifer, Stephen (author)
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Simeonidis, Evangelos (author)
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Smallbone, Kieran (author)
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Spasić, Irena (author)
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Weichart, Dieter (author)
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Brent, Roger (author)
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Broomhead, David S (author)
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Westerhoff, Hans W (author)
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Kırdar, Betül (author)
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Penttilä, Merja (author)
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Klipp, Edda (author)
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Palsson, Bernhard Ø (author)
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Sauer, Uwe (author)
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Oliver, Stephen G (author)
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Mendes, Pedro (author)
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- Nielsen, Jens B, 1962 (author)
- Chalmers tekniska högskola,Chalmers University of Technology
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Kell, Douglas B (author)
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(creator_code:org_t)
- 2008
- 2008
- English.
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In: Nature Biotechnology. ; 26:10, s. 1155-1160
- Related links:
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https://research.cha...
Abstract
Subject headings
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- Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This make comparisons between them difficult and underscores the desirability of a consolidated metabolic network that collects and formalizes the 'community knowledge' of yeast metabolism. We describe how we have produced a consensus metabolic network reconstruction for S. cerevisiae. In drafting it, we placed special emphasis on referencing molecules to persistent databases or using database-independent forms, such as SMILES or InChl strings, as this permits their chemical structure to be represented unambiguously and in a manner that permits automated reasoning. The reconstruction is readily available via a publicly accessible database and in the Systems Biology Markup Language (http://www.comp-sys-bio.org/yeastnet). It can be maintained as a resource that serves as a common denominator for studying the systems biology of yeast. Similar strategies should benefit communities studying genome-scale metabolic networks of other organisms.
Subject headings
- TEKNIK OCH TEKNOLOGIER -- Industriell bioteknik (hsv//swe)
- ENGINEERING AND TECHNOLOGY -- Industrial Biotechnology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
Publication and Content Type
- art (subject category)
- ref (subject category)
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- By the author/editor
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Herrgård, Markus ...
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Swainston, Neil
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Dobson, Paul
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Dunn, Warwick B
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Arga, K Yalçin
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Arvas, Mikko
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show more...
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Blüthgen, Nils
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Borger, Simon
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Coestenoble, Roe ...
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Heinemann, Matth ...
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Hucka, Michael
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Le Novère, Nicol ...
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Li, Peter
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Liebermeister, W ...
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Mo, Monica L
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Oliveira, Ana Pa ...
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Petranovic Niels ...
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Pettifer, Stephe ...
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Simeonidis, Evan ...
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Smallbone, Kiera ...
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Spasić, Irena
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Weichart, Dieter
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Brent, Roger
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Broomhead, David ...
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Westerhoff, Hans ...
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Kırdar, Betül
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Penttilä, Merja
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Klipp, Edda
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Palsson, Bernhar ...
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Sauer, Uwe
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Oliver, Stephen ...
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Mendes, Pedro
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Nielsen, Jens B, ...
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Kell, Douglas B
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show less...
- About the subject
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- ENGINEERING AND TECHNOLOGY
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ENGINEERING AND ...
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and Industrial Biote ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biochemistry and ...
- Articles in the publication
- Nature Biotechno ...
- By the university
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Chalmers University of Technology