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Research output: Contribution to Journal/Magazine › Journal article › peer-review
Research output: Contribution to Journal/Magazine › Journal article › peer-review
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TY - JOUR
T1 - TrypanoCyc
T2 - a community-led biochemical pathways database for Trypanosoma brucei
AU - Shameer, Sanu
AU - Logan-Klumpler, Flora J.
AU - Vinson, Florence
AU - Cottret, Ludovic
AU - Merlet, Benjamin
AU - Achcar, Fiona
AU - Boshart, Michael
AU - Berriman, Matthew
AU - Breitling, Rainer
AU - Bringaud, Frédéric
AU - Bütikofer, Peter
AU - Cattanach, Amy M.
AU - Bannerman-Chukualim, Bridget
AU - Creek, Darren J.
AU - Crouch, Kathryn
AU - de Koning, Harry P.
AU - Denise, Hubert
AU - Ebikeme, Charles
AU - Fairlamb, Alan H.
AU - Ferguson, Michael A. J.
AU - Ginger, Michael L.
AU - Hertz-Fowler, Christiane
AU - Kerkhoven, Eduard J.
AU - Mäser, Pascal
AU - Michels, Paul A. M.
AU - Nayak, Archana
AU - Nes, David W.
AU - Nolan, Derek P.
AU - Olsen, Christian
AU - Silva-Franco, Fatima
AU - Smith, Terry K.
AU - Taylor, Martin C.
AU - Tielens, Aloysius G. M.
AU - Urbaniak, Michael D.
AU - van Hellemond, Jaap J.
AU - Vincent, Isabel M.
AU - Wilkinson, Shane R.
AU - Wyllie, Susan
AU - Opperdoes, Fred R.
AU - Barrett, Michael P.
AU - Jourdan, Fabien
N1 - C The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
PY - 2015/1/28
Y1 - 2015/1/28
N2 - The metabolic network of a cell represents the catabolic and anabolic reactions that interconvert small molecules (metabolites) through the activity of enzymes, transporters and non-catalyzed chemical reactions. Our understanding of individual metabolic networks is increasing as we learn more about the enzymes that are active in particular cells under particular conditions and as technologies advance to allow detailed measurements of the cellular metabolome. Metabolic network databases are of increasing importance in allowing us to contextualise data sets emerging from transcriptomic, proteomic and metabolomic experiments. Here we present a dynamic database, TrypanoCyc (http://www.metexplore.fr/trypanocyc/), which describes the generic and condition-specific metabolic network of Trypanosoma brucei, a parasitic protozoan responsible for human and animal African trypanosomiasis. In addition to enabling navigation through the BioCyc-based TrypanoCyc interface, we have also implemented a network-based representation of the information through MetExplore, yielding a novel environment in which to visualise the metabolism of this important parasite.
AB - The metabolic network of a cell represents the catabolic and anabolic reactions that interconvert small molecules (metabolites) through the activity of enzymes, transporters and non-catalyzed chemical reactions. Our understanding of individual metabolic networks is increasing as we learn more about the enzymes that are active in particular cells under particular conditions and as technologies advance to allow detailed measurements of the cellular metabolome. Metabolic network databases are of increasing importance in allowing us to contextualise data sets emerging from transcriptomic, proteomic and metabolomic experiments. Here we present a dynamic database, TrypanoCyc (http://www.metexplore.fr/trypanocyc/), which describes the generic and condition-specific metabolic network of Trypanosoma brucei, a parasitic protozoan responsible for human and animal African trypanosomiasis. In addition to enabling navigation through the BioCyc-based TrypanoCyc interface, we have also implemented a network-based representation of the information through MetExplore, yielding a novel environment in which to visualise the metabolism of this important parasite.
U2 - 10.1093/nar/gku944
DO - 10.1093/nar/gku944
M3 - Journal article
C2 - 25300491
VL - 43
SP - D637-D644
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
IS - D1
ER -