TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei
Artikel i vetenskaplig tidskrift, 2015

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.

Författare

S. Shameer

Universite de Toulouse

F. J. Logan-Klumpler

Wellcome Trust Sanger Institute

F. Vinson

Universite de Toulouse

L. Cottret

INRA Institut National de La Recherche Agronomique

B. Merlet

Universite de Toulouse

F. Achcar

University of Glasgow

M. Boshart

Ludwig-Maximilians-Universität München

M. Berriman

Wellcome Trust Sanger Institute

R. Breitling

University of Manchester

F. Bringaud

CNRS Centre National de la Recherche Scientifique

P. Butikofer

Universität Bern

A. M. Cattanach

University of Glasgow

B. Bannerman-Chukualim

Wellcome Trust Sanger Institute

D. J. Creek

Monash University

K. Crouch

University of Glasgow

H. P. de Koning

University of Glasgow

H. Denise

European Bioinformatics Institute

C. Ebikeme

UNESCO United Nations Educational, Scientific and Cultural Organization

A. H. Fairlamb

University of Dundee

M. A. J. Ferguson

University of Dundee

M. L. Ginger

Lancaster University

C. Hertz-Fowler

University of Liverpool

Eduard Kerkhoven

Chalmers, Biologi och bioteknik, Systembiologi

P. Maser

Swiss Tropical and Public Health Institute (Swiss TPH)

P. A. M. Michels

University of Edinburgh

A. Nayak

University of Glasgow

D. W. Nes

Texas Tech University at Lubbock

D. P. Nolan

Trinity College Dublin

C. Olsen

Biomatters Inc.

F. Silva-Franco

University of Liverpool

T. K. Smith

University of St Andrews

M. C. Taylor

London School of Hygiene & Tropical Medicine

A. G. M. Tielens

Erasmus University Medical Center

Utrecht University

M. D. Urbaniak

Lancaster University

J. J. van Hellemond

Erasmus University Medical Center

I. M. Vincent

University of Glasgow

S. R. Wilkinson

Queen Mary, University of London

S. Wyllie

University of Dundee

F. R. Opperdoes

Universite catholique de Louvain

M. P. Barrett

University of Glasgow

F. Jourdan

Universite de Toulouse

Nucleic Acids Research

0305-1048 (ISSN) 1362-4962 (eISSN)

Vol. 43 D637-D644

Ämneskategorier

Biokemi och molekylärbiologi

DOI

10.1093/nar/gku944