Database
LeishCyc: a biochemical pathways database for Leishmania major
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* Corresponding authors: Malcolm J McConville malcolmm@unimelb.edu.au - Vladimir A Likić vlikic@unimelb.edu.au
1 Department of Biochemistry and Molecular Biology, University of Melbourne, Parkville, VIC 3010, Australia
2 Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, VIC 3010, Australia
BMC Systems Biology 2009, 3:57 doi:10.1186/1752-0509-3-57
Published: 5 June 2009Additional files
Additional file 1:
LeishCyc pathways created or modified after the initial build. Contains a table summarizing LeishCyc pathways created or modified after the initial build.
Format: DOC Size: 52KB Download file
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Additional file 2:
Pathways removed from LeishCyc after the initial build. Contains a table showing pathways were manually removed because either there was weak evidence for their existence in Leishmania spp. or they were replaced with a Leishmania-specific pathway.
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Additional file 3:
Transporters in Leishmania. Transporters and transport reactions identified in LeishCyc. Shown are the enzymes linked to those reactions. Details of transporter synonyms and localization (predicted and experimentally verified) are also indicated.
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Additional file 4:
Time course proteomic experiment shown in LeishCyc OmicsViewer. Colour-coded representation of changes in steady-state protein levels during promastigote differentiation into amastigotes. The data is from the time course experiments of Rosenzweig et al. (Rosenzweig D, Smith D, Opperdoes F, Stern S, Olafson RW, Zilberstein D, "Retooling Leishmania metabolism: from sand fly gut to human macrophage", Faseb J 2008, 22(2):590–602), with 2.5 h, 5 h, 10 h, 15 h, 24 h (promastigote), and 144 h (amastigote) time points shown. Changes are shown relative to the 0 h time point (promastigote). Metabolites and proteins are represented by shapes and lines, respectively. Proteins that are decreased are shown in yellow, those increased in red, and those unchanged in blue.
Format: DOC Size: 311KB Download file
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Additional file 5:
LeishCyc chokepoint reactions. Chokepoint reactions were identified for L. major using the Pathway Tools chokepoint identification tool. Shown are the enzymes linked to those reactions. Enzymes are grouped within major pathway categories and those with human orthologs are indicated (as determined by the TDR Targets database, with ortholog groupings from OrthoMCL v1.2).
Format: XLS Size: 52KB Download file
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