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Path finding methods accounting for stoichiometry in metabolic networks

Jon Pey1, Joaquín Prada1, John E Beasley2* and Francisco J Planes1*

Author Affiliations

1 CEIT and TECNUN, University of Navarra, Manuel de Lardizabal 15, 20018 San Sebastian, Spain

2 Mathematical Sciences Department, Brunel University, Kingston Lane, UB8 3PH, Uxbridge, UK

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Genome Biology 2011, 12:R49  doi:10.1186/gb-2011-12-5-r49

Published: 27 May 2011

Additional files

Additional file 1:

Database of carbon exchange arcs. PDF document containing a list of arcs involving effective carbon flux in the metabolic network of Feist et al. [36].

Format: PDF Size: 306KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Supporting data for side-by-side comparison. Word document containing a list of 40 reference pathways used in the side-by-side comparison, a side-by-side comparison using accuracy rate, and a discussion on infeasible pathways in Figure 6 [7,9,12,13,35-37,41,44,50-56].

Format: DOC Size: 1.7MB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional file 3:

Supporting data for Figures 8 and 9. Details of the 100 shortest CFPs in oxic and anoxic conditions from Pyr to OAA.

Format: PDF Size: 34KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data