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Open Access Highly Accessed Methodology article

A new computational method to split large biochemical networks into coherent subnets

Wynand S Verwoerd

Author Affiliations

Centre for Advanced Computational Solutions, Dept WF & Molecular Bioscience, Lincoln University, Ellesmere Junction Road, Christchurch, New Zealand

BMC Systems Biology 2011, 5:25  doi:10.1186/1752-0509-5-25

Published: 7 February 2011

Additional files

Additional file 1:

Demonstration model. Specification of the network model used for demonstration in the Methods section, as an SBML file.

Format: SBML Size: 62KB Download file

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Additional file 2:

Heuristic for block recognition. A description of the heuristic employed by Netsplitter for automated recognition of non-overlapping matrix blocks as defined in the text.

Format: DOC Size: 26KB Download file

This file can be viewed with: Microsoft Word Viewer

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Additional file 3:

Genome scale Arabidopsis model. Specification of the network model extracted from Aracyc 4.5 and used for demonstration in the Methods section, as an SBML file.

Format: SBML Size: 814KB Download file

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Additional file 4:

External Metabolites. Listing of default external metabolites, specified as Biocyc compound ID's.

Format: TXT Size: 2KB Download file

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Additional file 5:

Demonstration network layout. The network layout shown in Figure 8, with all metabolite and reaction nodes labelled with their Biocyc ID's and names.

Format: XLS Size: 318KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data