e-Science and biological pathway semantics

doi:10.1186/1471-2105-8-S3-S3

BMC Bioinformatics

Volume 8
Suppl 3

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This article is part of the supplement: Semantic e-Science in Biomedicine .

Research

e-Science and biological pathway semantics

Joanne S Luciano¹^,2 and Robert D Stevens²

¹Genetics Department, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA

²School of Computer Science, Manchester University, Oxford Road, Manchester, M13 9PL, UK

author email corresponding author email

BMC Bioinformatics 2007, 8(Suppl 3):S3doi:10.1186/1471-2105-8-S3-S3


Published:	9 May 2007

Additional files

Additional File 1:

ArgoCyc Glycolysis Pathway. This file contains the glycolysis pathway of the organism Argobacterium tumefaciens C58. The file is a subset of the organism specific ArgoCyc database of metabolic pathways from SRI, International. The file was modified from the original as described in the text.

Format: OWL Size: 152KB Download file

Additional File 2:

Cholesterol Biosynthesis Pathway in Human. This file contains the cholesterol biosynthesis pathway in humans. The file is a subset of HumanCyc from SRI, International. The file was modified from the original as described in the text.

Format: OWL Size: 730KB Download file

Additional file 3:

superpathway of glycolosis, pyruvate dehydrogenase, TCA, and glyoxylate bypass. This tile contains the superpathway of glycolosis, pyruvate dehydrogenase, TCA, and glyoxylate bypass in humans. The file is a subset of HumanCyc from SRI, International. The file was modified from the original as described in the text.

Format: OWL Size: 727KB Download file

Additional File 4:

EMPWR BMC Experiment Ontology. This file demonstrates how one can extend the BioPAX ontology by adding additional classes and properties that enable the user to query the pathway instance data. The classes build upon a modified BioPAX level 2. The modified BioPAX level 2 file it builds upon is biopax-level2-EMPWR fresh copy.owl

Format: OWL Size: 28KB Download file