This article is part of the supplement: Semantic e-Science in Biomedicine
Research
e-Science and biological pathway semantics
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* Corresponding author: Joanne S Luciano jluciano@genetics.med.harvard.edu
1 Genetics Department, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA
2 School of Computer Science, Manchester University, Oxford Road, Manchester, M13 9PL, UK
BMC Bioinformatics 2007, 8(Suppl 3):S3 doi:10.1186/1471-2105-8-S3-S3
Published: 9 May 2007Additional 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