]> 1.0.0 J. Sluka 2013-3-7 This is a CBO-OWL description of a tumor growth with angiogenesis multi-cell model using Compucell3D. http://purl.bioontology.org/ontology/MSH/D042461 2013-2-27 http://purl.obolibrary.org/obo/PR_000017284 Endothelial-derived short diffusing VEGF isoform. jps 2013-2-27 Glucose (as a representitive limiting nutrient) http://purl.obolibrary.org/obo/CHEBI_17234 jps jps 2013-2-27 Process that describes the creation of the Glucose field. http://purl.obolibrary.org/obo/GO_0010573 Process that describes the deletion (consumption, degradation, clearance) of the Gucose field. 2013-2-27 jps GO:vascular endothelial growth factor production http://purl.obolibrary.org/obo/GO_0010573 Process for the adhesion of 'Medium' cells to 'Medium' cells. 2013-2-27 jps 0 2/13/2013 http://purl.obolibrary.org/obo/GO_0031012 A portion of extracellular matrix. http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Extracellular_Matrix jps jps 2013-2-27 Process for the adhesion of 'NeoVascular' cells to 'Medium' cells. jps 2013-2-27 Process for the adhesion of 'NeoVascular' cells to 'NeoVascular' cells. Process for the adhesion of 'NeoVascular' cells to 'Necrotic' cells. 2013-2-27 jps jps Process for the adhesion of 'NeoVascular' cells to 'Proliferating' cells. 2013-2-27 Process for the adhesion of 'NeoVascular' cells to 'Vascular' cells. 2013-2-27 jps Process for the adhesion of 'Necrotic' cells to 'Medium' cells. 2013-2-27 jps 2013-2-27 jps Process for the adhesion of 'Necrotic' cells to 'Necrotic' cells. jps 2013-2-27 Process for the adhesion of 'Necrotic' cells to 'Proliferating' cells. 2 http://purl.obolibrary.org/obo/PATO_0000647 jps A necrotic tumor cell. http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Necrotic 2/13/2013 1 2013-3-4 jps http://purl.bioontology.org/ontology/SNOMEDCT/73238002 Cell volumetric growth process for cells of type 'necrotic' in which the cell's volume decreases over time. SNOMEDCT:Shrinkage http://purl.bioontology.org/ontology/SNOMEDCT/73238002 4 A proliferating vascular portion. Note that this "cell" type represents a portion of a capilary including both the endothelium and the lumen. jps http://sig.uw.edu/fma#Capillary http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Capillary 2/13/2013 http://purl.obolibrary.org/obo/FMA_63194 1 2013-3-4 Cell volumetric growth process for cells of type 'NewVascular'. http://purl.obolibrary.org/obo/GO_0040007 jps Mitosis process for the division of a NewVascular cell creating a pair of NewVascular cells. jps http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Angiogenesis urn:miriam:obo.go:0007067 http://purl.obolibrary.org/obo/GO_0001525 2013-3-04 http://purl.obolibrary.org/obo/VT_0010299 Process for the adhesion of 'Proliferating' cells to 'Medium' cells. 2013-2-27 jps 2013-2-27 Process for the adhesion of 'Proliferating' cells to 'Proliferating' cells. jps 1 jps http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Neoplastic_Cell 2/13/2013 http://purl.obolibrary.org/obo/CLO_0000012 A proliferating tumor cell http://purl.obolibrary.org/obo/GO_0070265 2013-3-4 http://purl.bioontology.org/ontology/SNOMEDCT/6574001 jps Conversion of a Proliferating cell into Necrotic cell when the cell's glucose level follows below a threshold. 1 Cell volumetric growth process for cells of type 'Proliferating'. 2013-3-4 http://purl.obolibrary.org/obo/GO_0040007 jps jps 2013-3-04 Mitosis process for the division of a Proliferating cell creating a pair of Proliferating cells. urn:miriam:obo.go:0007067 Need suitable annotations to indicate this is the short diffusing (rapidly degraded in the interstitial space) isoform. 2013-2-27 jps http://purl.obolibrary.org/obo/PR_000017284 Endothelial-derived short diffusing VEGF isoform. http://purl.bioontology.org/ontology/MSH/D042461 MeSH:Vascular Endothelial Growth Factor A (Medical Subject Headings) http://purl.bioontology.org/ontology/MSH/D042461 PR:vascular endothelial growth factor A (protein ontology) http://purl.obolibrary.org/obo/PR_000017284 jps 2013-3-7 Chemotaxis process for cells that chemotax to the VEGF1 field. 2013-2-27 jps http://purl.obolibrary.org/obo/GO_0010573 Process that describes the creation of the VEGF1 field. GO:vascular endothelial growth factor production http://purl.obolibrary.org/obo/GO_0010573 http://purl.obolibrary.org/obo/GO_0010573 2013-2-27 Process that describes the deletion (consumption, degradation, clearance) of the VEGF1 field. jps GO:vascular endothelial growth factor production http://purl.obolibrary.org/obo/GO_0010573 jps http://purl.bioontology.org/ontology/MSH/D042461 http://purl.obolibrary.org/obo/PR_000017284 tumor-derived long diffusing VEGF isoform 2013-2-27 PR:vascular endothelial growth factor A (protein ontology) http://purl.obolibrary.org/obo/PR_000017284 http://purl.bioontology.org/ontology/MSH/D042461 MeSH:Vascular Endothelial Growth Factor A (Medical Subject Headings) 2013-3-7 Chemotaxis process for cells that chemotax to the VEGF2 field. jps Process that describes the creation of the VEGF2 field. 2013-2-27 jps http://purl.obolibrary.org/obo/GO_0010573 GO:vascular endothelial growth factor production http://purl.obolibrary.org/obo/GO_0010573 http://purl.obolibrary.org/obo/GO_0010573 2013-2-27 jps Process that describes the deletion (consumption, degradation, clearance) of the VEGF2 field. GO:vascular endothelial growth factor production http://purl.obolibrary.org/obo/GO_0010573 jps Process for the adhesion of 'Vascular' cells to 'Medium' cells. 2013-2-27 2013-2-27 jps Process for the adhesion of 'Vascular' cells to 'Necrotic' cells. jps 2013-2-27 Process for the adhesion of 'Vascular' cells to 'Proliferating' cells. 2013-2-27 jps Process for the adhesion of 'Vascular' cells to 'Vascular' cells. 3 http://purl.obolibrary.org/obo/FMA_63194 http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Capillary A vascular portion. Note that this "cell" type represents a portion of a capilary including both the endothelium and the lumen. jps 2/13/2013 http://sig.uw.edu/fma#Capillary The top class for our angiogenesis ontology based on CBO. 1.0 50,50,80 These are the X, Y and Z extents of the box defining the model's universe. 4.0 Jim Sluka OWL:CBO description of a Compucell3D model of tumor growth with angiogenesis (blood vessel growth). 7 Feb. 2013