Annotation of SBML models through rule-based semantic integration

Table 2 Summary of interactions retrieved for Use Case 2 against the core telomere ontology.

Discovered Interaction Partner with P14737	Proctor *et al.*	BioGRID	Pathway Commons
Serine/threonine-protein kinase RAD53 (P22216)	✓	✓	✓
Serine/threonine-protein kinase CHK1 (P38147)	✓		✓
Serine/threonine-protein kinase MEC1 (P38111)		✓
DNA damage checkpoint control protein RAD17 (P48581)		✓
Rad9Kin (*)	✓
ExoX (*)	✓

All discovered interactions already present in the curated model are shown, together with example interactions from the curated model that were not discovered (with Rad9Kin and ExoX) and discovered interactions that were not present in the model (with MEC1 and RAD17). SBML species shown with an asterisk (*) are those which are placeholder species, and therefore cannot have a match to a real protein. Some interactions are false positives inherent in the data source, while others are out of scope of the modelling domain of interest and should not be included.

ISSN: 2041-1480