My main research interests include rule-based modelling, knowledge representation, graph rewriting, graph databases as well as computational biology and modelling of complex systems in general.
R. Harmer R., Le Cornec Y., Légaré S. and Oshurko E. (2019), Bio-curation for cellular signalling: the KAMI project. In IEEE/ACM Transactions on Computational Biology and Bioinformatics.
Harmer, R., Le Cornec, Y. S., Légaré, S., Oshurko, I. (2017). Bio-Curation for Cellular Signalling: The KAMI Project. In International Conference on Computational Methods in Systems Biology (pp. 3-19). Springer, Cham.
Bonifati, A., Furniss, P., Green, A., Harmer, R., Oshurko, E., & Voigt, H. (2019). Schema Validation and Evolution for Graph Databases. arXiv preprint arXiv:1902.06427.
Talks & Poster Presentations
Poster presentation KAMI: a bio-curation tool for cellular signalling, ICSB, Lyon, November 2018
Talk Representation and aggregation of cellular signalling knowledge in KAMI, Meeting of Bioss Working Group in Symbolic Systems Biology, Marseille, July 2018
Theses and Memoires
Oshurko I. (2017, June). Graph-based hierarchical knowledge representation (an application to rule-based modelling and bio-curation)[pdf]. Master 2 thesis at the ENS de Lyon.
ReGraph, a tool for building graph-based hierarchical knowledge representation systems. Docs can be found here.