Computational Modelling in Cancer: Methods and Applications

Publication Type:

Journal Article

Source:

Biomed Data J, Volume 1, Issue 1, p.15-25 (2015)

Abstract:

Computational modelling of diseases is an emerging field, proven valuable for the diagnosis, prognosis and treatment of the disease. Cancer is one of the diseases where computational modelling provides enormous advancements, allowing the medical professionals to perform in silico experiments and gain insights prior to any in vivo procedure. In this paper, we review the most recent computational models that have been proposed for cancer. Well known databases used for computational modelling experiments, as well as, the various markup language representations are discussed. In addition, recent state of the art research studies related to tumour growth and angiogenesis modelling are presented.

Full text: 

Wooley JC, Lin HS. Computational Modeling and Simulation as Enablers for Biological Discovery. In Catalyzing Inquiry at the Interface of Computing and Biology [Internet]. Washington, D.C.: National Academies Press; 2005. pp. 117-202. http://www.ncbi.nlm.nih.gov/books/NBK25466
Edelman LB, Eddy JA, Price ND. In silico models of cancer. Wiley Interdisciplinary Reviews: Systems Biology and Medicine [Internet]. 2010;2(4):438 - 459. http://doi.wiley.com/10.1002/wsbm.v2%3A4http://doi.wiley.com/10.1002/wsbm.75
Hucka M. Systems Biology Markup Language (SBML). In Encyclopedia of Systems Biology. New York: Springer; 2013. pp. 2057-2063.
Finney A, Hucka M. Systems biology markup language: Level 2 and beyond. Biochem Soc Trans. 2003;31(Pt 6):1472-3.
Hunter P, Robbins P, Noble D. The IUPS human physiome project. Pfl�gers Archiv European Journal of Physiology [Internet]. 2002;445(1):1 - 9. http://link.springer.com/10.1007/s00424-002-0890-1
Lloyd CM, Halstead MDB, Nielsen PF. CellML: its future, present and past. Progress in Biophysics and Molecular Biology [Internet]. 2004;85(2-3):433 - 450. http://linkinghub.elsevier.com/retrieve/pii/S007961070400015X
Johnson D, Cooper J, McKeever S. TumorML: Concept and requirements of an in silico cancer modelling markup language. In 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society [Internet]. Boston, MA: IEEE; 2011. http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumber=6090060
Reddy VN, Mavrovouniotis ML, Liebman MN. Petri net representations in metabolic pathways. Proc Int Conf Intell Syst Mol Biol. 1993;1:328-36.
Bonzanni N, K. Feenstra A, Fokkink W, Heringa J. Petri Nets Are a Biologist’s Best Friend. In: Fages F, Piazza C. Formal Methods in Macro-Biology [Internet]. Cham: Springer International Publishing; 2014. pp. 102 - 116. http://link.springer.com/10.1007/978-3-319-10398-3_8
Chaouiya C. Petri net modelling of biological networks. Briefings in Bioinformatics [Internet]. 2007;8(4):210 - 219. http://bib.oxfordjournals.org/content/8/4/210
Tyson JJ. Modeling the cell division cycle: cdc2 and cyclin interactions. Proceedings of the National Academy of Sciences [Internet]. 1991;88(16):7328 - 7332. http://www.pnas.org/cgi/doi/10.1073/pnas.88.16.7328
Aguda BD. Modeling the cell division cycle [Internet]. Tutorials in Mathematical Biosciences III. Berlin: Springer; 2006 pp. 1-22. Report No.: Lecture Notes in Mathematics 1872. http://link.springer.com/chapter/10.1007%2F11561606_1
Rejniak KA, Anderson ARA. Hybrid models of tumor growth. Wiley Interdisciplinary Reviews: Systems Biology and Medicine [Internet]. 2011;3(1):115 - 125. http://doi.wiley.com/10.1002/wsbm.102
National Library of Medicine (brackets, no "et al."): Kourou K, Fotiadis DI. Computational Modelling in Cancer: Methods and Applications. Biomed Data J. 2015;1(1):15-25.
National Library of Medicine (grant proposals with PMCID/PMID): Kourou K, Fotiadis DI. Computational Modelling in Cancer: Methods and Applications. Biomed Data J. 2015;1(1):15-25.
National Library of Medicine (NLM) - Grant with PMID: Kourou K, Fotiadis DI. Computational Modelling in Cancer: Methods and Applications. Biomed Data J. 2015;1(1):15-25.
10,783 times
# File Name Number of Downloads
1 bmdj.01103_comp_modelling_cancer.pdf 4415
(1)
Share