Top-down multiscale simulation of tumor response to treatment in the context of in silico oncology. The notion of oncosimulator

SEMA SIMAI Springer Series

Volumn , Issue 9788847025707, 2012, Pages 355-375

  Stamatakos, Georgios ^a  

^a NATIONAL TECHNICAL UNIVERSITY OF ATHENS   (Greece)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84894546516     PISSN: 21993041     EISSN: 2199305X     Source Type: Book Series    
DOI: 10.1007/978-88-470-2571-4_19     Document Type: Chapter

References (59)

1. &D project. (FP6-2005-IST-026996) http://eu-acgt.org/acgt-for-you/researchers/in-silico-oncology/oncosimulator.html and http://www.eu-acgt.org/
2. Antipas, V.P., Stamatakos, G.S., Uzunoglu, N.K.: A patient-specific in vivo tumor and normal tissue model for prediction of the response to radiotherapy: a computer simulation approach. Meth. Inf. Med. 46, 367–375 (2007)
3. Antipas, V., Stamatakos, G. S., Uzunoglu, N.K., Dionysiou, D., Dale, R.: A spatiotemporal simulation model of the response of solid tumors to radiotherapy in vivo: parametric validation concerning oxygen enhancement ratio and cell cycle duration. Phys. Med. Biol. 49, 1–20 (2004)
4. Bobola, M.S., Tseng, S.H., Blank, A., Berger, M.S., Silber, J.R.: Role of O6-methylguanine-DNA methyltransferase in resistance of human brain tumor cell lines to the clinically relevant methylating agents temozolomide and streptozotocin. Clin. Cancer Res. 2, 735–741 (1996)
5. Breward, C.J., Byrne, H.M., Lewis, C.E.: A multiphase model describing vascular tumour growth. Bull. Math. Biol. 65, 609–640 (2003)
6. Clatz, O., Sermesant, M., Bondiau, P.Y., Delingette, H., Warfield, S.K., Malandain, G., Ayache, N.: Realistic simulation of the 3-D growth of brain tumors in MR images coupling diffusion with biomechanical deformation. IEEE Trans. Med. Imaging 24, 1334–1346 (2005)
7. &D project (FP7-ICT-2007-2- 223979). www.contracancrum.eu
8. Cristini, V., Frieboes, H.B., Gatenby, R., Caserta, S., Ferrari, M., Sinek, J.P.: Morphological instability and cancer invasion. Clin. Cancer Res. 11, 6772–6779 (2005)
9. Deisboeck, T.S., Berens, M.E., Kansal, A.R., Torquato, S., Stemmer-Rachamimov, A.O., Chiocca, E.A.: Pattern of self-organization in tumour systems: Complex growth dynamics in a novel brain tumour spheroid model. Cell Prolif. 34, 115–134 (2001)
10. Dionysiou, D.D., Stamatakos, G.S.: Applying a 4D multiscale in vivo tumor growth model to the exploration of radiotherapy scheduling: the effects of weekend treatment gaps and p53 gene status on the response of fast growing solid tumors. Cancer Inform. 2, 113–121 (2006)
11. Dionysiou, D.D., Stamatakos, G.S., Gintides, D., Uzunoglu, N., Kyriaki K.: Critical parameters determining standard radiotherapy treatment outcome for glioblastoma multiforme: a computer simulation. Open Biomed. Eng. J. 2, 43–51 (2008)
12. Dionysiou, D.D., Stamatakos, G.S., Marias, K.: Simulating cancer radiotherapy on a multilevel basis: biology, oncology and image processing. Lect. Notes Comp. Sci. 4561, 569–575 (2007)
13. Dionysiou, D.D., Stamatakos, G.S., Uzunoglu, N.K., Nikita K.S.: A computer simulation of in vivo tumour growth and response to radiotherapy: New algorithms and parametric results. Comp. Biol. Med. 36, 448–464 (2006)
14. Dionysiou, D.D., Stamatakos, G.S., Uzunoglu, N.K., Nikita, K.S., Marioli, A.: A four-dimensional simulation model of tumour response to radiotherapy in vivo: parametric validation considering radiosensitivity, genetic profile and fractionation. J. Theor. Biol. 230, 1–20. (2004)
15. d’Onofrio, A.: A general framework for modeling tumor-immune system competition and immunotherapy: analysis and medical inferences. Physica D 208, 220–235 (2005)
16. Duechting, W., Ulmer, W., Lehrig, R., Ginsberg, T., Dedeleit, E.: Computer simulation and modeling of tumor spheroid growth and their relevance for optimization of fractionated radiotherapy. Strahlenther Onkol 168, 354–360 (1992)
17. Duechting, W., Vogelsaenger, T.: Three-dimensional pattern generation applied to spheroidal tumor growth in a nutrient medium. Int. J. Biomed. Comput. 12, 377–392 (1981)
18. Enderling, H., Chaplain, M.A.J., Anderson, A.R.A., Vaidya, J.S.: A mathematical model of breast cancer development, local treatment and recurrence. J. Theor. Biol. 246, 245–259 (2007)
19. Frieboes, H.B., Zheng, X., Sun, C.H., Tromberg, B., Gatenby, R., Cristini, V.: An integrated computational/experimental model of tumor invasion. Cancer Res. 66, 1597–604 (2006)
20. FDA, Center for Drug Evaluation and Research. Application Number: 21029, Drug Name: Temozolomide (Temodal), New Drug Application, Clinical Pharmacology and Biopharma-ceutics Reviews, (Revision date: 2/2/1999), pp. 19–20 (1999)
21. Georgiadi, E.C., Stamatakos, G.S., Graf, N.M., Kolokotroni, E.A., Dionysiou, D.D., Hoppe, A., Uzunoglu, N.K.: Multilevel cancer modeling in the clinical environment: simulating the behavior of Wilms tumor in the context of the SIOP 2001/GPOH clinical trial and the ACGT Project. In: Proc. 8th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2008), Athens, Greece, October 8-10 2008, Paper No. BE-2.1.2. (2008)
22. Ginsberg, T., Ulmer, W., Duechting, W.: Computer simulation of fractionated radiotherapy: further results and their relevance to percutaneous irradiation and brachytherapy. Strahlenther Onkol 169, 304–310 (1993)
23. Graf, N., Desmedt, C., Buffa, F., Kafetzopoulos, D., Forgo, N., Kollek, R., Hoppe, A., Stamatakos, G., Tsiknakis, M.: Post-genomic clinical trials – the perspective of ACGT. E-cancer Medical Science 2, (2008)
24. Graf, N., Desmedt, C., Hoppe, A., Tsiknakis, M., Dionysiou, D., Stamatakos, G.: Clinical requirements of “in silico oncology” as part of the integrated project ACGT (Advancing Clinico-Genomic Trials on Cancer). Eur. J. Cancer Suppl. 5, 83 (2007)
25. Graf, N., Hoppe, A.: What are the expectations of a clinician from in silico oncology? In: Marias, K., Stamatakos, G.S. (eds.) Proc. 2nd International Advanced Research Workshop on In Silico Oncology, Kolympari – Chania, Greece, September 25–26, 2006, pp. 36–38 (2006)
26. Graf, N., Hoppe, A., Georgiadi, E., Belleman, R., Desmedt, C., Dionysiou, D., Erdt, M., Jacques, J., Kolokotroni, E., Lunzer, A., Tsiknakis, M., Stamatakos, G.: “In silico oncology” for clinical decision making in the context of nephroblastoma. Klin. Paediatr. 221, 141–149 (2009)
27. Guiot, C., Delsanto, P.P., Carpinteri, A., Pugno, N., Mansury, Y., Deisboeck, T.S.: The dynamic evolution of the power exponent in a universal growth model of tumors. J. Theor. Biol. 240, 459–463 (2006)
28. Haas-Kogan, D.A., Yount, G., Haas, M., Levi, D. Kogan, S.S., Hu, L., Vidair, C., Deen, D.F., Dewey, W.C., Israel, M.A.: p53-dependent G1 arrest and p53 independent apoptosis influence the radiobiologic response of glioblastoma. Int. J. Radiat. Oncol. Biol. Phys. 36, 95–103 (1995)
29. In Silico Oncology Group, Institute of Communications and Computer Systems, National Technical University of Athens. www.in-silico-oncology.iccs.ntua.gr
30. Kansal, A.R., Torquato, S., Harsh, G.R., Chiocca, E.A., Deisboeck, T.S.: Simulated brain tumour growth dynamics using a three-dimensional cellular automaton. J. Theor. Biol. 203, 367–382 (2000)
31. Katzung, B.G. (ed.): Basic and Clinical Pharmacology, 8th Ed. Lange Medical Books, McGraw-Hill, New York (2001)
32. Kolokotroni, E.A., Stamatakos, G.S., Dionysiou, D.D., Georgiadi, E.C., Desmedt, C., Graf N.M.: Translating multiscale cancer models into clinical trials: simulating breast cancer tumor dynamics within the framework of the “Trial of Principle” clinical trial and the ACGT Project. In: Proc. 8th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2008), Athens, Greece, 8-10 October 2008, Paper No. BE-2.1.1. (2008)
33. Marias, K., Dionysiou, D., Stamatakos, G.S., Zacharopoulou, F., Georgiadi, E., Maris, T.G., Tollis I.: Multi-level analysis and information extraction considerations for validating 4D models of human function. Lect. Notes Comput. Sci. 4561, 703–709 (2007)
34. Murray, J.D.: Mathematical Biology II. Spatial Models and Biomedical Applications. 3rd Edition, pp. 543–546, Springer, Heidelberg, (2003)
35. &B 39831 NSC 362856), Br. J. Cancer 65, 287–291 (1992)
36. Perez, C., Brady, L.: Principles and Practice of Radiation Oncology, 3rd Ed.. Lippincott-Raven, Philadelphia. (1998)
37. Perry, M.C. (ed.): The Chemotherapy Source Book, 3rd Ed.. Lippincott Williams and Wilkins, Philadelphia (2001)
38. Ramis-Conde, I., Chaplain, M.A.J., Anderson, A.R.A.: Mathematical modelling of cancer cell invasion of tissue. Math. Comput. Model. 47, 533–545 (2008)
39. &D project (FP6-2005-IST-026996). www.p-medicine.eu/
40. Salmon, S.E., Sartorelli, A.C.: Cancer chemotherapy. In: Katzung, B.G. (ed.), Basic & Clinical Pharmacology, pp. 923–1044. Lange Medical Books/McGraw-Hill, International Edition (2001)
41. Stamatakos, G.S.: Spotlight on cancer informatics. Cancer Inform. 2, 83–86 (2006)
42. Stamatakos, G.S.: In silico oncology: a paradigm for clinically oriented living matter engineering. In: Stamatakos, G.S., Dionysiou, D. (eds.) Proc. 3rd International Advanced Research Workshop on In Silico Oncology, Istanbul, Turkey, September 23-24 2008, pp. 7–9. www.3rd-iarwiso.iccs.ntua.gr/procs.pdf (2008)
43. Stamatakos, G.S., Antipas, V.P., Uzunoglu, N.K.: A spatiotemporal, patient individualized simulation model of solid tumor response to chemotherapy in vivo: the paradigm of glioblastoma multiforme treated by temozolomide. IEEE Trans. Biomed. Eng. 53, 1467–1477 (2006)
44. Stamatakos, G.S., Antipas, V.P., Uzunoglu, N.K.: Simulating chemotherapeutic schemes in the individualized treatment context: the paradigm of glioblastoma multiforme treated by temozolomide in vivo. Comput. Biol. Med. 36, 1216–34 (2006)
45. Stamatakos, G.S., Antipas, V.P., Uzunoglu, N.K., Dale, R.G.: A four dimensional computer simulation model of the in vivo response to radiotherapy of glioblastoma multiforme: studies on the effect of clonogenic cell density. Br. J. Radiol. 79, 389–400 (2006)
46. Stamatakos, G.S., Dionysiou, D.: Introduction of hypermatrix and operator notation into a discrete mathematics simulation model of malignant tumour response to therapeutic schemes in vivo. Some operator properties. Cancer Inform. 7, 239–251 (2009)
47. Stamatakos, G.S., Dionysiou, D.D., Graf, N.M., Sofra, N.A., Desmedt, C., Hoppe, A., Uzunoglu, N., Tsiknakis, M. The Oncosimulator: a multilevel, clinically oriented simulation system of tumor growth and organism response to therapeutic schemes. Towards the clinical evaluation of in silico oncology. In: Proc. 29th Annual Intern Conf IEEE EMBS. Lyon, France, August 23-26 2007, Conf. Proc. IEEE Eng. Med. Biol. Soc., 6629–6632 (2007)
48. Stamatakos, G.S., Dionysiou, D.D., Nikita, K., Zamboglou, N., Baltas, D., Pissakas, G., Uzunoglu, N.: In vivo tumour growth and response to radiation therapy: a novel algorithmic description, Int. J. Radiat. Oncol. Biol. Phys 51, 240 (2001)
49. Stamatakos, G.S., Dionysiou, D.D., Uzunoglu N.K.: In silico radiation oncology: a platform for understanding cancer behavior and optimizing radiation therapy treatment. In: Akay, M., (ed.) Genomics and Proteomics Engineering in Medicine and Biology, pp. 131–156, Wiley-IEEE Press, Hoboken (2007)
50. Stamatakos, G.S., Dionysiou, D.D., Zacharaki, E.I., Mouravliansky, N.A., Nikita, K.S., Uzunoglu N.K.: In silico radiation oncology: combining novel simulation algorithms with current visualization techniques. Proc. IEEE. Special Issue on Bioinformatics: Advances and Challenges 90, 1764–1777 (2002)
51. Stamatakos, G.S., Kolokotroni, E., Dionysiou, D.D., Georgiadi, Giatili, S.: In silico oncology: a top-down multiscale simulator of cancer dynamics. Studying the effect of symmetric stem cell division on the cellular constitution of a tumour. In: Doessel, O., Schlegel, W.E. (eds.) Proc. World Congress Medical Physics and Biomedical Engineering, September 7–12 2012, Munich, Germany, pp. 1830–1833. Springer, Heidelberg (2009)
52. Stamatakos, G.S., Uzunoglu, N.K.: Computer simulation of tumour response to therapy. In: Nagl, S. (ed.) Cancer Bioinformatics: from therapy design to treatment, pp. 109–125. John Wiley & Sons Ltd, Chichester (2006)
53. Stamatakos, G.S., Zacharaki, E.I., Makropoulou, M.I., Mouravliansky, N.A., Marsh, A., Nikita, K.S., Uzunoglu, N.K.: Modeling tumor growth and irradiation response in vitro- a combination of high-performance computing and web based technologies including VRML visualization. IEEE Trans. Inform. Technol. Biomed. 5, 279–289 (2001)
54. Stamatakos, G.S., Zacharaki, E.I., Makropoulou, M.I., Mouravliansky, N.A., Marsh, A., Nikita, K.S., Uzunoglu, N.K.: Tumor growth and response to irradiation in vitro: a technologically advanced simulation model. Int. J. Radiat. Oncol. Biol. Phys. 51, Suppl. 1, 240–241 (2001)
55. Steel, G. (ed.): Basic Clinical Radiobiology, 3rd Ed.. Oxford University Press, Oxford (2002)
56. Stupp, R., Gander, M., Leyvraz, S., Newlands, E.: Current and future developments in the use of temozolomide for the treatment of brain tumours. Lancet Oncol. Rev. 2, 552–560 (2001)
57. Swanson, K.R., Alvord, E.C., Murray, J.D.: Virtual brain tumours (gliomas) enhance the reality of medical imaging and highlight inadequacies of current therapy. Br. J. Cancer 86, 14–18 (2002)
58. Werner-Wasik, M., Scott, C.B., Nelson, D.F., Gaspar, L.E., Murray, K.J., Fischbach, J.A., Nelson, J.S., Weinstein, A.S., Curran, W.J. Jr.: Curran. Final report of a phase I/II trial of hyperfractionated and accelerated hyperfractionated radiation therapy with carmustine for adults with supratentorial malignant gliomas. Radiation Oncology Therapy Group Study 83-02. Cancer 77, 1535–43 (1996)
59. Zacharaki, E.I., Stamatakos, G.S., Nikita, K.S., Uzunoglu, N.K.: Simulating growth dynamics and radiation response of avascular tumour spheroid model validation in the case of an EMT6/Ro multicellular spheroid. Comput. Meth. Progr. Biomed. 76, 193–206 (2004)