Publications

Brevet

T. Bastogne, J.-B. Tylcz. Procédé pour contrôler l’activation d’une substance photosensibilisante dans un tissu biologique, et dispositif mettant en œuvre le procédé, Nov. 2012.

Chapitre de livre

[1] H. Garnier, M. Gilson-Bagrel, T. Bastogne, and M. Mensler. Identification of continuous-time models from sampled data, chapter CONTSID toolbox: a software support for continuous-time data-based modelling. Springer-Verlag, H. Garnier and L. Wang (Eds), 2008.

Articles de revues internationales avec comité de lecture

[2] H. Benachour, A. Sève, T. Bastogne, C. Frochot, R. Vanderesse, J. Jasniewski, I. Miladi, C. Billotey, O. Tillement, F. Lux, and M. Barberi-Heyob. Multifunctional peptide-conjugated hybrid silica nanoparticles for photodynamic therapy and mri. Theranostics, 2(9):889–904, 2012 (IF=5.09).

[3] H. Benachour, T. Bastogne, M. Toussaint, Y. Chemli, A. Sève, C. Frochot, F. Lux, O. Tille- ment, R. Vanderesse, and M. Barberi-Heyob. Real-time monitoring of photocytotoxic- ity in nanoparticles-based photodynamic therapy: A model-based approach. PLoS ONE, 7(11):e48617, 2012 (IF=4.09).

[4] M. Pernot, T. Bastogne, N. P. E. Barry, B. Therrien, G. Koellensperger, S. Hann, V. Reshetov, and M. Barberi-Heyob. System biology approach for in vivo photodynamic therapy optimiza- tion of ruthenium-porphyrin compounds. Journal of Photochemistry and Photobiology B: Biology, 117:80–89, 2012 (IF=2.81).

[5] J. Mriouah, C. Boura, M. Thomassin, T. Bastogne, B. Faivre, and M. Barberi-Heyob. Tumor vascular responses to anti-vascular and -angiogenic strategies: looking for suitable models. Trends in Biotechnology, 30(12):649–658, September 2012 (IF=9.15).

[6] R. Keinj, T. Bastogne, and P. Vallois. Tumor growth modeling based on cell and tumor lifespans. Journal Theoretical of Biology, 312:76–86, 2012 (IF=2.41).

[7] S. Dobre, T. Bastogne, C. Profeta, M. Barberi-Heyob, and A. Richard. Limits of variance- based sensitivity analysis for non-identiability testing in high dimensional dynamic models. Automatica, 48(11):2740–2749, 2012 (IF=2.83).

[8] V. Morosini, T. Bastogne, C. Frochot, R. Schneider, A. François, F. Guillemin, and M. Barberi- Heyob. Quantum dot-folic acid conjugates as potential photosensitizers in photodynamic therapy of cancer. Photochemical & Photobiological Sciences, 10:842–851, 2011 (IF=2.41).

[9] R. Keinj, T. Bastogne, and P. Vallois. Multinomial model-based formulations of TCP and NTCP for radiotherapy treatment planning. Journal of Theoretical Biology, 279:55–62, 2011 (IF=2.41).

[10] Denise Bechet, Loraine Tirand, Béatrice Faivre, François Plénat, Corinne Bonnet, Thierry Bastogne, Céline Frochot, François Guillemin, and Muriel Barberi Heyob. Neuropilin-1 tar- geting photosensitization-induced early stages of thrombosis via tissue factor release. Phar- maceutical Research / Pharmaceutical Research (Dordrecht), 27(3):468–479, 2010 (IF=4.09).

[11] T. Bastogne, A. Samson, , P. Vallois, S. Wantz-Mézières, S. Pinel, D. Bechet, and M. Barberi- Heyob. Phenomenological modeling of tumor diameter growth based on a mixed effects model. Journal of Theoretical Biology, 262:544–552, 2010 (IF=2.41).

[12] F. Chergui, A.-S. Chrétien, S. Bouali, C. Ramacci, M. Rouyer, T. Bastogne, P. Genin, A. Ler- oux, and J.-L. Merlin. Validation of bioplex⃝c phosphoprotein array assay for characterization of human tyrosine kinase receptors downstream signaling in breast cancer. Clinical Chemistry, 55(7):1327–36, 2009 (IF=6.26).

[13] L. Tirand, T. Bastogne, D. Bechet, M. Linder, N. Thomas, C. Frochot, F. Guillemin, and M. Barberi-Heyob. Response surface methodology: an extensive potential to optimize pho- todynamic therapy conditions in vivo. International Journal of Radiation Oncology, Biology, Physics, 75(1):244–252, 2009 (IF=4.37).

[14] M. Thomassin, T. Bastogne, and A. Richard. Identification of a managed river reach by a bayesian approach. IEEE Contr. Syst. Technol., 17(2):353–365, 2009 (IF=1.77).

[15] J. Gravier, R. Schneider, C. Frochot, T. Bastogne, F. Schmitt, J. Didelon, F. Guillemin, and M. Barberi-Heyob. Improvement of m-THPC-like photosensitizer selectivity with folate- based targeted delivery. Synthesis and in vivo selective delivery study. Journal of Medicinal Chemistry, 51(13):3867–3877, June 2008 (IF=5.25).

[16] T. Bastogne, S. Mézières-Wantz, N. Ramdani, P. Vallois, Loraine Tirand, D. Bechet, and M. Barberi-Heyob. Parameter estimation of pharmacokinetics models in the presence of ran- dom timing errors. European Journal of Control, 14(2), 2008 (IF=0.82).

[17] T. Bastogne, L. Tirand, D. Bechet, M. Barberi-Heyob, and A. Richard. System identification of photosensitiser uptake kinetics in photodynamic therapy. Biomedical Signal Processing and Control, 2:217–225, 2007 (IF=1.00).

[18] T. Bastogne. A unified representation for networked dynamical system modelling. Simulation Modeling Practices and Theory, 15(7):747–763, August 2007 (IF=0.97).

[19] T. Bastogne. Behavioral interpretation of the object-oriented paradigm for interconnected dynamic system modeling. International Journal of Systems Science, 38(4):319–326, April 2007 (IF=0.99).

[20] T. Bastogne, M. Thomassin, and J. Masse. Selection and identification of physical parameters from passive observation. Application to a winding process. Control Engineering Practice, 15(9):1051–1061, September 2007 (IF=1.48).

[21] T. Bastogne. A multiport object-oriented diagram for batch system modelling. Methodology and implementation. Simulation Practice and Theory, 12(6):425–449, October 2004 (IF=0.97).

[22] T. Bastogne, H. Garnier, and P. Sibille. A PMF-based subspace method for continuous-time model identification. Application to a multivariable winding process. International Journal of Control, 74(2):118–132, 2001 (IF=0.98).

[23] T. Bastogne, H. Noura, P. Sibille, and A. Richard. Multivariable identification of a winding process by subspace methods for tension control. Control Engineering Practice, 6(9):1077– 1088, september 1998 (IF=1.48).

Articles de revues nationales avec comité de lecture

[24] S. Dobre, T. Bastogne, M. Barberi-Heyob, F. Guillemin, and A. Richard. Conception assistée par une analyse de sensibilité globale d’une plate-forme dédiée à la recherche en thérapie photodynamique. Journal de la Société Française de Statistique (JSFdS), 152(1), 2011.

[25] S. Dobre, T. Bastogne, M. Barberi-Heyob, and A. Richard. Une méthode locale de classifi- cation optimale des paramètres identifiables d’un modèle physique. application à la thérapie photodynamique. Revue e-STA Sciences et Technologies de l’Automatique, 3(3):9–14, 2009.

[26] H. Garnier, M. Gilson, and T. Bastogne. Identification de modèles à temps continu. méth- odes et développements récents. Journal Européen des Systèmes Automatisés, No. spécial "Identification des Systèmes", 42(2-3), 2008.

[27] T. Bastogne, L. Tirand, S. Dobre, M. Barberi-Heyob, and A. Richard. Modélisation système de la thérapie photodynamique. Revue e-STA Sciences et Technologies de l’Automatique, 3(2), 2006.

[28] M. Thomassin, T. Bastogne, A. Richard, and A. Libaux. Estimation des temps de propagation des débits dans les vallées hydrauliques. La Houille Blanche, 2:36–42, 2004.

[29] T. Bastogne, P. Sibille, and A. Richard. Identification des systèmes multivariables : méth- odes des sous-espaces. Partie 1 : état de l’art. Journal Européen des Systèmes Automatisés, 32(2):207–234, avril 1998.

[30] T. Bastogne, A. Richard, and P. Sibille. Identification des systèmes multivariables : méth- odes des sous-espaces. Partie 2 : applicabilité et intérêt. Journal Européen des Systèmes Automatisés, 32(2):235–265, avril 1998.

Communications dans des sessions invitées

[31] T. Bastogne, R. Keinj, and P. Vallois. A stochastic model of the cell and tumor lifespans in radiotherapy. In Proc of the 18th IFAC World Congress. Invited session ’Modeling and Iden- tification in Systems Biology: Advances and Challenges’, Milano, Italy, August - September 2011.

[32] P. Couleaud, D. Bechet, C. Frochot, R. Vanderesse, T. Bastogne, M. Pernot, A.C. Faure, O. Roux, S. Tillement, and M. Barberi-Heyob. Nanoparticules multifonctionnelles pour la thérapie photodynamique. In First Cross Border Conference on NanoSciences and Materials for Health - A tribute to Patrick ALNOT, Pont-à-Mousson, France, June 21-25 2010.

[33] T. Bastogne, A. Samson, P. Vallois, S. Mézières-Wantz, S. Pinel, D. Bechet, and M. Barberi- Heyob. System identification of tumor growth described by a mixed effects model. In Proc of the 15th IFAC Symposium on System Identification, SYSID 2009. Invited session ’System Identification and Modeling of Biological Systems’ organized by T. Bastogne and B. Laroche, Saint-Malo, France, 2009.

[34] S. Dobre, T. Bastogne, M. Barberi-Heyob, D. Bechet, J. Didelon, and A. Richard. System identification of the intracellular photoreaction process induced by photodynamic therapy. In Proc. of the 16th IEEE Mediterranean Conference on Control and Automation. Invited session ’System Identification and Modeling of Biological and Biomedical Systems’ organized by T. Bastogne and B. Laroche, Ajaccio, Corsica, France, June 25-27 2008.

[35] T. Bastogne. Behavioral descriptions of the object-oriented paradigm for physical system modeling. In 16th World IFAC Congress on Automatic Control. Invited session ’Modeling and Interconnection of Open Dynamical Systems’ organized by J.C. Willems, Prague, Czech Republic, July 2005.

[36] T. Bastogne and A. Richard. Modélisation et simulation d’un système d’entraînement de bande en présence de glissement. In 2nde Conférence Internationale Francophone d’Automatique. Session invitée ’Modélisation et commande de systèmes d’enroulement’ organisée par D. Knit- tel, Nantes, France, 8-10 juillet 2002.

Communications internationales avec comité de lecture

[37] Magali Toussaint, Magalie Thomassin, Marine Amouroux, Ernest Galbrun, Walter Blondel, Thierry Bastogne, and Muriel Barberi-Heyob. Optimization of illumination in interstitial photodynamic therapy for high-grade brain tumors. In 9th International Symposium on Pho- todynamic Therapy and Photodiagnosis in Clinical Practice, page CDROM, Brixen, Italie, October 2012. IRIS, IPS, SBS IRIS, IPS, SBS.

[38] Jean-Baptiste Tylcz, Denise Bechet, Thierry Bastogne, Thierry, Hugues Garnier, and Muriel Barberi-Heyob. Pharmacokinetic modeling of nanoparticles-based PS vectors into glioblas- toma from MRI imaging in PDT. In 9th International Symposium on Photodynamic Therapy and Photodiagnosis in Clinical Practice, page CDROM, Brixen, Italie, October 2012.

[39] T. Bastogne, A. Golebiewska, F. Azuaje, and S. Niclou. Markovian modelling of phenotypic state transitions in glioblastoma cancer cells. In EMBO Conference Series: From Functional Genomics to Systems Biology, page 122, Heidelberg, Allemagne, November 2012.

[40] Muriel Barberi-Heyob, Céline Frochot, Régis Vanderesse, Olivier Tillement, François Lux, R. Mordon, Serge, Thierry Bastogne, and François Guillemin. Nanoparticles for MRI and vascular photodynamic treatment of brain tumours. In 8th International Symposium on Pho- todynamic Therapy and Photodiagnosis in Clinical Practice, page CDROM, Brixen, Italie, October 2010.

[41] Thierry Bastogne, Roukaya Keinj, and Pierre Vallois. A stochastic model of the cell and tumor lifespans in radiotherapy. In 18th IFAC World Congress, IFAC WC’2011, page CDROM, Milan, Italie, August 2011.

[42] J.-B. Tylcz, D. Bechet, T. Bastogne, H. Garnier, and M. Barberi-Heyob. System identification of the intrabrain tumoral uptake of multifunctional nanoparticles. In Proc. of the 8th IFAC Symposium on Biological and Medical Systems of the 8th, Budapest, Hungary, 29-31 August 2012.

[43] R. Keinj, M. Thomassin, T. Bastogne, and P. Vallois. Model of cell damage in single session radiation treatments based on continuous-time markov chains. In Proc. of the 8th IFAC Symposium on Biological and Medical Systems, Budapest, Hungary, 29-31 August 2012.

[44] S. Dobre, J.-B. Tylcz, T. Bastogne, and M. Barberi-Heyob. Global sensitivity analysis and estimation of photophysical parameters from in vivo data in photodynamic therapy. In Proc of the 16th IFAC Symposium on System Identification, Brussels, Belgium, July 11-13 2012.

[45] G. Creusat, J.-S. Thomann, F. Navarro, A.-C. Couffin, A. Moussaron, C. Frochot, T. Bas- togne, and M. Barberi-Heyob. Interest of photosensitizer-loaded nanoparticles for targeted photodynamic therapy. In Colloque Inter-régional Grand-Est de Recherche Translationnelle en Oncologie, ONCOTRANS 2011, Nancy, France, 2011.

[46] T. Bastogne, A.-S. Chrétien, V. Harter, G. Le Dilly, S. Dobre, J.-M. Monnez, and J.-L Merlin. Systems biology: a study case for the identification of predictive biomarkers for anti-egfr response in metastatic colorectal cancers. Oncotrans, Sept. 2011.

[47] T. Bastogne, L. Tirand, J. Gravier, D. Bechet, V. Morosini, M. Pernot, C. Frochot, A. Richard, F. Guillemin, and M. Barberi-Heyob. Contributions of experiment designs in photodynamic therapy: photosensitizer design, treatment analysis and optimization. In Proc of the 13th IPA World Congress, Innsbruck, Austria, May 2011. International Photodynamic Association.

[48] Pierre Couleaud, Denise Bechet, Céline Frochot, Régis Vanderesse, Thierry Bastogne, Mar- lène Pernot, Anne-Charlotte Faure, Stéphane Roux, Olivier Tillement, and Muriel Barberi Heyob. Nanoparticules multifonctionnelles pour la thérapie photodynamique. In Colloque Nanohybrides 7, Porquerolles France, 05 2010.

[49] T. Bastogne, L. Tirand, J. Gravier, D. Bechet, V. Morosini, M. Pernot, C. Frochot, and M. Barberi-Heyob. Applications of experimental designs in photodynamic therapy. towards an integrative approach of development. In Proc of 8th International Symposium on Photo- dynamic Therapy and Photodiagnosis in Clinical Practice, Brixen, Italy, Oct. 6-9 2010.

[50] P. Vallois, T. Bastogne, and R. Keinj. A multinomial model of tumor growth treated by radiotherapy. In Proc. of the third conference on Computational and Mathematical Population Dynamics, Bordeaux, France, Mai 2010.

[51] S. Dobre, T. Bastogne, M. Barberi-Heyob, and A. Richard. Identifiability and sensitivity analysis of a photodynamic therapy model. In Procedia - Social and Behavioral Sciences, Sixth International Conference on Sensitivity Analysis of Model Output, volume 2, pages 7648–7649, 2010.

[52] S. Dobre, T. Bastogne, and A. Richard. Global sensitivity and identifiability implications in systems biology. In Proc of the 11th IFAC Symposium on Computer Applications in Biotech- nology, July 2010.

[53] R. Keinj, T. Bastogne, and P. Vallois. A multinomial model of tumour growth treated by ra- diotherapy. In Proc of the 11th IFAC Symposium on Computer Applications in Biotechnology, Leuven, Belgium, July 2010.

[54] A. S. Chrétien, F. Chergui, T. Bastogne, S. Bouali, C. Ramacci, M. Rouyer, P. Genin, A. Ler- oux, and J.L. Merlin. Validation of phosphoprotein array assay for determination of human epidermal growth factor receptors downstream signalling phosphoproteins in breast carcinoma. In European Journal of Cancer Supplements, 20th Meeting of the European Association for Cancer Research, volume 6 (9), page 96, Lyon, France, July 2008.

[55] D. Bechet, L. Tirand, F. Plénat, N. Thomas, T. Bastogne, F. Guillemin, and M. Barberi- Heyob. Targeting of neuropilin-1 to improve the anti-vascular effect of photodynamic therapy in xenograft human malignant glioma. In European Journal of Cancer Supplements , 20th Meeting of the European Association for Cancer Research, volume 6 (9), pages 25–26, July 2008.

[56] S. Dobre, T. Bastogne, M. Barberi-Heyob, and A. Richard. Une méthode locale de classifi- cation optimale des paramètres identifiables d’un modèle physique. application à la thérapie photodynamique. In Actes de la 5ème Conférence Internationale Francophone d’Automatique, Bucarest, Roumanie, Septembre 2008.

[57] T. Bastogne, H. Garnier, P. Sibille, and M. Mensler. Pmf-based subspace method for continuous-time model identification deterministic study. In Proc of the 35th conference on decision and control, pages 1665–1670, Fukuoka, Japan, 1996.

[58] S. Dobre, T. Bastogne, Muriel Barberi-Heyob, and Alain Richard. Practical identifiability of photophysical parameters in photodynamic therapy. In Proc of the 29th Conf IEEE Eng Med Biol Soc., pages 6633–6, Lyon, France, August 2007.

[59] T. Bastogne, S. Mézières-Wantz, N. Ramdani, P. Vallois, and M. Barberi-Heyob. Parameter estimation of pharmacokinetics models in the presence of timing noise. In Proc. of the European Control Conference, ECC’07, Kos, Greece, 2-5 July 2007.

[60] T. Bastogne, L. Tirand, M. Barberi-Heyob, and A. Richard. Modélisation système de la thérapie photodynamique. In Actes de la 4ème Conférence Internationale Francophone d’Automatique, Bordeaux, France, Mai-Juin 2006.

[61] T. Bastogne, L. Tirand, M. Barberi-Heyob, and A. Richard. System identification of photo- sensitiser uptake kinetics in photodynamic therapy. In Proc of the 6th IFAC Symposium on Modelling and Control in Biomedical Systems (including Biological Systems), Reims, France, Sept. 2006.

[62] M. Thomassin, T. Bastogne, and A. Richard. Identification d’un bief de rivière par une approche bayésienne. In Actes de la 4ème Conférence Internationale Francophone d’Automatique, Bordeaux, France, Mai-Juin 2006.

[63] M. Thomassin, T. Bastogne, A. Richard, and H. Garnier. Generalization of a correlation method for time-delay estimation with application to a river reach. In Proc of the 14th IFAC Symposium on System Identification, SYSID 2006, Newcastle, Australia, March 2006.

[64] L. Tirand, N. Thomas, T. Bastogne, M. Linder, C. Frochot, F. Guillemin, and M. Barberi- Heyob. A chlorin-ATWLPPR conjuguate as new neurpilin-1-targeting photosensitizer de- signed to potentiate the vascular effect of PDT: in vitro and in vivo results. In Proc of the 6th International Symposium on Photodynamic Therapy in Clinical Practice, Brixen, Italy, 10-14 October 2006.

[65] L. Tirand, C. Frochot, M. Dodeller, D. Dumas, T. Bastogne, N. Thomas, J.-F. Muller, and M. Barberi-Heyob. Intracellular localization and in vitro stability of a photosensitizer con- juguated to the NRP-I receptor-binding ATWLPPR peptide. In Proc of the 97th AACR Annual Meeting, Washington DC, US, April 2006.

[66] T. Bastogne and J. Masse. Calibration of nonlinear and continuous-time models. Application of Diffedge⃝c to a winding process. In Proc of the 11th IFAC Symposium on Automation in Mining, Mineral and Metal Processing, MMM’04, Nancy, France, september 8-10 2004.

[67] T. Bastogne. Object modelling of interconnected systems in a behavioral framework. In Proc of the American Control Conference, Boston, MA, June 30-July 2 2004.

[68] T. Bastogne and A. Libaux. An experimental object-oriented modelling of an hydraulic valley. In Proc of the 13th IFAC Symposium on System Identification, Rotterdam, Netherland, August 2003.

[69] T. Bastogne. A multiport object-oriented diagram for batch process modelling. In Proc of the IFAC Conference on Analysis and Design of Hybrid Systems, Saint-Malo, France, June 2003.

[70] M. Thomassin, T. Bastogne, A. Richard, and A. Libaux. Time-delay estimation of a man- aged river reach from supervisory data. In Proc of the 13th IFAC Symposium on System Identification, Rotterdam, Netherland, August 2003.

[71] M. Thomassin, T. Bastogne, A. Richard, and A. Libaux. A bayesian approach for time-delay estimation of a managed river reach in imposed experimental conditions. In Proc of the 3rd IFAC Workshop on Linear Time-Delay Systems, Rocquencourt, France, September 2003.

[72] T. Bastogne, M. Thomassin, H. Garnier, A. Richard, and A. Libaux. Modélisation expérimen- tale de biefs de rivière : une estimation appropriée des retards. In Actes de la 2nde Conférence Internationale Francophone d’Automatique, Nantes, France, 8-10 Juillet 2002.

[73] L. Gross, H. Noura, T. Bastogne, and D. Sauter. Adaptive residual generation on a winding machine described by multiple models. In Proc. of the European Control Conference ECC’99, Karlsruhe, Germany, 31 August - 3 September 1999.

[74] T. Bastogne, C. Defranoux, and A. Richard. Semi-physical identification of a winding process. In Proc. of the IFAC Conference on System Structure and Control, volume 3, pages 559–564, Nantes, France, 8-10 July 1998.

[75] T. Bastogne and P. Sibille. Identification of the input dependent dynamics of winding tensions. In Proc. of the IFAC Conference on System Structure and Control, volume 2, pages 255–260, Nantes, France, 8-10 July 1998.

14 of 16

[76] H. Garnier, P. Sibille, and T. Bastogne. A bias free least-squares parameter estimator for continuous-time state-space models. In Proc. of the 36th IEEE Conference on Decision and Control, pages 1860–1865, San Diego, USA, December 1997.

[77] T. Bastogne, H. Garnier, P. Sibille, and M. Mensler. PMF-based subspace method for continuous-time model identification. Deterministic study. In Proc. of the 11th IFAC Sympo- sium on System Identification, volume 4, pages 1665–1670, Kitakyushu, Japan, July 1997.

[78] T. Bastogne, H. Noura, A. Richard, and J. M. Hittinger. Application of subspace methods to the identification of a winding process. In Proc. of the 4th European Control Conference, volume 5, pages TH–E F4, Bruxelles, Belgium, July 1997.

[79] H. Noura and T. Bastogne. Tension optimal control of a multivariable winding process. In Proc. of the American Control Conference, volume 3, pages 2499–2503, Albuquerque, New Mexico, June 1997.

[80] T. Bastogne, A. Richard, P. Sibille, and E. Bichon. Optimized multivariable control of an industrial cement milling circuit. In Proc. of the 3rd European Control Conference, volume 4, pages 3098–3104, Roma, Italy, September 1995.