Indicative Publications

2017
  • Lishchuk, I:
    Protecting Data generated in Medical Research: Aspects of Data Protection and Intellectual Property Rights
    The International Journal On Advances in Security 10 (1&2), tbd, issn: 1942-2636
  • James Grogan, AJ Connor, B Markec, RJ Muschel, Philip Maini, Helen Byrne, Joe Pitt-Frances:
    Microvessel Chaste: An open library for spatial modelling of vascularized tissues
    Biophysical Journal 112(9), 1767–1772, DOI: 10.1016/j.bpj.2017.03.036
  • Viceconti, M:
    In silico assessment of biomedical products: the conundrum of rare but not so rare events in two case studies
    Proceedings of the Institution of Mechanical Engineers, Part H: Journal of Engineering in Medicine 231(5), 455 - 466, DOI: 10.1177/0954411917702931
  • Brenner, J:
    Mechanisms that determine nanocarrier targeting to healthy versus inflamed lung regions
    Nanomedicine: Nanotechnology, Biology, and Medicine 13(4), 1495 - 1506, DOI: 10.1016/j.nano.2016.12.019
  • Joe Collis, Joe Collis, Anthony J. Connor, Marcin Paczkowski, Pavitra Kannan, Joe Pitt-Francis, Helen M. Byrne, Matthew E. Hubbard:
    Bayesian calibration, validation and uncertainty quantification for predictive modelling of tumour growth: a tutorial
    Bulletin of Mathematical Biology 79(4), 939 - 974, DOI: 10.1007/s11538-017-0258-5
  • Georgios Manikis, Nikiforaki Katerina, Ioannidis Georgios, Papanikolaou Nikolaos, Marias Kostas:
    Addressing challenges in fitting bi-exponential DW-MRI data
    ECR 2017–27th European Congress of Radiology March 1-5, 2017, tbd, 10.1594/ecr2017/C-2964
  • Georgios Manikis, Nikiforaki Katerina, Papanikolaou Nikolaos, Matos Celco, Marias Kostas:
    A versatile platform for the longitudinal analysis of the DW-MRI data
    ECR 2017–27th European Congress of Radiology, March 1-5, 2017, Vienna, Austria, tbd, 10.1594/ecr2017/C-2835
  • Georgios Stamatakos, Stavroula Giatili:
    A Numerical Handling of the Boundary Conditions Imposed by the Skull on an Inhomogeneous DiffusionReaction Model of Glioblastoma Invasion Into the Brain: Clinical Validation Aspects
    Cancer Informatics 16, 1 - 16, 10.1177/1176935116684824
  • Bhattacharya, P, Bhattacharya, P., Viceconti, M:
    Multiscale modeling methods in biomechanics
    Wiley Interdiscip Rev Syst Biol Med. 9(3), e1375, DOI: 10.1002/wsbm.1375
  • Meier, R, Porz, N; Knecht, U; Loosli, T; Schucht, P; Jürgen Beck, J; Slotboom, J; Wiest, R; Reyes, M:
    Automatic estimation of extent of resection and residual tumor volume of patients with glioblastoma
    Journal of Neurosurgery January 6, 2017, 1-9, DOI: 10.3171/2016.9.JNS16146
2016
  • Iryna Lishchuk:
    From personal rights to Intellectual Property Rights
    Tagungsband „Junge Wissenschaft –Kolloquium zum Gewerblichen Rechtsschutz, Urheber- und Medienrecht“, tbd
  • Garcia, EF:
    Use Case II: Imaging Biomarkers and New Trends for Integrated Glioblastoma Management
    "Imaging Biomarkers: Development and Clinical Integration" -, 181 - 194, DOI: 10.1007/978-3-319-43504-6_16
  • M.E. Oraiopoulou, S. Psycharakis, E. Tzamali, V. Sakkalis, A. Vakis, J. Papamatheakis,G. Zacharakis:
    Imaging pathophysiologic parameters of primary Glioblastoma spheroids with light sheet microscopy towards theranostic heuristics
    1th annual event of the European Technology Platform on Nanomedicine 11th, annual, tbd, DOI: 10.13140/RG.2.2.32399.38568
  • G C Manikis, K. Nikiforaki, N. Papanikolaou, G. Ioannidis, K. Marias:
    Addressing Intravoxel Incoherent Motion Challenges Through an Optimized Fitting Framework for Quantification of Perfusion
    International Conference on Imaging Systems and Techniques (IST 2016) 5/10/2016, 487 - 492, DOI: 10.1109/IST.2016.7738275
  • Eleni Ch. Georgiadi, Nikolaos A. Christodoulou, Christos Kyroudis, Feng Dong, Norbert Graf, and Georgios S. Stamatakos:
    Oncosimulator Models as Components of a Personal Health Record Platform can Enable and Enhance the Provision of Personalized Medical Treatment
    VPH2016, book of abstracts, University of Amsterdam, 297 - 300 , ISBN 978-90-826254-0-0
  • Georgios Stamatakos, Eleni Kolokotroni, Daniel Abler, Eleni Georgiadi, Dimitra Dionysiou, Philippe Buechler,Markos Antonopoulos, Lien Solie, Nikolaos Tousert, Simone Bnà,Debora Testi, Stefaan Van Gool, Rainer Bohle, and Norbert Graf on behalf of the CHIC Consortium:
    Important Aspects of the Large Scale Integrating EU-US Project CHIC on Advancing In Silico Oncology
    VPH2016, book of abstracts, University of Amsterdam, 319 - 322, ISBN 978-90-826254-0-0
  • Eleftherios Ouzounoglou, Eleni Kolokotroni, Martin Stanulla, and Georgios S. Stamatakos:
    In Silico Oncology: Evaluating the Predictability of Acute Lymphoblastic Leukemia Patients’ Response to Treatment Utilizing a Multiscale Oncosimulator Model in Conjunction with Machine Learning Methods
    VPH2016, book of abstracts, University of Amsterdam, 166 - 169, DOI: 10.13140/RG.2.2.32940.05760
  • Eleni Kolokotroni, Dimitra Dionysiou, ChristianVeith, Yoo-Jin Kim, Jörg Sabczynski, Astrid Franz, Aleksandar Grgic, Jan Palm, Rainer M. Bohle, Georgios Stamatakos:
    In Silico Oncology: Quantification of the In Vivo Antitumor Efficacy of Cisplatin-Based Doublet Therapy in Non-Small Cell Lung Cancer (NSCLC) through a Multiscale Mechanistic Model
    PLOS Computational Biology 12(9), tbd, 10.1371/journal.pcbi.1005093
    Additional link
  • D. Abler, P. Büchler:
    Evaluation of a mechanically-coupled reaction-diffusion model for macroscopic brain tumour growth
    The 14th International Symposium Computer Methods in Biomechanics and Biomedical Engineering 2016 2016 14th, annual, tbd
  • Iryna Lishchuk:
    Patentability Aspects of Computational Cancer Models
    14th International Conference of Numerical Analysis and Applied Mathematics, ICNAAM 2016 Proceedings 14th, annual, tbd
  • Iryna Lishchuk, Marc Stauch:
    Cancer Models as medical support tools
    Tagungsband Herbstakademie 2016, 885-900
  • James Grogan, B Markelc, AJ Connor, RJ Muschel, JM Pitt-Franices, PK Maini, HM Byrne:
    Predicting the influence of microvascular structure on tumour response to radiotherapy
    IEEE Transactions on Biomedical Engineering 64(3), 504 - 511, DOI: 10.1109/TBME.2016.2606563
  • Nikolaos A. Christodoulou, Nikolaos E. Tousert, Eleni Ch. Georgiadi, Katerina D. Argyri, Fay D. Misichroni and Georgios S. Stamatakos:
    A Modular Repository-based Infrastructure for Simulation Model Storage and Execution Support in the Context of In Silico Oncology and In Silico Medicine
    Cancer Informatics 15, 219-235, 10.4137/CIn.s40189
  • Stura, I:
    A simple PSA-based computational approach predicts the timing of cancer relapse in prostatectomized patients
    Cancer Research 76(17), 4941 - 4947, DOI: 10.1158/0008-5472.CAN-16-0460
  • G. Tzedakis, E. Liapis, E. Tzamali, G. Zacharakis, and V. Sakkalis:
    A hybrid discrete-continuous model of in vitro spheroid tumor growth and drug response
    38th IEEE-EMBS, Engineering in Medicine and Biology Society (EMBC 2016) 16-20/8/2016, 6142 - 6145, DOI: 10.1109/EMBC.2016.7592130
  • Georgios Stamatakos:
    The Oncosimulator - Combining Clinically Driven and Clinically Oriented Multiscale Cancer Modeling with Information Technology in the In Silico Oncology Context
    International Conference and Exhibition on Pediatric Oncology, Toronto, Ontario, Canada. 11.08.2016-13.08.2016, DOI: 10.4172/2161-0665.C1.023
  • G. Stamatakos, Dimitra Dionysiou, Rainer Bohle, Stefaan van Gool, Lien Solie, Feng Dong, Nigel Mcfarlane, Marco Viceconti, Daniele Tartarini, Kostas Marias, Vangelis Sakkalis, Nikolaus Forgo, Iryna Lishchuk, Ravi Radhakrishnan, Alok Ghosh, Helen Byrne, James Grogan, Cat:
    Computational Horizons In Cancer (CHIC): Developing Meta- and Hyper-Multiscale Models and Repositories for In Silico Oncology – Strategies, Systems and Results
    International Conference and Exhibition on Pediatric Oncology, Toronto, Ontario, Canada. 11.08.2016-13.08.2016, ISBN: 978-618-80348-1-5
  • D. Abler, M. Kistler, R. Niklaus, P. Büchler:
    CHIC-CDR -- a repository for managing multi-modality clinical data and its application to in-silico oncology
    International Conference and Exhibition on Pediatric Oncology, Toronto, Ontario, Canada. 1st, annual, August 12, 2016, tbd, DOI: 10.4172/2161-0665.C1.024
  • Georgios Stamatakos:
    The Oncosimulator - Combining Clinically Driven and Clinically Oriented Multiscale Cancer Modelling with Information Technology in the In Silico Oncology Context
    International Conference and Exhibition on Pediatric Oncology 1st, annual, tbd, DOI: 10.4172/2161-0665.C1.023
  • Georgios Stamatakos, D. Dionysiou, R. Bohle, S. Gool, L. Solie, F. Dong, N. Mcfarlane, M. Viceconti, D. Tar-tarini, K. Marias, V. Sakkalis, N. Forgo, I. Lishchuk, R. Radhakrishnan, A. Ghosh, H. Byrne, J. Grogan, C. Guiot, I. Stura, P. Buechler, M. Reyes, E. Neri, A. Bucur, B.:
    Computational Horizons In Cancer (CHIC): Developing Meta- and Hyper-Multiscale Models and Repositories for In Silico Oncology – Strategies, Systems and Results
    International Conference and Exhibition on Pediatric Oncology 1st, annual, tbd, DOI: 10.4172/2161-0665.C1.024
  • K. Marias, K. Nikiforaki, G.C. Manikis, E. Kontopodis, N. Papanikolaou:
    Visualizing tumor environment with perfusion and diffusion MRI: Computational challenges
    Computer Graphics International (CGI), the 33rd Annual Conference 33th, annual, tbd, DOI: 10.1145/2949035.2949064
  • Anca Bucur, Jasper van Leeuwen, Nikolaos Christodoulou, Kamana Sigdel, Katerina Argyri, Norbert Graf and Georgios Stamatakos:
    Workflow-driven clinical decision support for personalized oncology
    BMC Medical Informatics and Decision Making 16(Suppl 2):87, tbd, 10.1186/s12911-016-0314-3
    Additional link
  • D. Abler, P. Büchler:
    Mechanically coupled Reaction-Diffusion Model of Macroscopic Brain Tumour Growth
    ESB 2016 Conference 22nd, tbd
  • Viceconti, M, Viceconti, M., Hunter, P:
    The Virtual Physiological Human: Ten Years After
    Annual Review of Biomedical Engineering 18, 103 - 123, DOI: 10.1146/annurev-bioeng-110915-114742
  • Iryna Lishchuk, Marc Stauch:
    Multiscale Cancer Modelling in Terms of Copyright
    International Journal On Advances in Life Sciences Volume 8 , 65-75
  • G.C. Manikis, K. Nikiforaki, N. Papanikolaou, K. Marias:
    Diffusion Modelling Tool (DMT) for the analysis of Diffusion Weighted Imaging (DWI) Magnetic Resonance Imaging (MRI) data
    Computer Graphics International (CGI), the 33th Annual Conference, tbd
  • Kontopodis Eleftherios, Karatzanis, I., Sakkalis, V., Buffa, F., Marias, K:
    A DCE-MRI analysis workflow
    Computer Graphics International (CGI), the 33rd Annual Conference, June 28-July 01, 2016, tbd, http://dx.doi.org/10.1145/2949035.2949061
  • Venianaki Maria, Kontopodis, E., Nikiforaki, K., Eelco, B., Salvetti, O., Marias, K.:
    A model-free approach for imaging tumor hypoxia from DCE-MRI data
    Computer Graphics International (CGI), the 33rd Annual Conference, June 28-July 01, 2016, tbd
  • N. Ramakrishnan, R. W. Tourdot, D.M. Eckmann, P.S.Ayyaswamy, V.M.Muzykantov,R. Radhakrishnan:
    Biophysically inspired model for nanocarrier adhesion to live cells: roles of mechanical factors and protein expression
    Royal Society Open Science 3:160260, tbd, DOI: 10.1098/rsos.160260
  • Dan Freed, J. H. Park, R. Radhakrishnan, M. A. Lemmon:
    Deletion mutations keep kinase inhibitors in the loop
    Cancer Cell, 423-425, 10.1016/j.ccell.2016.03.017
  • Iryna Lishchuk:
    Licensing Implications of the Use of Open Source Software in Research Projects
    ThinkMind Digital Library, ISSN: 2308-3484, ISBN: 978-1-61208-478-7,, 18-23, ISSN: 2308-3484, ISBN: 978-1-61208-478-7
  • Norbert Graf, Georgios Stamatakos:
    A multiscale hypermodel to predict the nephroblastoma response to preoperative chemotherapy
    9th International Renal Tumor Biology Conference, Toronto, Ontario, Canada 02.04.2016-03.04.2016
  • Norbert Graf, G. Stamatakos for the CHIC consortium:
    A multiscale hypermodel to predict the nephroblastoma response to preoperative chemo-therapy
    9th International Renal Tumour Biology Conference, tbd
  • Raphael Meier, Urspeter Knecht, Tina Loosli, Stefan Bauer, Johannes Slotboom, Roland Wiest, Mauricio Reyes:
    Clinical Evaluation of a Fully-automatic Segmentation Method for Longitudinal Brain Tumor Volumetry
    Nature Scientific Reports 6, -, 10.1038/srep23376
  • K. Argyri, D.Dionysiou, F. Misichroni, G.Stamatakos:
    Numerical simulation of vascular tumour growth under antiangiogenic treatment: addressing the paradigm of single-agent bevacizumab therapy with the use of experimental data
    Biology Direct 11(1), 11:12, DOI 10.1186/s13062-016-0114-9
    Additional link
  • Elefterios Ouzounoglou, Dimitra Dionysiou, and Georgios Stamatakos:
    Differentiation resistance through altered retinoblastoma protein function in acute lymphoblastic leukemia: in silico modeling of the deregulations in the G1/S restriction point pathway.
    BMC Systems Biology 10:23 (1), 10:23 (1), DOI: 10.1186/s12918-016-0264-5
  • Sabine Müller, Joachim Weickert, Norbert Graf:
    Automatic brain tumor segmentation with a fast Mumford-Shah algorithm.
    SPIE Medical Imaging 9784, 97842S
  • Ilaria Stura, Ezio Venturino, Caterina Guiot:
    A two-clones tumor model: Spontaneous growth and response to treatment.
    Mathematical Bioscience 271, 19-28, DOI: 10.1016/j.mbs.2015.10.014
2015
  • Perracchione, E, Stura, I:
    A RBF-PSO Based Approach for Modeling Prostate Cancer
    ICNAAM Proceedings September 2015
  • Raphael Meier, Venetia Karamitsou, Simon Habegger, Roland Wiest, Mauricio Reyes:
    Parameter Learning for CRF-based Tissue Segmentation of Brain Tumors
    Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries; series: Lecture Notes inComp uter Science Volume 9556, 156-167, ISBN: 978-3-319-30857-9
  • Georgios Tzedakis, Eleftheria Tzamali, Kostas Marias, and Vangelis Sakkalis:
    The Importance of Neighborhood Scheme Selection in Agent-based Tumor Growth Modeling
    Cancer Informatics 2015; 14(Suppl 4), 67-81, 10.4137/CIN.S19343
  • Eleftherios Kontopodis, Georgia Kanli, Georgios C. Manikis, Sofie Van Cauter and Kostas Marias:
    Assessing Treatment Response Through Generalized Pharmacokinetic Modeling of DCE-MRI Data
    Cancer Informatics 2015:Suppl. 4, 41-51, 10.4137/CIN.S19342
  • Markos Antonopoulos, Georgios Stamatakos:
    In Silico Neuro-Oncology: Brownian Motion-Based Mathematical Treatment as a Potential Platform for Modeling the Infiltration of Glioma Cells into Normal Brain Tissue.
    Cancer Informatics 2015 Aug 10;14(Suppl 4):33-40. eCollection 2015., 33-40, doi: 10.4137/CIN.S19341
  • Natesan Ramakrishnan, Ravi Radhakrishnan:
    Phenomenology Based Multiscale Models as Tools to Understand Cell Membrane and Organelle Morphologies.
    Advances in Planar Lipid Bilayers and Liposomes, 129-175, DOI: 10.1016/bs.adplan.2015.06.004
  • Iryna Lishchuk, Marc Stauch:
    Copyright in Multiscale Cancer Modeling
    INFOCOMP Proceedings INFOCOMP 2015, ISBN: 978-1-61208-416-9, 21 June 2015, Brussels, 117 to 122
  • Stefaan Van Gool:
    Brain tumor immunotherapy: what have we learned so far?
    Frontiers in Oncology 5:98, 1-14, 10.3389/fonc.2015.00098
  • Alexandros Roniotis, Mariam-Eleni Oraiopoulou, Eleftheria Tzamali, Eleftherios Kontopodis, Sofie Van Cauter, Vangelis Sakkalis, and Kostas Marias:
    A Proposed Paradigm Shift in Initializing Cancer Predictive Models with DCE-MRI Based PK Parameters: A Feasibility Study
    Cancer Informatics 2015; 14(Suppl 4), 7-18, 10.4137/CIN.S19339
  • Sabine Müller, Ruslan David, Kostas Marias, Norbert Graf:
    The Standardized Histogram Shift of T2 Magnetic Resonance Image (MRI) Signal Intensities of Nephroblastoma Does Not Predict Histopathological Diagnostic Information
    Supplementary Issue: Computer Simulation, Visualization, and Image Processing of Cancer Data and Processes 14(S4) 1–5, 2015, 10.4137/CIN.S19340
    Additional link
  • Norbert Graf:
    Personalized Medicine and the way to CHIC. A clinical perspective.
    Minerva Urol Nefrol 67(Suppl 1), 45
  • Nicole Ludwig, Nasenien Nourkami-Tutdibi, Christina Backes, Hans-Peter Lenhof, Norbert Graf, Andreas Keller, Eckart Meese:
    Circulating Serum miRNAs as Potential Biomarkers for Nephroblastoma
    Pediatric Blood Cancer 2015;62, 1360-1367, 10.1002/pbc.25481
  • Iheanyi Nwankwo, Marc Stauch, Alan Dahi, Nikolaus Forgo:
    Legal and Ethical Aspects of In Silico Medicine
    6th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation, 2014 14934704 , 1-5, doi:10.1109/IARWISOCI.2014.7034647
  • Iryna Lishchuk, Marc Stauch, Nikolaus Forgo:
    Intellectual Property Rights Issues in Multiscale Cancer Modeling
    2014 6 th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation 14934686, 1-5, 10.1109/IARWISOCI.2014.7034646
  • Elias Neri, Wouter Dhaeze:
    Incorporating Data Protection in In Silico Research: A case of CHIC
    2014 6 th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation 14934696, 1-5, 10.1109/IARWISOCI.2014.7034643
  • Domenico Gabriele, Francesco Porpiglia, Giovanni Muto, Paolo Gontero, Carlo Terrone, Scipio Annoscia, Donato Randone, Sandro Benvenuti, Giuseppe Arena, Ilaria Stura, Caterina Guiot:
    EUREKA-1 database: an epidemiological analysis
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 9-15
  • Domenico Gabriele, Marco Odera, Paolo Gontero, Giovanni Muto, Devis Collura, Scipio Annoscia, Giuseppe Arena, Enrico Bollito, Ilaria Stura, Caterina Guiot, Pietro Gabriele:
    Gleason Score and other variables
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 21-26
  • Marco Odera, Domenico Gabriele, Devis Collura, Ilaria Stura, Chiara Fiorito, Francesco Porpiglia, Carlo Terrone, Monica Zacchero, Caterina Guiot, Pietro Gabriele:
    The current role of CT and bone scintigraphy in prostate cancer staging
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 39-42
  • Domenico Gabriele, Monica Garibaldi , Anna Maria Marra, Barbara Jereczek-Fossa, Marco Krengli, Maria Tessa, Cristina Bona, Patrizia Ferrazza, Vittoria Balcet, Maria Grazia Ruo Redda, Gregorio Moro, Pietro Gabriele:
    Report from the study EUREKA-2 on prostate cancer patients treated by radical radiotherapy: first data analysis
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 47-55
  • Elisabetta Garibaldi, Elena Delmastro, Pietro Gabriele:
    Do radiotherapy techniques impact the outcome?
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 63-75
  • Ilaria Stura , Domenico Gabriele, Caterina Stura:
    Modeling prostate cancer within CHIC
    Minerva Urologica and Nefrologica Suppl. 1 to No. 1, 97-98
  • Georgios Stamatakos:
    In silico oncology and in silico medicine: from research to clinics and academia.
    Minerva Urologica e Nefrologica 67 (Suppl. 1 to No 1), 43-44
  • Georgios Stamatakos:
    A brief outline of the CHIC project
    Minerva Urologica e Nefrologica 67 (Suppl. 1 to No 1), 5-6
  • Viceconti, M., Viceconti, M., Hunter, P., Hose, R:
    Big Data, Big Knowledge: Big Data for Personalized Healthcare
    IEEE J Biomed Health Inform 19(4), 1209-15 19(4), 1209-2015, DOI: 10.1109/JBHI.2015.2406883
  • Viceconti, M:
    Biomechanics-based in silico medicine: The manifesto of a new science
    J Biomech 48(2), 193-194
2014
2013
2012
EU
This project has received funding from the European Union’s Seventh Framework Programme for research, technological development and demonstration under grant agreement No 600841.

Latest Highlights

What has been achieved by CHIC?
 The novelty created by the large scale transatlantic CHIC project has been impressive and multifacet...
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A brief overview of the completed CHIC project
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CHIC online survey on hypermodels
 CHIC is running a survey, where patients, physicians and citizens can learn about hypermodels and ca...
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