CompuCell3D|
Size: 5305
Comment:
|
Size: 7824
Comment:
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 2: | Line 2: |
| ==== 2023 ==== * [[attachment:Juliano_Ferrari_Gianlupi_thesis_2023.pdf|"Breaking Barriers in Multiscale Agent-Based Models: Effects of Cell Individuality on Viral Infection Treatment and A Path for Cross-Platform Validation"|&do=get]] - Juliano Ferrari Gianlupi, ''Ph.D. Indiana University'' (August 2023) ==== 2021 ==== * [[attachment:Josua Oscar Aponte-Serrano_thesis_2021.pdf|"Multicellular Multiscale Spatial Modeling of The Immune Response to Pathogens And Cancer"|&do=get]] - Josua Oscar Aponte-Serrano, ''Ph.D. Indiana University'' (December 2021) * [[attachment:EngstlerElena_Thesis2021.pdf|"Developing a multi scale cellular automata simulation model of a vascularised brain tumour environment to predict angiogenic potential of brain endothelial cells"|&do=get]] - Elena Sophie Engstler, ''MSc in Neuroscience King's College London, University of London'' (September 2021) (and a [[attachment:EngstlerElena_Poster2021.pdf|poster|&do=get]]) * [[https://doi.org/10.11588/heidok.00029457|"Modelling of Cell Movements and Aggregations During Early Nephrogenesis"]] - Pauli Tikka, ''Ph.D. University of Heidelberg'' (April 2021) ==== 2020 ==== * [[https://www.proquest.com/openview/1ac8883b621902b85ae7e5f4fbca2401/1.pdf?cbl=51922&diss=y&loginDisplay=true&loginDisplay=true&pq-origsite=gscholar|"Modeling Cell Mediated Interactions in Epithelial Tissue Organization and Repair"]] Priyom Adhyapok, ''Ph.D. Indiana University, Department of Physics'' (August 2020) ==== 2018 ==== * [[https://shareok.org/handle/11244/317617|"Computational Modeling Of Metastatic Cancer Migration Through A Remodeling Extracellular Matrix"]] Yen T. Nguyen ''Master of Science'' Chemical Engineering Oklahoma State University Stillwater, Oklahoma (July 2018) ==== 2016 ==== * [[https://search.proquest.com/pqdtglobal/docview/1899473208/21288DDEE6DB40CEPQ/1?accountid=11620|"Integrative Modeling of Microcirculatory Transport and Cell Responses in Liver and Retinal Homeostasis and Disease"]] - Xiao Fu, ''Ph.D. Indiana University, Department of Physics'' (May, 2017) |
|
| Line 4: | Line 24: |
| * "Modeling Tissue Polarization and Symmetry Breaking in Development and Disease", Julio M. Belmonte, Ph.D. Indiana University, Department of Physics, December, 2014 | * [[attachment:Belmonte_thesis.pdf|"Modeling Tissue Polarization and Symmetry Breaking in Development and Disease"|&do=get]] – Julio M. Belmonte,'' Ph.D. Indiana University, Department of Physics'' (December, 2014) |
| Line 6: | Line 26: |
| * [[attachment:Publications/andy_thesis.pdf|Simulation of electrochemical and stochastic systems using just in time compiled declarative languages]], Andy Somogyi,Indiana University, Department of Physics, December, 2014 | * [[attachment:Publications/andy_thesis.pdf|Simulation of electrochemical and stochastic systems using just in time compiled declarative languages]] – Andy Somogyi, ''Ph.D. Indiana University, Department of Physics'' (December, 2014) |
| Line 8: | Line 28: |
| * [[attachment:Publications/CarlosThesis.pdf|MODELOS FORMALES PARA LA SIMULACIÓN DE LA EPIDERMIS HUMANA]], Carlos Alfonso Castaneda Marroquin, ''Universidad Autonome de Madrid, Spain'' (Oct 1st 2014) | * [[attachment:Publications/CarlosThesis.pdf|Modelos Formales para la Simulación de la Epidermis Humana]] – Carlos Alfonso Castaneda Marroquin, ''Universidad Autonome de Madrid, Spain'' (October, 2014) |
| Line 10: | Line 30: |
| * [[http://biomodel.project.cwi.nl/news/phd-thesis-margriet-palm-printed| High-throughput simulation studies of angiogenesis]] Margriet Palm, ''CWI, Amsterdam, Netherlands'' (Sept 30th 2014) | * [[http://biomodel.project.cwi.nl/news/phd-thesis-margriet-palm-printed|High-throughput simulation studies of angiogenesis]] – Margriet Palm, ''CWI, Amsterdam, Netherlands'' (September, 2014) |
| Line 12: | Line 32: |
| * [[http://discovery.dundee.ac.uk/portal/files/6142930/THESIS_FINAL_JOHN_KELLY.pdf|Mathematical Modelling of Cancer Growth and Development: Adhesion, Stem Cells and Structure]], John Watson Kelly, University of Dundee, Scotland, September 2014 | * [[http://discovery.dundee.ac.uk/portal/files/6142930/THESIS_FINAL_JOHN_KELLY.pdf|Mathematical Modelling of Cancer Growth and Development: Adhesion, Stem Cells and Structure]] – John Watson Kelly, ''University of Dundee, Scotland'' (September, 2014) |
| Line 14: | Line 34: |
| * [[http://gradworks.umi.com/36/15/3615066.html|Modeling interactions between a tumor cell and its host epithelium]], Eline Boghaert, ''Princeton University'', (2014) | * [[http://gradworks.umi.com/36/15/3615066.html|Modeling interactions between a tumor cell and its host epithelium]] – Eline Boghaert, ''Princeton University'' (2014) |
| Line 16: | Line 36: |
| ==== 2014 ==== | |
| Line 18: | Line 37: |
| ==== 2013 ==== | |
| Line 22: | Line 42: |
| * [[http://etheses.nottingham.ac.uk/3139/|Integrative modelling of angiogenesis in the bovine corpus luteum]] – Sotiris Prokopiou, ''Ph.D. University of Nottingham, Centre for Mathematical Medicine and Biology, School of Mathematical Sciences'' (Feb, 2013) | * [[http://etheses.nottingham.ac.uk/3139/|Integrative modelling of angiogenesis in the bovine corpus luteum]] – Sotiris Prokopiou, ''Ph.D. University of Nottingham, Centre for Mathematical Medicine and Biology, School of Mathematical Sciences'' (February, 2013) |
| Line 27: | Line 47: |
| Line 32: | Line 51: |
| Line 34: | Line 52: |
| Line 42: | Line 59: |
| Line 46: | Line 62: |
* [[http://search.proquest.com/docview/304800235|Cell positioning in the Drosophila pupal retina]] – David Ernfrid Larson, ''Ph.D. Washington University, Division of Biology and Biomedical Sciences'' (Dec, 2007) |
* [[http://search.proquest.com/docview/304800235|Cell positioning in the Drosophila pupal retina]] – David Ernfrid Larson, ''Ph.D. Washington University, Division of Biology and Biomedical Sciences'' (Dec, 2007) |
| Line 51: | Line 66: |
| * [[http://www.mendeley.com/download/public/1324/280554252/1a384fd69b656e0922e40d00ec1fa49971e71ea5/dl.pdf|Tumour growth and response to ionizing radiation in a modified cellular Potts model]] – Daniel Lea,'' Master's Thesis, University of Surrey ''(2007) | * [[http://www.mendeley.com/download/public/1324/280554252/1a384fd69b656e0922e40d00ec1fa49971e71ea5/dl.pdf|Tumour growth and response to ionizing radiation in a modified cellular Potts model]] – Daniel Lea,'' Master's Thesis, University of Surrey ''(2007) |
| Line 53: | Line 68: |
| ==== 2005 ==== | |
| Line 54: | Line 70: |
| * [[https://www.universiteitleiden.nl/onderzoek/onderzoeksoutput/wiskunde-en-natuurwetenschappen/computational-modeling-of-angiogenesis-from-matrix-invasion-to-lumen-formation|Computational modeling of angiogenesis: from matrix invasion to lumen formation.]] -Sonja E.M. Boas, Ph.D. ''CWI and Leiden University ''(2005) | |
| Line 55: | Line 72: |
| ==== 2004 ==== |
CompuCell3D-based Ph.D. and Master Theses
2023
"Breaking Barriers in Multiscale Agent-Based Models: Effects of Cell Individuality on Viral Infection Treatment and A Path for Cross-Platform Validation" - Juliano Ferrari Gianlupi, Ph.D. Indiana University (August 2023)
2021
"Multicellular Multiscale Spatial Modeling of The Immune Response to Pathogens And Cancer" - Josua Oscar Aponte-Serrano, Ph.D. Indiana University (December 2021)
"Developing a multi scale cellular automata simulation model of a vascularised brain tumour environment to predict angiogenic potential of brain endothelial cells" - Elena Sophie Engstler, MSc in Neuroscience King's College London, University of London (September 2021) (and a poster)
"Modelling of Cell Movements and Aggregations During Early Nephrogenesis" - Pauli Tikka, Ph.D. University of Heidelberg (April 2021)
2020
"Modeling Cell Mediated Interactions in Epithelial Tissue Organization and Repair" Priyom Adhyapok, Ph.D. Indiana University, Department of Physics (August 2020)
2018
"Computational Modeling Of Metastatic Cancer Migration Through A Remodeling Extracellular Matrix" Yen T. Nguyen Master of Science Chemical Engineering Oklahoma State University Stillwater, Oklahoma (July 2018)
2016
"Integrative Modeling of Microcirculatory Transport and Cell Responses in Liver and Retinal Homeostasis and Disease" - Xiao Fu, Ph.D. Indiana University, Department of Physics (May, 2017)
2014
"Modeling Tissue Polarization and Symmetry Breaking in Development and Disease" – Julio M. Belmonte, Ph.D. Indiana University, Department of Physics (December, 2014)
Simulation of electrochemical and stochastic systems using just in time compiled declarative languages – Andy Somogyi, Ph.D. Indiana University, Department of Physics (December, 2014)
Modelos Formales para la Simulación de la Epidermis Humana – Carlos Alfonso Castaneda Marroquin, Universidad Autonome de Madrid, Spain (October, 2014)
High-throughput simulation studies of angiogenesis – Margriet Palm, CWI, Amsterdam, Netherlands (September, 2014)
Mathematical Modelling of Cancer Growth and Development: Adhesion, Stem Cells and Structure – John Watson Kelly, University of Dundee, Scotland (September, 2014)
Modeling interactions between a tumor cell and its host epithelium – Eline Boghaert, Princeton University (2014)
2013
Advances in modelling of epithelial to mesenchymal transition – T. Abdulla, Ph.D Loughborough University (June, 2013)
Modeling interactions between a tumor cell and its host epithelium – D.S. Laman Trip, Bachelor degree, Leiden University, Mathematical Institute (June, 2013)
Integrative modelling of angiogenesis in the bovine corpus luteum – Sotiris Prokopiou, Ph.D. University of Nottingham, Centre for Mathematical Medicine and Biology, School of Mathematical Sciences (February, 2013)
Modelagem e simulação de mobilidade celular – Eduarda D. Susin, Bacharel em Física, Universidade Federal do Rio Grande do Sul, Instituto de Física (2013)
2012
Multi-Scale Cell-Based Computational Models of Vertabrate Segmentation and Somitogenesis Illuminate Coordination of Developmental Mechanisms Across Scales – Susan D. Hester. Ph.D. Indiana University, Department of Physics (April, 2012)
Vascular Patterning and Its Application in Cancer and Choroidal Neovascularization – A. Shirinifard, Ph.D. Indiana University, Department of Physics (March, 2012)
2011
Mathematical modelling of cancer cell invasion of tissue: discrete and continuum approaches to studying the central role of adhesion – Vivi Andasari, Ph.D. University of Dundee, Divison of Mathematics (2011)
Essential operating principles of cellular morphogenesis – Jesse Aaron Engelberg, Ph.D. University of California, San Francisco with the University of California, Berkeley (2011)
Emergent networks: A slime mold simulation – Niklas B. Semmler, Bachelor Opleiding Kunstmatige Intelligentie, University of Amsterdam, Faculty of Science (June, 2011)
2009
Cell based 3 dimensional computational model for gastrulation in chick embryos – Willemijn Magda Elly Maria Spoor, Ph.D. Dundee University, College of Life Sciences (2009)
2007
Cell positioning in the Drosophila pupal retina – David Ernfrid Larson, Ph.D. Washington University, Division of Biology and Biomedical Sciences (Dec, 2007)
Dynamic spatio-temporal interaction of morphogens, forces and growth in embryonic morphogenesis – Ying Zhang, Ph.D. Indiana University, Department of Physics (2007)
Tumour growth and response to ionizing radiation in a modified cellular Potts model – Daniel Lea, Master's Thesis, University of Surrey (2007)
2005
Empirical Evaluation of Design Patterns in Scientific Application – Kedar Aras, Master's Thesis, Univ. of Notre Dame, Dept. of Computer Science & Eng. (2005)
Computational modeling of angiogenesis: from matrix invasion to lumen formation. -Sonja E.M. Boas, Ph.D. CWI and Leiden University (2005)
2004
BIOLOGO: A Domain-Specific Language For Morphogenesis – Trevor M. Cickovski, Master's Thesis, Dept. of Computer Science & Eng., Univ. of Notre Dame (2004)