Dr. Nikolaos Sfakianakis Curriculum Vitae Contact Information Address : Institute of Applied Mathematics Heidelberg University Im Neuenheimer Feld 205 D-69120, Heidelberg, Germany Telephone : +49 6221-54 14137 E-mail : [email protected] Web page : https://sites.google.com/view/nikolaos-sfakianakis/

Education • 09.2003 – 02.2009 : Ph.D. in Applied Mathematics at the : — University of Crete (advisor Ch. Makridakis), and partly in — Ecole´ Normale Sup´erieureParis (advisor B. Perthame), and — Wolfgang Pauli Institute Vienna (advisor Chr. Schmeiser) • 09.2001 – 06.2003 : Pause in studies due to military service • 09.1998 – 12.2000 : M.Sc. in Applied Mathematics at the : — University of Crete (advisor Ch. Makridakis) • 09.1992 – 12.1997 : B.Sc. in Mathematics at the : — Dept. Mathematics, University of Crete.

Academic Appointments • 03.2017 – today : Heidelberg University Habilitant - Research Associate Group leader : Prof. Dr. Anna Marciniak-Czochra • 10.2014 – 12.2016 : Johannes Gutenberg University Mainz Research Associate Group leaders : Prof. Dr. Alan Rendall Prof. Dr. Maria Lukacova • 10.2012 – 09.2014 : Alexander von Humboldt Foundation Research Fellow Project title : “Efficient entropy stable schemes on non-uniform mesh for non-linear balance laws” • 03.2011 – 09.2012 : Johannes Gutenberg University Mainz Research Associate Group leader : Prof. Dr. Maria Lukacova • 03.2009 – 02.2011 : University of Vienna & Austrian Academy of Sciences Postdoc researcher Group leader : Prof. Dr. Chr. Schmeiser Nikolaos Sfakianakis 2

• 10.2003 – 02.2009 : University of Crete PhD Dept. Mathematics & Applied Mathematics, Thesis title : “Finite Differences schemes on non-uniform meshes for Hyperbolic Conservation Laws” Thesis advisor : Prof. Ch. Makridakis • 02.2008 – 02.2009 : WPI Vienna Marie-Curie research training fellow Project title : “Differential Equations with Applications in Science and Engineering (DEASE)” Scientific responsible : Prof. Dr. Chr. Schmeiser • 10.2007 – 01.2008 : ENS Paris Marie Curie research training fellow Project title : “Modelling, mathematical methods and computer simula- tion of Tumor growth and therapy” Scientific responsible : Prof. B. Perthame

Research Appointments • 03.2017 – today : “SFB 873 : Maintenance and Differentiation of Stem Cells in Develop- ment and Disease” Role : Mathematical modelling and numerical simulations Coordinator : A. Marciniak-Czochra (math. Heidelberg) • 10.2014 – 12.2016 : “Modeling and simulation of cancer cell invasion” Role : co-PI Collaborators : M. Lukacova (math. Mainz) N. Hellmann (Bol. Biophys. Mainz) • 01.2015 – 06.2015 : “Evolution of endothermy” Role : co-PI Collaborators : E.M. Griebeler (zool. Mainz) • 05.2014 – 05.2015 : “Bayesian Parameter Identification and Uncertainty Quantification in Systems Biology : A case study for the Drosophila Gap Gene System” Role : co-PI Collaborators : M. Hanke-Bourgeois (math. Mainz) S. Legewie (mol. biol. Mainz) • 04.2014 – 03.2015 : “Mathematical modeling and numerical simulations of the consequences of heterogeneity in cancer cell populations” Role : co-PI Collaborators : M. Lukacova (math. Mainz) • 10.2012 – 09.2014 : “Efficient entropy stable schemes on non-uniform mesh for non-linear balance laws” Role : PI Collaborator : M. Lukacova (math. Mainz) Nikolaos Sfakianakis 3

• 10.2013 – 03.2014 : “Numerical simulation of reaction-diffusion-taxis equations with applica- tions in cancer modeling” Role : co-PI Collaborators : M. Lukacova (math. Mainz) N. Hellmann (Bol. Biophys. Mainz) • 04.2012 – 09.2012 : “Numerical study of Chemotaxis and Chemokinesis” Role : co-author Collaborators : M. Lukacova (math. Mainz) N. Hellmann (mol. biophys. Mainz) • 01.2011 – 12.2012 : “Mesh adaptation techniques and applications in mathematical evolution and physics” Role : Thematic program organizer, WPI Vienna Collaborator : M. Lukacova (math. Mainz)

Research Interests A. Multiscale study of Cancer Growth and Tissue Formation This is the main topic of my work and is comprised of several complementary investigations. Due to specific biological reasons related to the role of stem cells, the progression of cancer is studied in tandem to the formation of tissue and organs. Similarly, I give in my work particular emphasis on the role of cell stemness both in the growth of cancer and the formation of organs. My aim is to study these biological processes from different scales, and deduce a unifying mathematical description. In effect, the processes that I consider range from the subcellular level to the macroscopic level of tumor and tissue growth.

Cytoskeleton Dynamics & Live Cell Motility Modelling, analysis, development of numerical methods, and simulations for the lamellipodium of living cells and the ensuing cell motility. This motility mechanism is employed by fast moving cells ; and cancer cells in particular. The model we develop is termed Filament Based Lamellipodium Model (FBLM) and follows from energy minimization principles and variational techniques. It is a two-phase, fourth order parabolic delay model that describes the mechanical properties of the actin-filaments. It is numerically solved by our own (and problem-specific) Finite Element Method (FEM). The analysis of the FBLM is very challenging ; recently we were able with Li Chen (Mannheim) to do a break-through and unlock the analytical difficulties of the model. With the FBLM-FEM we reproduce realistic experimental scenarios of various shapes of moving cells inside complex chemically and haptically environments. My work extends over all aspects, i.e. modelling, analysis, scientific computing, and collabo- ration with the experimentalists. Most notably, I have conceived, developed, implemented, and maintained the FEM. I am leading a small group in Germany that works on this topic. Overall, our work in this topic constitutes currently the state of the art in the field of actin- based cell motility. Nikolaos Sfakianakis 4

Collaborators : — Christian Schmeiser (math. Univ. of Vienna, Austria) — Dietmar Olz¨ (math. Univ. of Queensland, Australia) — Angelika Manhart (math. Courant Inst., USA) — Diane Peurichard (INRIA Paris, France) — Vic Small (mol. biol., IMBA Vienna, Austria) — Aaron Brunk (math. Mainz, Germany) — Niklas Kolbe (math. Mainz, Germany)

Cancer Growth and Invasion Modelling, analysis, and development of numerical methods for the growth of cancer, the invasion of the extracellular matrix, and the role of the cancer-stem cells (CSCs). From a modelling point of view, we address the biological processes responsible for the tran- sition of the (more) common epithelial cancer cells (ECCs) to their metastatic state as CSCs and their subsequent invasion of the ECM. We develop models along two directions : deter- ministic/macroscopic (in the form of advection-reaction-diffusion), as well as hybrid determi- nistic/macroscopic — stochastic/atomistic equations. For the macroscopic-deterministic models we have developed a series of Implicit Explicit Finite Volume methods over uniform as well as over adaptively reconstructed meshes (h-refinement). Analytically, we have proved for the macroscopic deterministic model, the existence, unique- ness, and boundedness of classical solutions. The hybrid atomistic-macroscopic model we propose is novel in the literature. It captures the proper dynamics as well as the proper numbers of CSCs in the cancer invasion of the environment. We have thus far developed the model in 2- and 3- dimensions and reproduced a number of realistic in-vitro experiments and currently work to extend the model to include collective cancer cell migration. Collaborators : — Mark Chaplain (math., St. Andrews, UK) — Anotida Madzvamuse (math., Univ. of Sussex, UK) — Jose-Antonio Carrillo (math., Imperial, UK) — Niklas Kolbe (math., Univ. of Mainz, Germany) — Nadja Hellmann (bioph. Univ. of Mainz, Germany) — Jan Giesselmann (math., Univ. of Stuttgart, Germany) — Maria Lukacova (math., Univ. of Mainz, Germany) — Jana Katuchova (med., Univ. of Kosice, Slovakia)

Stemness in health and disease The role of stem cells is fundamental in biological processes in health and disease. So does it appear in my work as well : Nikolaos Sfakianakis 5

• Acute Myeloid Leukemia (AML) : Mathematical modelling and analysis of the mutation, proliferation, cellular death and of other dynamic events that occur during the development of leukemia. Contrary to the usual literature, the model we propose includes the mutations of the leukemic clones as a continuum (structured) variable and allows us thusly to include epigenetic mutations and small variation in the evolution of the disease. Collaborators : — Anna Marciniak-Czochra (math. Heidelberg Univ.) — Thomas Stiehl (math. Heidelberg Univ.) • Limb remodelling : Some lizards possess the remarkable property that the remodel- ling time of their limbs (if cut) is independent of the position of the cut. This is a major question in biological research, and has not been yet addressed in mathematical terms. I currently develop, along with an expert in the modelling of organogenesis, a new model that can inherently reproduce the above property and in effect constitutes a game changer in the corresponding field of mathematical modelling. Collaborators : — Dagmar Iber (math., ETH Z¨urich, Switzerland).

B. Evolution of Dinosaur birds This line of my work belongs in the field of Theoretical Ecology and deals with the modeling of the energy uptake and body mass evolution of vertebrates. The model we propose is able to distinguish between endotherms and ectotherms based on the evolution of the their mass. We then structure the evolution of species according to their mass and endothermicity. The evolutionary model we propose is a (density) macroscopic deterministic one which, for small mutations, takes the form of a parabolic Lotka-Volterra system. We solve it numerically using a high order, robust Finite Volume method equipped with Adaptive Mesh Reconstruction techniques. Collaborators : — Eva Maria Griebeler (zool., Univ. of Mainz, Germany) — Alan Rendall (math. Univ. of Mainz, Germany) — Jan Werner (zool., Univ. of Mainz, Germany) — (commun.) Benoit Perthame (math., Univ. Paris 6, France)

C. Numerical Analysis & Scientific Computing In all the above problems I have been developing own and problem specific numerical methods. These are mostly Finite Element, Finite Volume, or Finite Differences for Partial Differential Equations. Still my work involves the development and analysis of more elaborate numerical techniques.

Adaptive Mesh Reconstruction/Refinement Methods Nikolaos Sfakianakis 6

Development of r-, h-, and hr-refinement techniques for a wide range of problems, spanning from Conservation Laws, and Hamilton-Jacobi equations to Euler systems and to Advection- Reaction-Diffusion models arising in Mathematical Biology. In addition to the development of these methods, we give special emphasis in the correspon- ding numerical analysis of the r-refinement and in particular in its stabilization properties. We have derived a tool for the analysis of the r-refinement and include (to my knowledge for the first time in the literature) both the reconstruction of the mesh and the time evolution of the numerical solution. Collaborators : — Maria Lukacova (math., Univ. of Mainz, Germany) — Charalambos Makridakis (math., Univ. of Sussex, UK) — Jan Giesselmann (math., RWTH Aachen, Germany) — Niklas Kolbe (math., Univ. of Mainz, Germany)

Parameter elimination technique with application to gap gene systems Development of a particular parameter-elimination/model-reduction technique with applica- tions in ill-posed inverse parameter estimation problems on large systems of (Ordinary and Partial) Differential Equations. We employ sublinear regularization terms and deduce para- meter sets that reproduce the experimental data while decreasing the number of parameters of the model. The biological application we use for the development of the method is the gap gene circuit of the Drosophila melanogaster. Collaborators : — Martin Hanke-Bourgeois (math. Univ. of Mainz, Germany) — Martitn Simon (math. Univ. Mainz, Germany) — Stefan Legewie (mol. biol., IMB Mainz, Germany)

Publications Each work is characterized by its main mathematical focus as (M) for modelling, (A) for analysis of PDEs, (SC) for scientific computing, (NA) for numerical analysis. Moreover, the characterization (corr) indicates that I was the corresponding author in the particular publication and (alph) that the authorship is in alphabetical order.

A. Live Cell Motility • (NA, M, corr) N. Sfakianakis and A. Brunk, “Stability, convergence, and sensitivity analysis of the Filament Based Lamellipodium Model and the corresponding FEM”, Bull. Math. Biol. arXiv : 1612.02345 (2018). • (SC, corr, alph) A. Brunk, N. Kolbe, and N. Sfakianakis, “Chemotaxis and haptotaxis on a cellular level”, in Theory Num. and Applications of Hyperbolic Problems edited by Chr. Klingenberg, M. Westdickenberg (2018). Nikolaos Sfakianakis 7

• (M, alph) A. Manhart, D. Oelz, Ch. Schmeiser, and N. Sfakianakis, “An extended Filament Based Lamellipodium Model produces various moving cell shapes in the presence of chemo- tactic signals”, J. Theor. Biol. 382 (2015) 244-258. • (SC, corr, alph) A. Manhart, D. Oelz, Ch. Schmeiser, and N. Sfakianakis, “Numerical treat- ment of the Filament Based Lamellipodium Model (FBLM)”, in Mod. Cell. Syst. edited by F. Matthaeus, F. Graw, J. Pahle, arXiv : 1505.04266 (2016). • (A, corr, alph) H. Freistuehler, Chr. Schmeiser, and N. Sfakianakis, “Stable length distri- butions in co-localized polymerizing and depolymerizing protein filaments”, SIAM J. Appl. Math. 72 (2012) 1428-1448. • (M, corr) (in review) N. Sfakianakis, D. Peurichard, A. Brunk, and Chr. Schmeiser, “The effect of cadherins in the motility of living cells. Modelling under the FBLM prism”, (preprint available upon request), (2018)

B. Cancer Growth & Cell Stemness • (A, corr, alph) J. Giesselmann, N. Kolbe, M. Lukacova, and N. Sfakianakis, “Existence and uniqueness of global classical solutions to a two species cancer invasion haptotaxis model”, (accepted in) Discrete Cont. Dyn.-B 22 (2018). • (M, corr) N. Sfakianakis, N. Kolbe, N. Hellmann, and M. Lukacova, “A multiscale approach to the migration of cancer stem cells : mathematical modelling and simulations”, Bull. Math. Biol. 79 (2016) 209-235. • (SC, NA, corr) N. Kolbe, J. Katuchova, N. Sfakianakis, N. Hellmann, and M. Lukacova, “A study on time discretization and adaptive mesh refinement methods for the simulation of cancer invasion: the urokinase model”, Appl. Math. Comput. 273 (2016) 353-376. • (M, corr, alph) N. Hellmann, N. Kolbe, and N. Sfakianakis, “A mathematical insight in the epithelial-mesenchymal-like transition in cancer cells and its effect in the invasion of the extracellular matrix”, Bull. Braz. Math. Soc. 47(1) (2016) 1-16. • (SC, corr, alph) N. Kolbe, M. Lukacova, N. Sfakianakis, and B. Wiebe, “Numerical simu- lation of a contractivity based multiscale cancer invasion model”, (accepted in) Mult. Mod. in Mechano- and Tumor Biology : Modeling, Homogenization, and Applications edited by A. Gerisch, R. Penta, and J. Lang, arXiv :1605.05060 (2016). • (M, corr) (in review) N. Sfakianakis, A. Madzvamuse, and M.A.J. Chaplain, “A hybrid, multiscale, two species modelling approach in the cancer invasion of the extracellular matrix”, arXiv : 1805.10541, (2018)

C. Evolution • (M, SC, lead math. author) J. Werner, N. Sfakianakis, E.M. Griebeler, and A. Rendall, “Energy intake functions and energy budgets of ectotherms and endotherms derived from their ontogenetic growth in body mass and timing of sexual maturation”, J. Theor. Biol. 7 (2018) 83-92. Nikolaos Sfakianakis 8

• (M) J.F. Mascari, D. Giacchero, and N. Sfakianakis, “Symmetries and Asymmetries of the Im- mune System: a categorification approach”, IEEE International Conference on Bioinformatics and Biomedicine (available upon request), (2017). • (SC, corr, alph) N. Sfakianakis, M. Simon, “Inverse modeling of the Drosophila gap gene system: Sparsity Promoting Bayesian parameter estimation and uncertainty quantification”, Proc. 10th Int. Comput. Systems Biology (2013) 86-91.

D. Adaptive Mesh Refinement methods • (NA, corr, alph) M. Lukacova and N. Sfakianakis, “Entropy dissipation of moving mesh adaptation”, J. Hyperbol. Differ. Eq. 11 (2014) 633-653. • (NA, corr, alph) M. Lukacova, and N. Sfakianakis, “Theoretical study of entropy dissipation of moving meshes”, AIMS on Appl. Math. 8 (2014) 931-940. • (NA) N. Sfakianakis, “Adaptive mesh reconstruction for hyperbolic conservation laws with total variation bound”, Math. Comput. 82 (2013) 129-151. • (NA, corr, alph) Chr. Arvanitis, Ch. Makridakis, and N. Sfakianakis, “Entropy conservative schemes and adaptive mesh selection for hyperbolic conservation laws”, J. Hyperbol. Differ. Eq. 7 (2010) 383-404. • (SC, corr, alph) (in review) N. Kolbe and N. Sfakianakis, “A flexible multidimensional rectangular mesh administration and refinement technique with application in cancer invasion models”, arXiv :1706.06191 (2017).

Theses • (NA – PhD Thesis) “Finite difference schemes on non-uniform meshes for Hyperbolic Conservation Laws”, University of Crete (Feb. 2009)

Research Grants Awarded : (in total ≈ 316.500 e) • 08.2018 : (≈ 1.500 e) Venue : European Mathematical Society & Simons Foundation. Title : “Days on multisclae modelling and simulation of cancer growth and tissue formation” Covers : financial support to organize a international meeting Role : co-organizer Collaborators : M.A.J. Chaplain (math. St. Andrews), J.-A. Carrillo (math. Imperial) • 09.2017 – today : (≈ 10.000 e) Venue : Future concept of Excellence Initiative II, Heidelberg. Title : “Modelling and Simulation of Stem Cell Differentiation : Atomistic, Population, and Macroscopic Scales” Covers : Travelling funds for 24 months Role : PI Nikolaos Sfakianakis 9

Collaborators : A. Marciniak-Czochra (math. Heidelberg) • 10.2014 – 09.2017 : (≈ 90.000 e) Venue : Max Planck Graduate Center, Mainz. Title : “Modeling and simulation of cancer cell invasion” Covers : 1 PhD position for 36 months (Niklas Kolbe) Role : Co-author and PhD Mentor Collaborators : M. Lukacova (math. Mainz), N. Hellmann (mol. biophys. Mainz), W. M¨uller-Klieser(pathol. Mainz) • 01.2015 – 06.2015 : (≈ 30.000 e) Venue : Center for Computational Sciences, Mainz. Title : “Evolution of endothermy” Covers : 1 Postdoc position for 6 months (Jan Werner) Role : PI (joint) Collaborators : E.M. Griebeler (zool. Mainz), J. Werner (zool. Mainz) • 05.2014 – 11.2014 : (≈ 30.000 e) Venue : Center for Computational Sciences, Mainz. Title : “Bayesian Parameter Identification and Uncertainty Quantification in Systems Biology : A case study for the Drosophila Gap Gene System” Covers : 1 PhD position for 12 months (Martin Simon) Role : PI (joint) Collaborators : M. Hanke-Bourgeois (math. Mainz), S. Legewie (mol. biol. Mainz) • 10.2012 – 10.2014 : (≈ 80.000 e) Venue : Alexander von Humboldt foundation. Title : “Efficient entropy stable schemes on non-uniform mesh for non-linear balance laws” Covers : 1 Postdoc position for 24 months (self) Role : PI • 04.2014 – 03.2015 : (≈ 30.000 e) Venue : Inneruniversit¨are Forschungsf¨orderung , Johannes Gutenberg- Universit¨atMainz. Title : “Mathematical modelling and numerical simulations of the consequences of heterogeneity in cancer cell populations.” Covers : 1 PhD position for 12 months (Niklas Kolbe & Bangwei She) Role : PI (joint) Collaborators : M. Lukacova (math. Mainz) • 10.2012 – 09.2013 : (≈ 15.000 e) Venue : Center for Computational Sciences, Mainz. Title : “Numerical simulation of reaction-diffusion-taxis equations with appli- cations in cancer modelling” Covers : 1 PhD position for 6 months (Niklas Kolbe) Role : PI (joint) Collaborators : M. Lukacova (math. Mainz), N. Hellmann (mol. biophys. Mainz) Nikolaos Sfakianakis 10

• 04.2012 – 09.2012 : (≈ 30.000 e) Venue : Center for Computational Sciences, Mainz. Title : “Numerical study of Chemotaxis and Chemokinesis” Covers : 1 Postdoc position for 6 months (self) Role : Co-author Co-authors : M. Lukacova (math. Mainz), N. Hellmann (mol. biophys. Mainz)

Distinctions • 06.2013 : Reception by the President of Germany Mr. Joachim Gauck. • since 10.2012 : (lifetime) Fellow of the Alexander von Humboldt Foundation. • 09.2004 – 09.2008 : PhD fellowship from the Greek State Scholarship Foundation (I.K.Y.) in the field “Numerical & Applied Analysis”. Received after written competition in Greek national level. • 10.2003 – 09.2004 : Grant from the Maria M. Manasaki Foundation as a reward for excellent performance in graduate studies.

Organization of Workshops & Seminars • 10.2012 : Workshop : “Days on multiscale modelling of cancer growth and tissue formation” Venue : Institute Mittag-Leffler Co-organizers : M. Chaplain (Univ. St. Andrews), J.-A. Carrillo (Imperial). • 10.2012 : Workshop : “Cell biology and physiology : PDE models” Venue : Archimedes Center ACM Co-organizers : B. Perthame (Univ. Paris 6), C. Schmeiser (Univ. Vienna), J. Clai- rambault (Univ. Paris 6), D. Manoussaki (Tech. Univ. of Crete), Th. Katsaounis (Univ. of Crete). • 07.2012 : Minisymposium : “Modeling and Simulations of Biopolymer Meshworks” Venue : NIMBios and University of Tennessee, Knoxville. Co-Organizer : D.Oelz (Univ. of Queensland). • 12.2011 : Workshop : “Efficient mesh adaptation methods for evolution problems : theory and applications” Venue : Wolfgang Pauli Institute, Vienna Co-Organizer : M. Lukacova (Univ. of Mainz).

Teaching Experience My teaching experience includes a wide range of courses both undergraduate and graduate. In particular, I have been teaching as lecturer at the Heidelberg University (Dept. of Mathematics), University of Mainz (Dept. of Mathematics), and at the Technical Education Institute of Crete (Dept. Business Administration), and as teaching assistant at the University of Crete (Depts. of Mathematics and Material Science), and at the University of Mainz (Dept. of Mathematics). Nikolaos Sfakianakis 11

As Lecturer (394 hours) • 10.2018 – 02.2019 : “Calculus of Variations and applications in Biology”, Dept. Mathema- (planned) tics, Heidelberg University(26h). The objective of this course is to present some fundamental components of the analysis of Hyperbolic Conservation Laws, as well as an introduction to the Finite Differences and Finite Volumes methods employed over linear and non-linear problems. • 04.2018 – 07.2018 : “Hyperbolic Conservation Laws : theory and numerical methods”, Dept. Mathematics, Heidelberg University (26h). The objective of this course is to present some fundamental components of the analysis of Hyperbolic Conservation Laws, as well as an introduction to the Finite Differences and Finite Volumes methods employed over linear and non-linear problems. • 04.2016 – 07.2016 : “Mathematical modelling of cancer”, Dept. Mathematics, University of Mainz (26h). The objective is to present three models of the literature that describe the invasion of the extracellular matrix by two types of cancer cells. For each model, the corresponding biological information was presented, followed by the modelling, (some) analysis, and numerical simulations. • 10.2014 – 02.2015 : “Introduction to the Calculus of Variations with applications in Biology”, Dept. Mathematics, University of Mainz (26h). The aim of this course is to traverse the path from classical Calculus of Variations to modern applications in Mathematical Biology. In particular, we started with the basic theory of variations and concluded with the actin-driven cell motility modelling and simulations. The students participating were graduate and advanced undergraduate with a strong interest in applied mathematics and mathematical Biology. • 04.2013 – 07.2013 : “Mathematical Biology”, Dept. Mathematics, University of Mainz (52h). • 04.2012 – 07.2012 : “Mathematical modelling in Biology”, Dept. Mathematics, University of Mainz (52h). The objective of these courses is to provide an overview of some of the most well known problems in mathematical Biology : viral dynamics, chemotaxis driven bacterial move- ment, adaptive dynamics and Darwinian evolution. The lectures include the derivation of the mathematical models, the analysis of the existence of solutions and their quali- tative behavior of the solutions, development and implementation of the corresponding numerical methods.

• 08.2005 – 07.2006 : “General Mathematics” (two semesters), Dept. of Business Management, Technological Educational Institute of Crete (110h+102h=212h). The objective of this course was to introduce Calculus as a tool to solve basic problems arising in Economy and Financing. The mathematical spectrum of the course ranged from the study of linear and quadratic functions to limits, series, derivatives, and integrals of functions of one and two real variables. Nikolaos Sfakianakis 12

As Teaching Assistant (754 hours) • 04.2016 – 12.2016 : “Analysis III”, Dept. Mathematics, University of Mainz (52h). The above mentioned courses provides an introduction to measure theory and to mani- folds.

• 10.2015 – 02.2016 : “Numerical Ordinary Differential Equations”, Dept. Mathematics, Uni- versity of Mainz (52h). • 04.2015 – 08.2015 : “Introduction to Numerics”, Dept. Mathematics, University of Mainz (52h). • 10.2014 – 02.2015 : “Numerical Partial Differential Equations”, Dept. Mathematics, Univer- sity of Mainz (52h). • 10.2011 – 02.2012 : “Numerical Partial Differential Equations”, Dept. Mathematics, Univer- sity of Mainz (52h). • 04.2011 – 07.2011 : “Introduction to Numerics”, Dept. Mathematics, University of Mainz (52h). The above mentioned courses provide an introduction to the numerical methods and techniques used in a wide variety of problems. The material extends from numerical linear Algebra to numerical intergation, splines and finite difference, finite volume and finite element methods for evolutionary PDEs.

• 09.2003 – 07.2007 : “Calculus II” (two semesters), “Calculus III”, “Analysis II”, “Alge- bra”, “General Mathematics II” (two semesters), “Numerical Solu- tion Differential Equations”, Dept. Mathematics, University of Crete (8x26h=208h). • 01.2002 – 06.2002 : “Analytic Geometry”, Dept. Mathematics, University of Crete (26h). • 09.1998 – 01.2001 : “Calculus I”, “Calculus II”, “Analysis I”, “Linear Algebra I”, “Linear Algebra II”, Dept. Mathematics, University of Crete (5x26h=156h). These courses cover a wide spectrum of basic curriculum of the department of Mathema- tics at the University of Crete. They extend from the first till the fifth semester of the local curriculum.

Teaching and Learning material I have written lecture notes (in English) for the courses : • “Introduction to the Calculus of Variations with applications in Biology” • “Hyperbolic conservation Laws : Theory and Numerical Methods

as well as exercise notes in Greek for the courses : • Vector Calculus : Line and surface integrals, Green, Gauss, and Stokes theorems. • ODEs : First order and systems of ODEs. • Algebra : Groups, rings, fields, polynomial spaces. • General Mathematics II : Calculus of real functions of 2 real variables. Nikolaos Sfakianakis 13

• Linear Algebra II : Eigenvector decomposition of matrices, Markov matrices, Cayley-Hamilton theorem. • Analysis II : Introduction to topology, series of number and functions.

Theses Supervision I have thus far supervised one PhD and ten Masters and Bachelor students. The problems that I share with my students are always close to my current research, and hence the mentoring process acquires also characteristics of a collaboration. This approach has been proven fruitful : with my PhD student we have published six works and submitted one more publications. Moreover, the parts of the master theses of three of my previous master students have been included in different publications.

Doctoral Theses • 09.2013 – 12.2017 : Niklas Kolbe, “A tumor invasion model for heterogeneous cancer cell populations : mathematical analysis and numerical methods”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) and N. Hellmann (bio- phys. Mainz)

Master Theses • 09.2015 – 02.2016 : Bettina Wiebe, “Numerical Simulations of Multiscale Cancer Invasion Models”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 02.2013 – 08.2014 : Alexander Bloch, “Numerical study of pattern formation and angioge- nesis”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 12.2012 – 07.2013 : Andreas Vogt, “Pursue of the non-constant coefficient problem on rea- listic Keller-Segel systems”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 12.2012 – 06.2013 : Niklas Kolbe, “Numerical methods for cancer growth and metastasis models ; Positivity-preserving finite volumes for stiff advection-reaction- diffusion equations”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 11.2012 – 06.2013 : Valon Korcaj, “Finite volume methods for stiff constrained Hamilton- Jacobi problems. Application in Adaptive Dynamics and Darwinian evo- lution”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 10.2012 – 03.2013 : Giovanni Ingrassia, “A nested combined adaptive mesh reconstruction – moving mesh method for hyperbolic conservation laws”, Politecnico di Torino. Co-supervised with M. Lukacova (math. Mainz), G. Puppo (math. In- sumbria), G. Ingrassia (math. Torino) Nikolaos Sfakianakis 14

• 09.2012 – 02.2013 : Sarah-Mona Michalke, “Entropy dissipation of mesh adaptation techni- ques”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz)

Bachelor Theses • 04.2016 – 06.2016 : Daniela Bauer, “On the convergence of WENO schemes”, Johannes Gu- tenberg University of Mainz. Co-supervised with M. Hanke-Bourgeois (math. Mainz) • 07.2014 – 08.2014 : Benjamin Georg, “Numerical study of slope limiters over non-uniform grids”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz) • 10.2013 – 02.2014 : Eva Johanna Horchler, “Numerical investigation of slope limiter for hy- perbolic Consevration Laws”, Johannes Gutenberg University of Mainz. Co-supervised with M. Lukacova (math. Mainz)

Fellowships & Memberships • 10.2012 – (life) : Fellow of the Alexander von Humboldt Foundation. • 01.2017 – today : Member of the European Society of Mathematical and Theoretical Bio- logy (ESMTB). • 08.2017 – today : Member of the Heidelberg Chapter of SIAM. • 03.2013 – 12.2017 : Member of the European Association for Cancer Research (EACR). • 09.2013 – today : Member of the Research Center Computational Sciences in Mainz.

(selected) Conferences & Meetings • 07.2019 (keynote) : International Conference on Mathematics (ICOMATH) 2019, Istanbul, Turkey. • 06.2018 (keynote) : International Conference on Mathematical Methods and Models in Biosciences (BIOMATH) 2018, Sofia, Bulgaria. • 03.2018 (invited) : Yearly meeting of the German Mathematical Society, Paderborn, Germany. • 10.2017 (invited) : PDE Models of Motility and Invasion in Active Biosystems, Oberwol- fach, Germany. • 09.2017 (invited) : Mathematical Physics of Living Systems, Cortona, Italy : “Live Cell Motility under the FBLM-FEM Prism : from Numerical Convergence to Cell-Cell Adhesion”. • 06.2017 (invited) : Modeling and computational approaches to Biology and Medicine, Rome, Italy :“Towards the Multiscale Modeling of Cancer Growth and Invasion : a Macroscopic and a Hybrid approach of the EMT ”. Nikolaos Sfakianakis 15

• 08.2016 : HYP 2016 International conference of Hyperbolic Problems : Theory, Numerics, Applications, Aachen : “Cancer growth and metastasis : Cellular level chemotaxis and haptotaxis”. • 07.2016 : ECMTB 2016, Nottingham : “Numerical investigation of moving cells via Filament Based Lamellipodium Model (FBLM)”, • 12.2015 (invited) : CGPW04, INI Cambridge. “Filament Based Lamellipodium Model (FBLM) modeling and numerical simulations”. • 06.2015 (invited) : 26th Biennial Numerical Analysis Conference, Glasgow : “Entropy dis- sipation of mesh adaptation techniques”. • 07.2014 : HYP 2014 International conference of Hyperbolic Problems : Theory, Numerics, Applications, Rio de Janeiro : “A finite element method for the simulation of motility of living cells”. • 06.2014 : ECMTB 2014, European Conference on Mathematical and Theoreti- cal Biology, Gothenburg : “Inverse modeling of Drosophila gap gene system : Sparsity promoting Bayesian parameter estimation and un- certainty quantification”. • 05.2014 (invited) : Sino-German Symposium on Modern Numerical Methods for Com- pressible Fluid Flows and Related Problems, Beijing. “The effect of mesh adaptation techniques on the dissipation of entropy”. • 02.2014 (invited) : Rhein-Main Arbeitskreis Mathematics of Computation, Marburg. “Mathematical modeling and numerical simulation of cancer dyna- mics”. • 11.2013 (invited) : 17th Gliwice Scientific Meetings, Gliwice. “Numerical study of cancer invasion of extracellular matrix”.

Languages Greek (native), English (proficient), German (fluent), French (conversant)

(more) Personal Data • Military rank : 2nd Lieutenant of Hellenic Air Force • Family status : Married, 2 children • Nationality : Greek Nikolaos Sfakianakis 16

References Group leader : Prof. Dr. Anna Marciniak-Czochra Inst. Applied Mathematics, Heidelberg University Im Neuenheimer Feld 205, 69120 Heidelberg, Germany e-mail : [email protected] tel : (+49)(0)6221-5414140

Academic mentor : Prof. Dr. Christian Schmeiser Facul. of Mathematics, University of Vienna Oskar-Morgenstern-Platz 1, 1090, Vienna, Austria e-mail : [email protected] tel : (+43)(1)4277-50645

Research collaborator : Prof. Mark Chaplain Mathematical Institute, Univ. St. Andrews North Haugh, KY16 9SS St. Andrews, UK e-mail : [email protected] tel : (+44)(0)1334-463799

Thesis advisor : Prof. Charalambos Makridakis Dept. Applied Mathematics, University of Sussex Pevensey 2 Building, Falmer Campus BN1 9QH Brighton, UK e-mail : [email protected] tel : (+44)(1)273-876617

Former group leader : Prof. Dr. Alan Rendall Inst. of Mathematics, Johannes Gutenberg University Staudingerweg 9, 55099 Mainz, Germany e-mail : [email protected] tel : (+49)(0)6131-3922269

Research collaborator, Prof. Dr. Nadja Hellmann Exper. Biophysics : Inst. of Molecular Biophysics, University of Mainz 55099 Mainz, Germany e-mail : [email protected] tel : (+49)(0)6131-3923567

Colleague & advisor : Prof. Benoit Perthame Laboratoire Jacques-Louis Lions, Sorbonne Universit´e F75252 Paris Cedex 05, France e-mail : [email protected] tel : (+33)(1)4427-8518