Thomas Vogel

Assistant Professor of PhysicsThe University of North Georgia, Dahlonega, GA 30597

Phone: 706-408-7230; E-mail: tvogel@ung.eduPublications online: scholar.google.com/citations?user=JTfD4akAAAAJ

Background / Research Interests

statistical physics; soft matter systems / biophysics; material science; soft–hard-matterinterfaces; algorithm development; supercomputing

Education

Nov 09 Ph.D. in Physics: University of Leipzig, Germany Structural Behaviorof Polymers from Monte Carlo Studies of Coarse-Grained Models.Supervisor: Dr. W. Janke; Grade: magna cum laude; Minor: Linguistics

Feb 04 Diplom in Physics: University of Leipzig, Germany HP Proteins on RegularLattices and Homopolymer Collapse. Supervisor: Dr. W. JankeGrade: very good; Minor: Computer Science

Positions and Experience

Aug 17 – present Assistant Professor at University of North GeorgiaPhysics Department• gen-ed courses: “Astronomy” and “College Physics”• developing undergraduate student research

Aug 15 – Jul 17 Visiting Assistant Professor at Stetson UniversityPhysics Department• upper-level courses: “Modern Physics”, “Quantum mechanics”,• upper-level courses: “Mechanics”, and “E&M”• gen-ed courses: “Astronomy” and “College Physics”• gen-ed courses: “Energy for a Sustainable Future”• simulations of metals and hybrid systems• developing undergraduate student research

Apr 13 – Aug 15 Los Alamos National Laboratory, Theoretical DivisionPostdoc; Advisor: Danny Perez, Arthur F. Voter• simulations of contaminated metals and material defects• developing higher-dimensional generalized ensemble techniques• implemented generalized ensemble molecular dynamics techniques

Thomas Vogel

Nov 10 – Mar 13 The University of Georgia, Athens, GA (Postdoc)Center for Simulational Physics; Advisor: David P. Landau• took leading part in collaboration with UTK and Vanderbilt U• worked on formation of lipid bilayer membranes• developed massively parallel Wang–Landau Monte Carlo scheme• co-supervised graduate student research projects

Mar 10 – Apr 10 Technion - Israel Institute of Technology (Visiting researcher)Computational Physics Group; Host: Joan Adler• worked on carbon nanotube modelling and polymer nanotubes

Sep 09 – Oct 10 Julich Research Centre, Germany (Postdoc)Institute of Solid State Research; Advisor: Michael Bachmann• worked on adsorption of polymers at nanostrings• took leading part in collaboration with Supercomputing Centre• performed basic research on range-dependent potentials• used optimization algorithms and analytical approaches

Grants

• 2012 XSEDE Startup grant: 200 000 SU at TACC Sun Constellation Cluster (Ranger)

• 2013 XSEDE Research grant: 1 140 000 SU at TACC Dell PowerEdge C8220 Cluster(Stampede)

• 2014 Institutional Computing grant: 2 000 000 CPUh at Los Alamos computers

Further Professional Skills

Natural language fluency: German (native); English, Spanish (full professional proficiency)

Experience in high-performance computing: Texas Advanced Computing Center (TACC:ranger, stampede); Julich Supercomputing Centre (NIC: jump, juropa); Georgia AdvancedComputing Resource Center (GACRC: zcluster); and others

Current Referee Duties / Peer Review

Active referee for the scientific journals:

• Physical Review Letters, Physical Review B & E

• Journal of Chemical Theory and Computation

• The Journal of Chemical Physics

• Computer Physics Communications (Excellence in Reviewing Award 2013)

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Thomas Vogel

• The Journal of Physical Chemistry

• Journal of Magnetism and Magnetic Materials

• and others

Publications

Publications online: scholar.google.com/citations?user=JTfD4akAAAAJ

Peer reviewed journal articles:

1. D. Perera, T. Vogel, D.P. Landau, Magnetic phase transition in coupled spin–latticesystems: A replica-exchange Wang–Landau study, Phys. Rev. E 94, 043308 (2016)

2. T. Vogel and D. Perez, Towards an optimal flow: Density-of-states-informed replica-exchange simulations, Phys. Rev. Lett. 115, 190602 (2015)

3. J. Gross, T. Vogel, and M. Bachmann, Structural phases of adsorption for flexiblepolymers on nanocylinder surfaces, Phys. Chem. Chem. Phys. 17, 30702 (2015)

4. T. Vogel, J. Gross, and M. Bachmann, Thermodynamics of the Adsorption of FlexiblePolymers on Nanowires, J. Chem. Phys. 142, 104901 (2015)

5. G. Shi, T. Vogel, Y.-W. Li, T. Wust, and D.P. Landau, Effect of single-site muta-tions on hydrophobic–polar lattice proteins, Phys. Rev. E 90, 033307 (2014) (Editor’ssuggestion)

6. T. Vogel, Y.-W. Li, T. Wust, and D.P. Landau, Scalable replica-exchange frameworkfor Wang–Landau sampling, Phys. Rev. E 90, 023302 (2014)

7. D. Perez, T. Vogel, and B.P. Uberuaga, Diffusion and transformation kinetics ofsmall helium clusters in bulk tungsten, Phys. Rev. B 90, 014102 (2014)

8. C. Junghans, D. Perez, and T. Vogel, Monte Carlo and Molecular Dynamics in theMulticanonical Ensemble: Connections between Wang–Landau Sampling and Meta-dynamics, J. Chem. Theory Comp. 10, 1843 (2014)

9. L. Gai, T. Vogel, K. Maerzke, C. Iacovella, D.P. Landau, P.T. Cummings, andC. McCabe, Examining the Phase Transition Behavior of Amphiphilic Lipids inSolution Using Statistical Temperature Molecular Dynamics and Replica-ExchangeWang–Landau Methods, J. Chem. Phys. 139, 054505 (2013)

10. T. Vogel, Y.-W. Li, T. Wust, and D.P. Landau, Generic, Hierarchical Framework forMassively Parallel Wang–Landau Sampling, Phys. Rev. Lett. 110, 210603 (2013)

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Thomas Vogel

11. T. Vogel, T. Mutat, J. Adler, and M. Bachmann, Morphological Similarities betweenSingle-walled Nanotubes and Tubelike Structures of Polymers with Strong AdsorptionAffinity to Nanowires, Comm. Comp. Phys. 13, 1245 (2013) [pdf]

12. J. Gross, T. Neuhaus, T. Vogel, and M. Bachmann, Effects of interaction range onstructural phases of flexible polymers, J. Chem. Phys. 138, 074905 (2013)

13. T. Vogel and M. Bachmann, Adsorption of polymers at nanowires, Comp. Phys.Comm. 182, 1928 (2011)

14. T. Vogel and M. Bachmann, Conformational phase diagram for polymers adsorbedat ultrathin nanowires, Phys. Rev. Lett. 104, 198302 (2010)

15. T. Vogel, T. Neuhaus, M. Bachmann, and W. Janke, Thermodynamics of tubelikeflexible polymers, Phys. Rev. E 80, 011802 (2009)

16. T. Vogel, T. Neuhaus, M. Bachmann, and W. Janke, Ground-state properties oftubelike flexible polymers, Eur. Phys. J. E 30, 7 (2009)

17. S. Schnabel, T. Vogel, M. Bachmann, and W. Janke, Surface effects in the crystal-lization process of elastic flexible polymers, Chem. Phys. Lett. 476, 201 (2009)

18. T. Vogel, T. Neuhaus, M. Bachmann, and W. Janke, Thickness-dependent secondarystructure formation of tubelike polymers, EPL (Europhys. Lett.) 85, 10003 (2009)

19. T. Vogel, M. Bachmann, and W. Janke, Freezing and Collapse of Flexible Polymerson Regular Lattices in Three Dimensions, Phys. Rev. E 76, 061803 (2007)

Conference proceedings and invited articles:

20. T. Vogel, Y.-W. Li, and D.P. Landau, A practical guide to replica-exchange Wang–Landau simulations, J. Phys.: Conf. Ser. (2017), to be published

21. Z. Rosson, F. Hall, and T. Vogel, Orbital behavior around a non-uniform celestialbody, J. Phys.: Conf. Ser. 750, 012022 (2016)

22. T. Vogel and D. Perez, Accelerating the Convergence of Replica Exchange SimulationsUsing Gibbs Sampling and Adaptive Temperature Sets, Phys. Procedia 68, 125 (2015)

23. D. Perera, Y.-W. Li, M. Eisenbach, T. Vogel, and D.P. Landau, Replica exchangeWang–Landau sampling: Pushing the limits of Monte Carlo simulations for materialsscience, Proceedings of the 2015 TMS Annual Meeting (2015) [arXiv:1411.4212]

24. T. Vogel and D. Perez, Sampling in the multicanonical ensemble: Small He clustersin W, Phys. Procedia 57, 104 (2014)

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Thomas Vogel

25. Y.-W. Li, T. Vogel, T. Wust, and D.P. Landau, A new paradigm for petascale MonteCarlo simulation: Replica exchange Wang–Landau sampling, J. Phys.: Conf. Ser.510, 012012 (2014)

26. T. Vogel, Y.-W. Li, T. Wust, and D.P. Landau, Exploring new frontiers in statisticalphysics with a new, parallel Wang-Landau framework, J. Phys.: Conf. Ser. 487,012001 (2014)

27. T. Vogel, All the way to CUDA, Comp. Sci. Eng. 15(5), 6 (2013)

28. J. Gross, T. Neuhaus, T. Vogel, and M. Bachmann, Statistical Analysis of the Influ-ence of Interaction Ranges on Structural Phases of Flexible Polymers, Phys. Procedia53, 50 (2013)

29. T. Vogel, T. Mutat, J. Adler, and M. Bachmann, Accurate modeling approach for thestructural comparison between monolayer polymer tubes and single-walled nanotubes,Phys. Procedia 15, 87 (2011)

30. T. Vogel and M. Bachmann, Structural arrangements of polymers adsorbed at nanos-trings, Phys. Procedia 4, 161 (2010)

31. T. Vogel, M. Bachmann, and W. Janke, Freezing and Collapse of Flexible Polymers,In: U.H.E. Hansmann et al. (Eds.) From Computational Biophysics to SystemBiology (CBSB08), Proceedings. NIC Series, Vol. 40. John von Neumann Institutefor Computing (NIC), Julich (2008) [pdf]

Presentations

Invited talks:

1. Advanced Simulation Techniques in Biophysics and Nanotechnology, Colloquium,Embry–Riddle Aeronautical University, Daytona Beach, FL, 2017

2. Coarse-grained membrane simulations, Lecture, Eighth q-bio Summer School, Uni-versity of New Mexico, Albuquerque, NM, 2014

3. Monte Carlo methods, T-1 Lecture, Los Alamos National Laboratory, 2014

4. Sampling in the multicanonical ensemble. Wang–Landau, STMD, and metadynam-ics; with application to: Self-assembly of lipid molecules, T-6 Seminar, Los AlamosNational Laboratory, 2014

5. Coarse-Grained Approaches to Molecular Structure Formation, Oberseminar,Institute for Computational Physics, University of Stuttgart, 2010

6. Monte Carlo simulations of polymers interacting with nanowires, Technion, IsraelInstitute of Technology, Haifa, 2010

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Thomas Vogel

7. Coarse-Grained Approaches to Molecular Structure Formation, ASIM-WorkshopTrends in Computational Science and Engineering, Julich, 2010

8. Structural Behavior of Polymers from Monte Carlo Studies of Coarse-Grained Mod-els, Technion, Israel Institute of Technology, Haifa, 2009

9. Secondary structure formation of tubelike polymers, Universidad Complutense deMadrid, Spain, 2009

10. Polymer Chain Growth on Lattice, CBBP Seminar Series, Lund, Sweden, 2006

Contributed talks:

12. Thermodynamics of the adsorption of flexible polymers on nanowires and cylindersurfaces, 29th Annual CSP Workshop, The University of Georgia, Athens, GA, 2016

13. Gibbs-sampling enhanced replica-exchange molecular dynamics, 28th Annual CSPWorkshop, The University of Georgia, Athens, GA, 2015

14. Sampling in the multicanonical ensemble. Wang–Landau, STMD, and metadynamics;with application to: Small He clusters in W, T-1 Seminar, Los Alamos NationalLaboratory, 2014

15. Monte Carlo and Molecular Dynamics in the Multicanonical Ensemble: Connectionsbetween Wang-Landau Sampling and Metadynamics, APS March Meeting, Denver,CO, 2014

16. Sampling in the multicanonical ensemble: Small He clusters in W, 27th Annual CSPWorkshop, The University of Georgia, Athens, GA, 2014

17. Generic parallel Wang-Landau sampling for complex systems, APS March Meeting,Baltimore, MD, 2013

18. Amphiphilic lipids in solution: a simulational study of lipid bilayer formation, APSMarch Meeting, Baltimore, MD, 2013

19. Applications of parallel Wang-Landau sampling, 26th Annual CSP Workshop, TheUniversity of Georgia, Athens, GA, 2013

20. Parallel Wang–Landau study of amphiphilic molecules, APS March Meeting, Boston,MA, 2012

21. Morphological similarities of carbon nanotubes and polymers adsorbed on nanowires,24th Annual CSP Workshop, The University of Georgia, Athens, GA, 2011

22. The conformational phase diagram for adsorbed polymers, Conference on Computa-tional Physics (CCP 2010), Trondheim, Norway, 2010

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Thomas Vogel

23. Polymers at nanowires: The conformational phase diagram for adsorbed polymers,Spring Meeting of the German Physical Society, Regensburg, 2010

24. Polymers at nanowires: The conformational phase diagram for adsorbed polymers,23rd Annual CSP Workshop, The University of Georgia, Athens, GA, 2010

25. Secondary structure formation of tubelike polymers (short version), Spring Meetingof the German Physical Society, Dresden, 2009

26. Secondary structure formation of tubelike polymers, Saxonian Theory Seminar, Leipzig,2009

27. Freezing and collapse of flexible lattice polymers, 18th International Workshop onLattice Field Theory and Statistical Physics (LEILAT08), Leipzig, 2008

28. Ground-state properties of thick flexible polymers, Spring Meeting of the GermanPhysical Society, Berlin, 2008

29. Freezing and collapse of flexible polymers, 8th International NTZ-Workshop on NewDevelopments in Computational Physics (CompPhys07), Leipzig, 2007

30. Simple protein models, NTZ-Workshop Protein Folding and Substrate Specificity(ProtFold05), Leipzig, 2005

31. Collapse of Long Lattice Polymers, Spring Meeting of the German Physical Society,Regensburg, 2004

Conference Poster Presentations

1. Effect of Mutations on HP Lattice Proteins, 26th Annual CSP Workshop, The Uni-versity of Georgia, Athens, GA, 2013; APS March Meeting, Baltimore, MD, 2013

3. Effects of the potential width on the folding behavior of flexible polymers, BioScience2012, Julich, 2012

4. Parallel Wang–Landau study of micelle formation, 25th CSP Workshop, Athens, GA,2012

5. Conformational phase diagram for polymers adsorbed at ultrathin nanowires (up-dated), Workshop “Theory and Computer Simulation of Polymers”, Moscow, 2010;International Soft Matter Conference, Granada, Spain, 2010

7. Conformational phase diagram for polymers adsorbed at ultrathin nanowires,24th Umbrella Symposium, Julich, 2010

8. Thermodynamics of tubelike flexible polymers, Julich Soft Matter Days, Bonn, 2009

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Thomas Vogel

9. Secondary structure formation of tubelike polymers, 34th Conference of the MiddleEuropean Cooperation in Statistical Physics (MECO34), Leipzig, 2009

10. Freezing and Collapse of Flexible Polymers, Workshop “From Computational Bio-physics to Systems Biology” (CBSB08), Julich, 2008

11. Ground-State Properties of Thick Flexible Polymers, 33th Conference of the MiddleEuropean Cooperation in Statistical Physics (MECO33), Puchberg, Austria, 2008;9th International NTZ-Workshop on New Developments in Computational Physics(CompPhys08), Leipzig, 2008

13. Collapse and Freezing Transitions of Polymers on Regular Lattices 7th NTZ-Work-shop on Computational Physics (CompPhys06), Leipzig, 2006; CECAM Tutorial“Programming Parallel Computers”, Julich, 2007; Spring Meeting of the GermanPhysical Society, Regensburg, 2007

16. Application of New Chain-Growth Algorithms for Lattice Polymers, Spring Meetingof the German Physical Society, Dresden, 2006

17. Coarse-Grained Polymer Models: On-Lattice vs. Off-Lattice, Spring Meeting of theGerman Physical Society, Berlin, 2005; 30th Conference of the Middle EuropeanCooperation in Statistical Physics (MECO30), Cortona, Italy, 2005; 4. BiotechDay, Leipzig, 2005; 6th NTZ-Workshop on Computational Physics (CompPhys05),Leipzig, 2005

21. HP Proteins on Generalized Lattices, Winter School on Computational Soft Mat-ter, Bonn, 2004; Spring Meeting of the German Physical Society, Regensburg, 2004;3. Biotech Day, Leipzig, 2004

24. Untersuchung des 2D Ising-Modells mit Brascamp-Kunz Randbedingungen, SpringMeeting of the German Physical Society, Dresden, 2003

Professional Memberships

since 2003 Member of the German Physical Societysince 2010 Member of the American Physical Society

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Thomas Vogel

Awards and Highlights

Recent awards

• Excellence in Reviewing, Computer Physics Communications, 2013

Computer Physics Communications

2013

Thomas Vogel

Dr.�N.S.�Scott, Editor-in-Chief Ysabel�Ermers, Publisher

• Outstanding Young Researcher Award, From Computational Biophysics to SystemsBiology (CBSB) 2015

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Thomas Vogel

Science Highlights

• Two papers highlighted on the Physical Review E website, week of Sept. 15, 2014

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