CRTC - Publications By Subject

Publications by Subject

(Some Publications may appear more than once)

Contents

Parallel Mesh Generation

Medical Image Computing

Parallel Runtime Systems

Sequential Mesh Generation

Problem Solving Enviroments

Other

By Year
By Subject

Parallel Mesh Generation

	1. Towards Distributed Semi-speculative Adaptive Anisotropic Parallel Mesh Generation Kevin Garner, Christos Tsolakis, Polykarpos Thomadakis and Nikos Chrisochoides. Published in AIAA Aviation Forum 2024, July, 2024 [PDF] [BibTex]

	2. Experience with Distributed Memory Delaunay-based Image-to-Mesh Conversion Implementation Polykarpos Thomadakis and Nikos Chrisochoides. Published in arXiv, August, 2023 [PDF] [BibTex]

	3. Towards Distributed 3D Adaptive Anisotropic Image-to-mesh Conversion For Biomedical Applications Kevin Garner, Fotios Drakopoulos and Nikos Chrisochoides. Poster in NanoBioTech 2023, July, 2023 [PDF] [BibTex]

	4. On the End-User Productivity of a Pseudo-constrained Parallel Data Refinement Method for the Advancing Front Local Reconnection Mesh Generation Software Kevin Garner, Polykarpos Thomadakis, Thomas Kennedy, Christos Tsolakis and Nikos Chrisochoides. Published in AIAA Aviation Forum 2019, June, 2019 [PDF] [BibTex]

	5. Hybrid RANS/LES Simulation of Vortex Breakdown Over a Delta Wing Beckett Y. Zhou, Nicolas R. Gauger, Christos Tsolakis, Juliette Pardue, Andrey Chernikov, Fotios Drakopoulos, Nikos Chrisochoides and Boris Diskin. In AIAA Aviation Forum 2019, Dallas, June, 2019 [PDF] [BibTex]

	6. Anisotropic Mesh Adaptation Pipeline For The 3D Laminar Flow Over a Delta Wing Christos Tsolakis and Nikos Chrisochoides. 2019 Modeling, Simulation, and Visualization Student Capstone Conference,, Suffolk, VA, April, 2019 [PDF] [BibTex]

	7. Image-To-Mesh Conversion Tool (I2MTool) for Image-Driven Simulations Joi Best, Kevin Garner, Daming Feng, Fotios Drakopoulos, Yixun Liu and Nikos Chrisochoides. Poster in Old Dominion University Undergraduate Research Symposium in Old Dominion University, February, 2019 [PDF] [BibTex]

	8. Parallel Anisotropic Unstructured Grid Adaptation Christos Tsolakis, Nikos Chrisochoides, Michael A. Park, Adrien Loseille and Todd Michal. 2019 AIAA SciTech Forum, San Diego, CA, January, 2019 [PDF] [BibTex]

	9. Image-To-Mesh Conversion Tool for Image-Driven Simulations Joi Best, Kevin Garner, Daming Feng, Fotios Drakopoulos, Yixun Liu and Nikos Chrisochoides. Poster in Virginia Space Grant Consortium, 2019 [PDF] [BibTex]

	10. Image-To-Mesh Conversion Tool for Image-Driven Simulations (Paper) Joi Best, Kevin Garner, Daming Feng, Fotios Drakopoulos, Yixun Liu and Nikos Chrisochoides. Virginia Space Grant Consortium, 2019 [PDF] [BibTex]

	11. Parallel Mesh Generation and Adaptivity Nikos Chrisochoides, Christos Tsolakis and Polykarpos Thomadakis. Invited talk in 27th International Meshing Roundtable, Albuquerque, NM, USA, October, 2018 [PDF] [BibTex]

	12. Fine-grained Speculative Topological Transformation Scheme for Local Reconnection Method Fotios Drakopoulos, Christos Tsolakis and Nikos Chrisochoides. Published in AIAA Aviation Forum 2018, Atlanta, Georgia, June, 2018 [PDF] [BibTex]

	13. Parallel Data Refinement Layer of a Telescopic Approach for Extreme-scale Parallel Mesh Generation for CFD Applications Nikos Chrisochoides, Andrey Chernikov, Thomas Kennedy, Christos Tsolakis and Kevin Garner. Published in AIAA Aviation Forum 2018, Atlanta, Georgia, June, 2018 [PDF] [BibTex]

	14. Stability of Advancing Front Local Reconnection for Parallel Data Refinement Kevin Garner, Thomas Kennedy, Christos Tsolakis and Nikos Chrisochoides. Published in Virginia Space Grant Consortium (VSGC) 2018 Student Research Conference, Norfolk, VA, April, 2018 [PDF] [BibTex]

	15. Efficient Core Utilization in a Hybrid Parallel Delaunay Meshing Algorithm on Distributed-Memory Cluster Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Published in 26th International Meshing Roundtable, 5-page research note, Barcelona, Spain, September, 2017 [PDF] [BibTex]

	16. Parallel Three-Dimensional Constrained Delaunay Meshing Andrey Chernikov, Christos Tsolakis and Nikos Chrisochoides. Invited talk in 2017 International Conference on Adaptive Modeling and Simulation, Verbania, Italy, June, 2017 [PDF] [BibTex]

	17. Parallel Constrained Delaunay Meshing Algorithm in Three Dimensions Christos Tsolakis, Andrey Chernikov and Nikos Chrisochoides. Published in 2017 Modeling, Simulation, and Visualization Student Capstone Conference, Suffolk, VA, April, 2017 [PDF] [BibTex]

	18. Integration of Parallel Data Refinement Method with Advancing Front Local Reconnection Mesh Refinement Software Kevin Garner, Thomas Kennedy and Nikos Chrisochoides. Published in Virginia Space Grant Consortium (VSGC) 2017 Student Research Conference, Williamsburg, VA, April, 2017 [PDF] [BibTex]

	19. A Hybrid Parallel Delaunay Image-to-Mesh Conversion Algorithm Scalable on Distributed-Memory Clusters Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Published in International Meshing Roundtable, September, 2016 [PDF] [BibTex]

	20. Parallel Two-Dimensional Unstructured Anisotropic Delaunay Mesh Generation of Complex Domains for Aerospace Applications Juliette Pardue and Andrey Chernikov. Published in 45th International Conference on Parallel Processing, Best Paper Award, acceptance rate 21.1, August, 2016 [PDF] [BibTex]

	21. Telescopic Approach for Extreme-scale Parallel Mesh Generation for CFD Applications Nikos Chrisochoides Published in AIAA Aviation, June, 2016 [PDF] [BibTex]

	22. Exascale-Era Mesh Generation For Medical Images Nikos Chrisochoides, Andrey Chernikov and Christos Tsolakis. Poster in Publisher SPL25, Brigham and Women's Hospital & Harvard Medical School, April, 2016 [PDF] [BibTex]

	23. Scalable 3D Hybrid Parallel Delaunay Image-to-Mesh Conversion Algorithm for Distributed Shared Memory Architectures Daming Feng, Christos Tsolakis, Andrey Chernikov and Nikos Chrisochoides. Published in 24th International Meshing Roundtable, Austin, Texas, October, 2015 [PDF] [BibTex]

	24. Toward Exascale-Era Parallel Mesh Generation Nikos Chrisochoides, Andrey Chernikov, Daming Feng, Christos Tsolakis and Scott Pardue. Published in 13th U.S. National Congress on Computational Mechanics, July, 2015 [PDF] [BibTex]

	25. Extreme-Scale Parallel Mesh Generation: Telescopic Approach Nikos Chrisochoides, Andrey Chernikov, Daming Feng and Christos Tsolakis. Published in 24th International Meshing Roundtable, 2015 [PDF] [BibTex]

	26. Overview of Parallel Mesh Generation and Optimizations Methods Andrey Chernikov, Suzanne Shontz and Nikos Chrisochoides. Published in SIAM Conference on Parallel Processing for Scientific Computing, Portland, February, 2014 [PDF] [BibTex]

	27. High Quality Real-Time Image-to-Mesh Conversion for Finite Element Simulations Panagiotis Foteinos and Nikos Chrisochoides. Published in 27th ACM International Conference on Supercomputing (ICS'13), pages 233 -- 242, Eugene, Oregon, June, 2013 [PDF] [BibTex]

	28. Multi-Layered Unstructured Mesh Generation Panagiotis Foteinos, Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Poster in 27th ACM International Conference on Supercomputing (ICS'13), Student Research Competition (SRC) Grand Finalist, June, 2013 [PDF] [BibTex]

	29. Multi-Dimensional Image-to-Mesh Conversion on Massively Parallel Systems Panagiotis Foteinos and Nikos Chrisochoides. Invited talk in Challenges in Massively Parallel Simulations using Unstructured Meshes, SIAM Conference on Parallel Processing for Scientific Computing, February, 2012 [PDF] [BibTex]

	30. Dynamic Parallel 3D Delaunay Triangulation Panagiotis Foteinos and Nikos Chrisochoides. Published in International Meshing Roundtable, Publisher Springer Berlin Heidelberg, pages 3 -- 20, Paris, France, 2012 [PDF] [BibTex]

	31. A Dynamic Parallel 3D Delaunay Triangulation Panagiotis Foteinos and Nikos Chrisochoides. Published in International Meshing Roundtable, pages 9 -- 26, October, 2011 [PDF] [BibTex]

	32. The Evaluation of an Effective Out-of-core Run-Time System in the Context of Parallel Mesh Generation Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, pages 164 -- 175, May, 2011 [PDF] [BibTex]

	33. Towards Exascale Parallel Delaunay Mesh Generation Nikos Chrisochoides, Andrey Chernikov, Andriy Fedorov, Andriy Kot, Leonidas Linardakis and Panagiotis Foteinos. Published in 18^th International Meshing Roundtable, pages 319 -- 336, Salt Lake City, Utah, October, 2009 [PDF] [BibTex]

	34. A Framework for Parallel Unstructured Grid Generation for Practical Aerodynamic Simulations George Zagaris, Shahyar Pirzadeh and Nikos Chrisochoides. Published in 47th AIAA Aerospace Sciences Meeting, to appear, Orlando, FL, January, 2009 [PDF] [BibTex]

	35. Three-Dimensional Delaunay Refinement for Multi-Core Processors Andrey Chernikov and Nikos Chrisochoides. Published in 22^nd ACM International Conference on Supercomputing, pages 214 -- 224, Island of Kos, Greece, June, 2008 [PDF] [BibTex]

	36. Parallel Mesh Generation Using COTS Nikos Chrisochoides Published in Invited Talk, Intel, Hillsboro, OR, May, 2008 [PDF] [BibTex]

	37. Parallel Mesh Generation for Medical Image Computing Nikos Chrisochoides Invited talk in SIAM Conference on Parallel Processing for Scientific Computing, Publisher SIAM, March, 2008 [PDF] [BibTex]

	38. Experience with Memory Allocators for Parallel Mesh Generation on Multicore Architectures Andrey Chernikov, Christos Antonopoulos, Nikos Chrisochoides, Scott Schneider and Dimitris Nikolopoulos. Published in 10^th International Conference on Numerical Grid Generation in Computational Field Simulations, Published on CD-ROM, Forth, Crete, Greece, September, 2007 [PDF] [BibTex]

	39. Parallel Mesh Generation For CFD Simulations of Complex Real-World Aerodynamic Problems George Zagaris, Shahyar Pirzadeh, Andrey Chernikov and Nikos Chrisochoides. Published in Scalable Solution Algorithms for Computational Mechanics in US National Congress on Computational Mechanics, San Francisco, CA, July, 2007 [PDF] [BibTex]

	40. Real-Time Non-Rigid Registration for IGNS: Mesh Generation Nikos Chrisochoides Published in Invited Joint Seminar with Waterloo Institute for Health Informatics Research and The Center f, March, 2007 [PDF] [BibTex]

	41. Parallel Unstructured Mesh Generation Using COTS: One Step Closer to Real-time Mesh Generation Nikos Chrisochoides Published in Invited talk in Computational Visualization Center (CVC), Institute of Computational Engineering an, February, 2007 [PDF] [BibTex]

	42. Parallel Graded Generalized Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 16^th Annual Fall Workshop on Computational Geometry, Northampton, MA, November, 2006 [PDF] [BibTex]

	43. Generalized Delaunay Mesh Refinement: From Scalar to Parallel Andrey Chernikov and Nikos Chrisochoides. Published in 15^th International Meshing Roundtable, Publisher Elsevier, pages 563 -- 580, Birmingham, AL, September, 2006 [PDF] [BibTex]

	44. Effective Out-of-Core Parallel Delaunay Mesh Refinement using Off-the-Shelf Software Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, April, 2006 [PDF] [BibTex]

	45. Out-of-Core Parallel Delaunay Refinement Method using COTS Andriy Kot and Nikos Chrisochoides. Invited talk in February, 2006 [PDF] [BibTex]

	46. Parallel 2D Graded Guaranteed Quality Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 14^th International Meshing Roundtable, Publisher Elsevier, pages 505 -- 517, San Diego, CA, September, 2005 [PDF] [BibTex]

	47. Parallel Out-of-Core Delaunay Refinement Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, September, 2005 [PDF] [BibTex]

	48. Out-of-Core Parallel Delaunay Mesh Generation Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in 17^th IMACS World Congress Scientific Computation, Applied Mathematics and Simulation, July, 2005 [PDF] [BibTex]

	49. Generation of Unstructured Meshes in Parallel Using an Advancing Front Method Yasushi Ito, Alan Shih, Anil Erukala, Bharat Soni, Andrey Chernikov, Nikos Chrisochoides and Kazuhiro Nakahashi. Published in 9^th International Conference on Numerical Grid Generation in Computational Field Simulations, San Jose, CA, June, 2005 [PDF] [BibTex]

	50. Multigrain Parallel Delaunay Mesh Generation: Challenges and Opportunities for Multithreaded Architectures Christos Antonopoulos, Xiaoning Ding, Andrey Chernikov, Filip Blagojevic, Dimitris Nikolopoulos and Nikos Chrisochoides. Published in 19^th ACM International Conference on Supercomputing, pages 367 -- 376, Cambridge, MA, June, 2005 [PDF] [BibTex]

	51. Parallel Mesh Generation Using COTS Software Nikos Chrisochoides Published in Keynote talk at the Annual Computational Science and Engineering Research Symposium, University of I, April, 2005 [PDF] [BibTex]

	52. Boundary Refinement in Delaunay Mesh Generation Using Arbitrarily Ordered Vertex Insertion Demian Nave and Nikos Chrisochoides. Published in 17th Canadian Conference on Computational Geometry, pages 282 -- 285, 2005 [PDF] [BibTex]

	53. Practical Performance Model For Optimizing Dynamic Load Balancing of Adaptive Applications Kevin Barker and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, pages 28.a -- 28.b, 2005 [PDF] [BibTex]

	54. Parallel Guaranteed Quality Planar Delaunay Mesh Generation by Concurrent Point Insertion Andrey Chernikov and Nikos Chrisochoides. Published in 14^th Annual Fall Workshop on Computational Geometry, Cambridge, MA, November, 2004 [PDF] [BibTex]

	55. Practical and Efficient Point Insertion Scheduling Method for Parallel Guaranteed Quality Delaunay Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 18^th ACM International Conference on Supercomputing, pages 48 -- 57, Saint-Malo, France, June, 2004 [PDF] [BibTex]

	56. Parallel Mesh Generation: Web-services and COTS Software Nikos Chrisochoides, Andrey Chernikov, Andriy Kot and Andriy Fedorov. Published in 6^th International Conference On Spectral and High Order Methods, Providence, RI, June, 2004 [PDF] [BibTex]

	57. Parallel Refinement of Tetrahedral Meshes Using Terminal-Edge Bisection Algorithm Maria-Cecilia Rivara and Nikos Chrisochoides. Published in International Meshing Roundtable, pages 427 -- 436, 2004 [PDF] [BibTex]

	58. A Categorical Approach for Parallel Delaunay Mesh Generation Stratos Prassidis and Nikos Chrisochoides. Published in Algebraic Topological Methods in Computer Science in 2004 [PDF] [BibTex]

	59. An Evaluation of a Framework for the Dynamic Load Balancing of Highly Adaptive and Irregular Kevin Barker and Nikos Chrisochoides. Published in IEEE/ACM International Conference for High Performance Computing, Networking, Storage and Analysis (Supercomputing), Publisher ACM/IEEE, pages 45 -- November, 2003 [PDF] [BibTex]

	60. Automatic Domain Decomposition For Parallel 2D Mesh Generation Andrey Chernikov and Nikos Chrisochoides. Published in 4^th Symposium on Trends in Unstructured Mesh Generation, Albuquerque, NM, July, 2003 [PDF] [BibTex]

	61. Parallel Guaranteed Quality Delaunay Mesh Generation and Refinement: Current Status, Nikos Chrisochoides Published in Mesh Quality and Dynamic Meshing Workshop, Sandia National Labs, Publisher Sandia National Labs, pages 13 -- 26, January, 2003 [PDF] [BibTex]

	62. A Case Study of Optimistic Computing on the Grid: Parallel Mesh Generation Nikos Chrisochoides, Andriy Fedorov, Bruce B. Lowekamp, Marcia Zangrilli and Craig Lee. Published in IEEE International Parallel and Distributed Processing Symposium, pages 204 -- 213, 2003 [PDF] [BibTex]

	63. Guaranteed�Quality Parallel Delaunay Refinement for Restricted Polyhedral Domains Demian Nave, Paul Chew and Nikos Chrisochoides. Published in ACM Symposium on Computational Geometry, Publisher ACM, pages 135 -- 144, July, 2002 [PDF] [BibTex]

	64. Parallel Programming Environment for Mesh Generation Andrey Chernikov, Nikos Chrisochoides and Kevin Barker. Published in 8^th International Conference on Numerical Grid Generation in Computational Field Simulations, pages 805 -- 814, Honolulu, HI, June, 2002 [PDF] [BibTex]

	65. A new approach to parallel mesh generation and partitioning problems Nikos Chrisochoides Published in Purdue University Press West Lafayette, IN, USA, pages 335 -- 359, 2002 [PDF] [BibTex]

	66. Tasking Framework for Adaptive Speculative Parallel Mesh Generation Christos Tsolakis, Polykarpos Thomadakis and Nikos Chrisochoides. Published in The Journal of Supercomputing, Publisher Springer, October, 2021 [PDF] [BibTex]

	67. Parallel Anisotropic Unstructured Grid Adaptation Christos Tsolakis, Nikos Chrisochoides, Michael A. Park, Adrien Loseille and Todd Michal. AIAA Journal, Volume 59, No. 11, pages 4764 -- 4776, April, 2021 [PDF] [BibTex]

	68. Fine-grained Speculative Topological Transformation Scheme for Local Reconnection Methods Fotios Drakopoulos, Christos Tsolakis and Nikos Chrisochoides. AIAA Journal, https://doi.org/10.2514/1.J057657, Volume 57, No. 9, pages 4007 -- 4018, September, 2019 [PDF] [BibTex]

	69. A Hybrid Parallel Delaunay Image-to-Mesh Conversion Algorithm Scalable on Distributed-Memory Clusters Daming Feng, Andrey Chernikov and Nikos Chrisochoides. In Computer-Aided Design, Volume 103, pages 34 -- 46, October, 2018 [PDF] [BibTex]

	70. An Efficient Parallel Anisotropic Delaunay Mesh Generator for Two-Dimensional Finite Element Analysis Juliette Pardue and Andrey Chernikov. Published in ACM Transactions on Mathematical Software, Under review after revision, 2018 [PDF] [BibTex]

	71. Scalable 3D Hybrid Parallel Delaunay Image-to-Mesh Conversion Algorithm for Distributed Shared Memory Architectures Daming Feng, Christos Tsolakis, Andrey Chernikov and Nikos Chrisochoides. Published in Computer-Aided Design, Volume 85, pages 10 -- 19, 2017 [PDF] [BibTex]

	72. Two-level Locality-Aware Parallel Delaunay Image-to-Mesh Conversion Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Published in Parallel Computing, 10.1016/j.parco.2016.01.007, Volume 59, pages 60 -- 70, November, 2016 [PDF] [BibTex]

	73. 4D Space-Time Delaunay Meshing for Medical Images Panagiotis Foteinos and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer London, doi:10.1007/s00366-014-0380-z, Volume 31, pages 499 -- 511, July, 2015 [PDF] [BibTex]

	74. Toward a real time multi-tissue Adaptive Physics-Based Non-Rigid Registration framework for brain tumor resection Fotios Drakopoulos, Yixun Liu, Panagiotis Foteinos and Nikos Chrisochoides. Published in Front. Neuroinform.,, Publisher Frontiers, doi: 10.3389/fninf.2014.00011, Volume 8, February, 2014 [PDF] [BibTex]

	75. An ITK implementation of a physics-based non-rigid registration method for brain deformation in image-guided neurosurgery Yixun Liu, Andriy Kot, Fotios Drakopoulos, Andriy Fedorov, Chengjun Yao, Andinet Enquobahrie, Olivier Clatz and Nikos Chrisochoides. Published in Front. Neuroinform.,, Publisher Frontiers, doi: 10.3389/fninf.2014.00033, Volume 8, February, 2014 [PDF] [BibTex]

	76. High Quality Real-Time Image-to-Mesh Conversion for Finite Element Simulations Panagiotis Foteinos and Nikos Chrisochoides. Published in Journal on Parallel and Distributed Computing, Publisher Elsevier, Volume 74, No. 2, pages 2123 -- 2140, 2014 [PDF] [BibTex]

	77. Effective Out-of-Core Parallel Delaunay Mesh Refinement using Off-the-Shelf Software Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in ACM Journal on Experimental Algorithmics, in press, 2011 [PDF] [BibTex]

	78. A Review of Mesh Generation for Medical Simulators Michel Audette, Andrey Chernikov and Nikos Chrisochoides. Published in Publisher John Wiley and Sons, Inc, in press, Chapter in Handbook of Real-World Applications in Modeling and Simulations, 2011 [PDF] [BibTex]

	79. A Template for Developing Next Generation Parallel Delaunay Refinement Methods Andrey Chernikov and Nikos Chrisochoides. Published in Finite Elements in Analysis and Design, Publisher Elsevier, Volume 46, pages 96 -- 113, 2010 [PDF] [BibTex]

	80. A Multigrain Delaunay Mesh Generation Method for Multicore SMT-based Architectures Christos Antonopoulos, Filip Blagojevic, Andrey Chernikov, Nikos Chrisochoides and Dimitris Nikolopoulos. Published in Journal on Parallel and Distributed Computing, Volume 69, No. 7, pages 589 -- 600, 2009 [PDF] [BibTex]

	81. Algorithm, Software, and Hardware Optimizations for Delaunay Mesh Generation on Simultaneous Multithreaded Architectures Christos Antonopoulos, Filip Blagojevic, Andrey Chernikov, Nikos Chrisochoides and Dimitris Nikolopoulos. Published in Journal on Parallel and Distributed Computing, Volume 69, No. 7, pages 601 -- 612, 2009 [PDF] [BibTex]

	82. Graded Delaunay Decoupling Method for Parallel Guaranteed Quality Planar Mesh Generation Leonidas Linardakis and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Publisher SIAM, accepted, Volume 30, No. 4, pages 1875 -- 1891, March, 2008 [PDF] [BibTex]

	83. Algorithm 872: Parallel 2D Constrained Delaunay Mesh Generation Andrey Chernikov and Nikos Chrisochoides. Published in ACM Transactions on Mathematical Software, Volume 34, No. 1, pages 6 -- 25, January, 2008 [PDF] [BibTex]

	84. Algorithm 870: A Static Geometric Medial Axis Domain Decomposition in 2D Euclidean Space. Leonidas Linardakis and Nikos Chrisochoides. Published in ACM Transactions on Mathematical Software, Article 4, 28 pages, Volume 34, No. 1, January, 2008 [PDF] [BibTex]

	85. Parallel Mesh Generation Using an Advancing Front Method Yasushi Ito, Alan Shih, Anil Erukala, Bharat Soni, Andrey Chernikov, Nikos Chrisochoides and Kazuhiro Nakahashi. Published in Mathematics and Computers in Simulation, Publisher Elsevier, Volume 75, No. 5, pages 200 -- 209, September, 2007 [PDF] [BibTex]

	86. Parallel Guaranteed Quality Delaunay Uniform Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 28, No. 5, pages 1907 -- 1926, November, 2006 [PDF] [BibTex]

	87. Parallel decoupled terminal-edge bisection method for 3D mesh generation Maria-Cecilia Rivara, Carlo Calderon, Andriy Fedorov and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer, Volume 22, pages 111 -- 119, 2006 [PDF] [BibTex]

	88. Delaunay Decoupling Method for Parallel Guaranteed Quality Planar Mesh Refinement Leonidas Linardakis and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Publisher SIAM, Volume 27, No. 4, pages 1394 -- 1423, 2006 [PDF] [BibTex]

	89. Parallel Mesh Generation Nikos Chrisochoides Published in Numerical Solution of Partial Differential Equations on Parallel Computers, Publisher Springer-Verlag, Eds. Are Magnus Bruaset, Petter Bjorstad, Aslak Tveito, Volume 51, pages 237 -- 259, 2005 [PDF] [BibTex]

	90. A Load Balancing Framework for Adaptive and Asynchronous Applications Kevin Barker, Andrey Chernikov, Nikos Chrisochoides and Keshav Pingali. Published in IEEE Transactions on Parallel and Distributed Systems, Volume 15, No. 2, pages 183 -- 192, February, 2004 [PDF] [BibTex]

	91. Parallel Delaunay Refinement for Restricted Polyhedral Domains Demian Nave, Nikos Chrisochoides and Paul Chew. Published in Computational Geometry: Theory and Applications, Volume 28, pages 191 -- 215, 2004 [PDF] [BibTex]

	92. Parallel Delaunay mesh generation kernel Nikos Chrisochoides and Demian Nave. Published in International Journal for Numerical Methods in Engineering, Publisher John Wiley & Sons, Ltd., Volume 58, pages 161 -- 176, 2003 [PDF] [BibTex]

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Medical Image Computing

	1. Image-To-Mesh Conversion for Biomedical Simulations Fotios Drakopoulos, Kevin Garner, Christopher Rector and Nikos Chrisochoides. Published in arXiv, February, 2024 [PDF] [BibTex]

	2. Experience with Distributed Memory Delaunay-based Image-to-Mesh Conversion Implementation Polykarpos Thomadakis and Nikos Chrisochoides. Published in arXiv, August, 2023 [PDF] [BibTex]

	3. Towards Distributed 3D Adaptive Anisotropic Image-to-mesh Conversion For Biomedical Applications Kevin Garner, Fotios Drakopoulos and Nikos Chrisochoides. Poster in NanoBioTech 2023, July, 2023 [PDF] [BibTex]

	4. Image-to-Mesh (I2M) Conversion: Use Cases from Medical and Physical Sciences Experience from Classical Supercomputers to Quantum Computers Nikos Chrisochoides, Polykarpos Thomadakis, Emmanuel Billias and Kevin Garner. Poster in Advancing Medical Care through Discovery in the Physical Sciences 2023, March, 2023 [PDF] [BibTex]

	5. Deep Learning Real-Time Adaptive Physics-based Non-Rigid Registration for Accurate Geometry Representation of Brain in Modeling Deformation During Glioma Resection Angelos Angelopoulos and Nikos Chrisochoides. Old Dominion University Undergraduate Research Symposium in 2019 [PDF] [BibTex]

	6. Efficient Core Utilization in a Hybrid Parallel Delaunay Meshing Algorithm on Distributed-Memory Cluster Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Published in 26th International Meshing Roundtable, 5-page research note, Barcelona, Spain, September, 2017 [PDF] [BibTex]

	7. Homeomorphic Tetrahedralization of Multi-material Images with Quality and Fidelity Guarantees Jing Xu and Andrey Chernikov. Published in 26th International Meshing Roundtable, pages 40 -- 52, Barcelona, Spain, September, 2017 [PDF] [BibTex]

	8. Homeomorphic Tetrahedral Tesselation for Biomedical Images Jing Xu and Andrey Chernikov. Published in 2017 Modeling, Simulation, and Visualization Student Capstone Conference, Suffolk, VA, April, 2017 [PDF] [BibTex]

	9. An evaluation of Adaptive Biomechanical Non- Rigid Registration for Brain Glioma Resection using Image-Guided Neurosurgery Fotios Drakopoulos, Chengjun Yao, Yixun Liu and Nikos Chrisochoides. Published in MICCAI Computational Biomechanics for Medicine CBM XI Workshop, Athens, Greece, October, 2016 [PDF] [BibTex]

	10. Tetrahedralization of multi-material images with quality and Hausdorff distance guarantees Jing Xu and Andrey Chernikov. Published in 25th International Meshing Roundtable, Washington, D.C., USA, September, 2016 [PDF] [BibTex]

	11. Numerical Simulation of Cerebral Aneurysm by Flow Diversion Melina Kazakidi, Fotios Drakopoulos, Chander Sadasivan, Nikos Chrisochoides, John Ekaterinaris and Baruch B. Lieber. Published in European Congress on Computational Methods in Applied Sciences and Engineering, Workshop on Simulation of Cardiovascular Procedures and Devices, June, 2016 [PDF] [BibTex]

	12. Large Scale Cloud-Based Deformable Registration for Image Guided Therapy Shahram Mohrehkesh, Andriy Fedorov, Arun Brahmavar Vishwanatha, Fotios Drakopoulos, Ron Kikinis and Nikos Chrisochoides. Published in International Workshop on Big Data Analytics for Smart and Connected Health, Washington DC, June, 2016 [PDF] [BibTex]

	13. Fidelity and quality improvement of curvilinear image meshing on medical images Jing Xu and Andrey Chernikov. Published in VMASC 2016 Capstone Conference, April, 2016 [PDF] [BibTex]

	14. CRTC's Deformable Registration of pre-op MRI & iMRI for Brain Tumor Resection Fotios Drakopoulos and Nikos Chrisochoides. Published in Publisher SPL25, Brigham and Women's Hospital & Harvard Medical School, April, 2016 [PDF] [BibTex]

	15. Biomechanical Deformable Registration For Deep Brain Stimulation Fotios Drakopoulos, Michael Weissberger, Kathryn Holloway and Nikos Chrisochoides. Published in VMASC 2016 Capstone Conference, Suffolk,VA, April, 2016 [PDF] [BibTex]

	16. Image-to-Mesh Conversion Tool Kevin Garner, Daming Feng, Fotios Drakopoulos, Yixun Liu and Nikos Chrisochoides. Published in 24th International Meshing Roundtable, October, 2015 [PDF] [BibTex]

	17. Image-to-Mesh Conversion for Arteriovenous Malformation Surgical Simulators Fotios Drakopoulos, Ricardo Ortiz, Andinet Enquobahrie and Nikos Chrisochoides. Published in 13th U.S. National Congress on Computational Mechanics, Biomechanics Modeling: Advances and Applications to Real-World Problems, July, 2015 [PDF] [BibTex]

	18. Curvilinear triangular discretization of biomedical images with smooth boundaries Jing Xu and Andrey Chernikov. Published in 11th International Symposium on Bioinformatics Research and Applications, July, 2015 [PDF] [BibTex]

	19. In Vitro And Computational Fluid Dynamics Comparison Of The Flow Diversion Efficacy Of Five Commercial Stents Ronak J. Dholakia, Andrew Pagano, Fotios Drakopoulos, Ari Kappel, Chander Sadasivan, Xiangmin Jiao,, David J. Fiorella, Nikos Chrisochoides, Henry H. Woo and Baruch B. Lieber. Published in Summer Biomechanics, Bioengineering, and Biotransport Conference, June, 2015 [PDF] [BibTex]

	20. High Fidelity Image-to-Mesh Conversion for Brain Aneurysm/Stent Geometries Ronak J. Dholakia, Fotios Drakopoulos, Chander Sadasivan, Xiangmin Jiao,, David J. Fiorella, Henry H. Woo, Baruch B. Lieber and Nikos Chrisochoides. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, April, 2015 [PDF] [BibTex]

	21. A Scalable Parallel Arbitrary-Dimensional Image Distance Transform Scott Pardue, Nikos Chrisochoides and Andrey Chernikov. Published in Modeling, Simulation, and Visualization Student Capstone Conference, April, 2015 [PDF] [BibTex]

	22. Automatic curvilinear quality mesh generation with smooth mesh boundaries of medical images Jing Xu and Andrey Chernikov. Published in VMASC 2015 Capstone Conference, April, 2015 [PDF] [BibTex]

	23. Automatic curvilinear mesh generation with smooth boundary driven by guaranteed validity and delity Jing Xu and Andrey Chernikov. Published in International Meshing Roundtable, Publisher Springer, accepted, October, 2014 [PDF] [BibTex]

	24. A Parallel Adaptive Physics-Based Non-Rigid Registration Environment for brain tumor resection Fotios Drakopoulos and Nikos Chrisochoides. Published in CompImage, September, 2014 [PDF] [BibTex]

	25. A Parallel Adaptive Physics-Based Non-Rigid Registration framework for brain tumor resection Fotios Drakopoulos and Nikos Chrisochoides. Published in VMASC 2014 Capstone Conference, Best paper in Medical Simulations, April, 2014 [PDF] [BibTex]

	26. Quality meshing of 2D images with guarantees derived by a computer-assisted proof Jing Xu and Andrey Chernikov. Published in VMASC 2014 Capstone Conference, Best paper award in the Medical Simulation track., Suffolk, VA, April, 2014 [PDF] [BibTex]

	27. High Quality Real-Time Image-to-Mesh Conversion for Finite Element Simulations Panagiotis Foteinos and Nikos Chrisochoides. Published in 27th ACM International Conference on Supercomputing (ICS'13), pages 233 -- 242, Eugene, Oregon, June, 2013 [PDF] [BibTex]

	28. Multi-Layered Unstructured Mesh Generation Panagiotis Foteinos, Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Poster in 27th ACM International Conference on Supercomputing (ICS'13), Student Research Competition (SRC) Grand Finalist, June, 2013 [PDF] [BibTex]

	29. PROTEIN LOOP LENGTH ESTIMATION FROM MEDIUM RESOLUTION CRYOEM IMAGES Andrew McKnight Published in Msc Thesis, Computer Science, Old Dominion University, May, 2013 [PDF] [BibTex]

	30. Estimating Lower Bounds on the Length of Protein Polymer Chain Segments using Robot Motion Planning Andrew McKnight, Jing He, Nikos Chrisochoides and Andrey Chernikov. Published in VMASC 2013 Capstone Conference, April, 2013 [PDF] [BibTex]

	31. 4D Space-Time Delaunay Meshing for Medical Images Panagiotis Foteinos and Nikos Chrisochoides. Published in International Meshing Roundtable, Publisher Springer International, pages 223 -- 240, 2013 [PDF] [BibTex]

	32. CryoEM Skeleton Length Estimation using a Decimated Curve Andrew McKnight, Kamal Al Nasr, Dong Si, Andrey Chernikov, Nikos Chrisochoides and Jing He. Published in Computational Structural Bioinformatics Workshop, Publisher IEEE, pages 109 -- 113, Philadelphia, PA, October, 2012 [PDF] [BibTex]

	33. High-Quality Multi-Tissue Mesh Generation for Finite Element Analysis Panagiotis Foteinos and Nikos Chrisochoides. Published in MeshMed, Workshop on Mesh Processing in Medical Image Analysis (MICCAI), pages 18 -- 28, September, 2011 [PDF] [BibTex]

	34. Tetrahedral Image-To-Mesh Conversion For Biomedical Applications Andrey Chernikov and Nikos Chrisochoides. Published in ACM Conference on Bioinformatics, Computational Biology and Biomedicine, pages 125 -- 134, Chicago, IL, August, 2011 [PDF] [BibTex]

	35. Moving Propagation of Suspicious Myocardial Infarction from Delayed Enhanced Cardiac Imaging to Cine MRI Using Hybrid Image Registration Yixun Liu, Hui Xue, Christoph Guetter, Marie-Pierre Jolly, Nikos Chrisochoides and Jens Guehring. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, pages 1284 -- 1288, March, 2011 [PDF] [BibTex]

	36. An Evaluation of Tetrahedral Mesh Generation for Non-Rigid Registration of Brain MRI Panagiotis Foteinos, Yixun Liu, Andrey Chernikov and Nikos Chrisochoides. Published in Computational Biomechanics for Medicine V, 13^th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) Workshop, pages 126 -- 137, September, 2010 [PDF] [BibTex]

	37. Using K-means Clustering and MI for Non-rigid Registration of MRI and CT Yixun Liu and Nikos Chrisochoides. Published in International Workshop on Machine Learning in Medical Imaging (MLMI), the 13th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), September, 2010 [PDF] [BibTex]

	38. A Point Based Non-Rigid Registration For Tumor Resection Using iMRI Yixun Liu, Chengjun Yao, Liangfu Zhou and Nikos Chrisochoides. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, pages 1217 -- 1220, April, 2010 [PDF] [BibTex]

	39. A Novel Point Based Non-rigid Registration Method and Its Application for Brain Shift Yixun Liu, Andriy Fedorov, Ron Kikinis and Nikos Chrisochoides. Published in SPIE Medical Imaging, 2010 [PDF] [BibTex]

	40. Toward Improved Tumor Targeting for Image Guided Neurosurgery with Intra-operative Parametric Search using Distributed and Grid Computing Andriy Fedorov, Andriy Kot, Yixun Liu, Olivier Clatz, Peter Black, Alexandra Golby, Ron Kikinis and Nikos Chrisochoides. Published in Book on DDDAS- Dynamic Data Driven Applications Systems, Publisher Springer Verlag, 2010 [PDF] [BibTex]

	41. Multi-Modal Non-Rigid Registration for Image Guided Head and Neck Surgery Michael Weissberger, Yixun Liu, Joseph Han and Nikos Chrisochoides. Published in American Rhinologic Society Fall meeting, 2010 [PDF] [BibTex]

	42. Real-time Non-rigid Registration of Medical Images on a Cooperative Parallel Architecture Yixun Liu, Andriy Fedorov, Ron Kikinis and Nikos Chrisochoides. Published in IEEE International Conference on Bioinformatics & Biomedicine, pages 401 -- 404, November, 2009 [PDF] [BibTex]

	43. Toward Real Time Image to Mesh Conversion for Non Rigid Registration Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Poster in IEEE International Conference on Bioinformatics & Biomedicine, accepted, refereed, November, 2009 [PDF] [BibTex]

	44. Boundary Generation Methods For Optimal 2D Delaunay Triangulation Alison Smith, Nikos Chrisochoides and Andrey Chernikov. Poster in Virginia Space Grant Consortium Student Research Conference, Hampton VA, April, 2009 [PDF] [BibTex]

	45. Non-Rigid Registration for Image-Guided Neurosurgery on TeraGrid: A Case Study Andriy Fedorov, Benjamin Clifford, Simon K. Warfield, Ron Kikinis and Nikos Chrisochoides. Published in W&M CS Technical report WM-CS-2009-05, 2009 [PDF] [BibTex]

	46. Tetrahedral Mesh Generation for Non-Rigid Registration of Brain MRI: Analysis of the Requirements and Evaluation of Solutions Andriy Fedorov and Nikos Chrisochoides. Published in 17^th International Meshing Roundtable, pages 55 -- 72, October, 2008 [PDF] [BibTex]

	47. Parallel Mesh Generation for Medical Image Computing Nikos Chrisochoides Invited talk in SIAM Conference on Parallel Processing for Scientific Computing, Publisher SIAM, March, 2008 [PDF] [BibTex]

	48. Adaptive Mesh Refinement for Non-Rigid Registration of Brain MRI Andriy Fedorov and Nikos Chrisochoides. Published in Computational Bioimaging and Visualization in 8th World Congress on Computational Mechanics, 2008 [PDF] [BibTex]

	49. Evaluation of Brain MRI Alignment with the Robust Hausdorff Distance Measures Andriy Fedorov, Eric Billet, Marcel Prastawa, Alireza Radmanesh, Guido Gerig, Ron Kikinis, Simon K. Warfield and Nikos Chrisochoides. Published in 4th International Symposium on Visual Computing, Publisher Springer, pages 594 -- 603, 2008 [PDF] [BibTex]

	50. Three-Dimensional Semi-Generalized Point Placement Method for Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 16^th International Meshing Roundtable, Publisher Elsevier, pages 25 -- 44, Seattle, WA, October, 2007 [PDF] [BibTex]

	51. Real-Time Non-Rigid Registration for IGNS: Mesh Generation Nikos Chrisochoides Published in Invited Joint Seminar with Waterloo Institute for Health Informatics Research and The Center f, March, 2007 [PDF] [BibTex]

	52. Application-driven Quantitative Assessment of Approaches to Mesh Generation Bhautik Joshi, Andriy Fedorov, Nikos Chrisochoides, Simon K. Warfield and Sebastien Ourselin. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, acceptance rate .65, pages 1160 -- 1163, 2007 [PDF] [BibTex]

53. Grid-Enabled Software Environment for Enhanced Dynamic Data-Driven Visualization and Navigation during Image-Guided Neurosurgery

Nikos Chrisochoides, Andriy Fedorov, Andriy Kot, Neculai Archip, Daniel Goldberg-Zimring, Dan Kacher, Stephen Whalen, Ron Kikinis, Ferenc Jolesz, Olivier Clatz, Simon K. Warfield, Peter Black and Alexandra Golby.
Published in International Conference on Computational Science (ICCS 2007), pages 980 -- 987, 2007

[PDF] [BibTex]

	54. Integration of patient specific modeling and advanced image processing techniques for image-guided neurosurgery Neculai Archip, Andriy Fedorov, Bryn Lloyd, Nikos Chrisochoides, Alexandra Golby, Peter Black and Simon K. Warfield. Published in Visualization, Image-Guided Procedures, and Display in SPIE Medical Imaging, pages 422 -- 429, 2006 [PDF] [BibTex]

	55. An evaluation of three approaches to tetrahedral mesh generation for deformable registration of brain MR images Andriy Fedorov, Nikos Chrisochoides, Ron Kikinis and Simon K. Warfield. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, acceptance rate .56, pages 658 -- 661, 2006 [PDF] [BibTex]

56. Toward Real-Time, Image Guided Neurosurgery Using Distributed and Grid Computing

Nikos Chrisochoides, Andriy Fedorov, Andriy Kot, Neculai Archip, Peter Black, Olivier Clatz, Alexandra Golby, Ron Kikinis and Simon K. Warfield.
Published in IEEE/ACM International Conference for High Performance Computing, Networking, Storage and Analysis (Supercomputing), acceptance rate .23, 2006

[PDF] [BibTex]

	57. Tetrahedral mesh generation for medical imaging Andriy Fedorov, Nikos Chrisochoides, Ron Kikinis and Simon K. Warfield. Published in 8th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2005), 2005 [PDF] [BibTex]

	58. Comparison of Physics-Based Deformable Registration Methods for Image-Guided Neurosurgery Nikos Chrisochoides, Yixun Liu, Fotios Drakopoulos, Andriy Kot, Panagiotis Foteinos, Christos Tsolakis, Emmanuel Billias, Olivier Clatz, Nicholas Ayache, Andrey Fedorov, Alexandra Golby, Peter Black and Ron Kikinis. Accepted in Frontiers in Digital Health, Volume 5, November, 2023 [PDF] [BibTex]

	59. Real-Time Dynamic Data Driven Deformable Registration for Image- Guided Neurosurgery: Computational Aspects Nikos Chrisochoides, Andrey Fedorov, Yixun Liu, Andriy Kot, Panagiotis Foteinos, Fotios Drakopoulos, Christos Tsolakis, Emmanuel Billias, Olivier Clatz, Nicholas Ayache, Alexandra Golby, Peter Black and Ron Kikinis. Invited in Frontiers in Digital Health, 2023 [PDF] [BibTex]

60. Advancing Intra-operative Precision: Dynamic Data-Driven Non-Rigid Registration for Enhanced Brain Tumor Resection in Image-Guided Neurosurgery

Nikos Chrisochoides, Andriy Fedorov, Fotios Drakopoulos, Andriy Kot, Yixun Liu, Panagiotis Foteinos, Angelos Angelopoulos, Olivier Clatz, Nicholas Ayache, Peter Black, Alexandra Golby and Ron Kikinis.
To appear in Handbook of Dynamic Data Driven Applications Systems, Publisher Springer Cham, Volume 3, 2023

[PDF] [BibTex]

	61. Adaptive Physics-based Non-Rigid Registration for Immersive Image-Guided Neuronavigation Systems Fotios Drakopoulos, Christos Tsolakis, Angelos Angelopoulos, Yixun Liu, Chengjun Yao, Kyriaki Rafailia Kavazidi, Nikolaos Foroglou, Andrey Fedorov, Sarah Frisken, Ron Kikinis, Alexandra Golby and Nikos Chrisochoides. Published in Frontiers in Digital Health, February, 2021 [PDF] [BibTex]

	62. A Hybrid Parallel Delaunay Image-to-Mesh Conversion Algorithm Scalable on Distributed-Memory Clusters Daming Feng, Andrey Chernikov and Nikos Chrisochoides. In Computer-Aided Design, Volume 103, pages 34 -- 46, October, 2018 [PDF] [BibTex]

	63. An Evaluation of Adaptive Biomechanical Non-Rigid Registration for Brain Glioma Resection Using Image-Guided Neurosurgery Fotios Drakopoulos, Chengjun Yao, Yixun Liu and Nikos Chrisochoides. Published in Computational Biomechanics for Medicine, Publisher Springer, pages 111 -- 122, May, 2017 [PDF] [BibTex]

	64. Construction of Discrete Descriptions of Biological Shapes through Curvilinear Image Meshing Jing Xu and Andrey Chernikov. Published in International Journal of Bioinformatics Research and Applications, in press, 2017 [PDF] [BibTex]

	65. Two-level Locality-Aware Parallel Delaunay Image-to-Mesh Conversion Daming Feng, Andrey Chernikov and Nikos Chrisochoides. Published in Parallel Computing, 10.1016/j.parco.2016.01.007, Volume 59, pages 60 -- 70, November, 2016 [PDF] [BibTex]

	66. 4D Space-Time Delaunay Meshing for Medical Images Panagiotis Foteinos and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer London, doi:10.1007/s00366-014-0380-z, Volume 31, pages 499 -- 511, July, 2015 [PDF] [BibTex]

	67. Proof of Correctness of a Marching Cubes Algorithm Carried out with Coq Andrey Chernikov and Jing Xu. Published in Computational Geometry: Theory and Applications, Publisher Elsevier, March, 2015 [PDF] [BibTex]

	68. Accurate and Fast Deformable Medical Image Registration for Brain Tumor Resection using Image-Guided Neurosurgery Fotios Drakopoulos and Nikos Chrisochoides. Published in Computer Methods in Biomechanics and Biomedical Engineering, http://dx.doi.org/10.1080/21681163.2015.1067869, 2015 [PDF] [BibTex]

	69. Evolutionary soft co-clustering: formulations, algorithms, and applications Wenlu Zhang, Rongjian Li, Daming Feng, Andrey Chernikov, Nikos Chrisochoides, Christopher Osgood and Shuiwang Ji. Published in Data Mining and Knowledge Discovery, Publisher Springer, DOI 10.1007/s10618-014-0375-9, August, 2014 [PDF] [BibTex]

	70. A Non-rigid Registration Method for Correcting Brain Deformation Induced by Tumor Resection Yixun Liu, Chengjun Yao, Fotios Drakopoulos, Jinsong Wu, Liangfu Zhou and Nikos Chrisochoides. Published in Medical Physics, Publisher American Association of Physicists in Medicine, doi: 10.1118/1.4893754, Volume 41, No. 10, August, 2014 [PDF] [BibTex]

	71. Toward a real time multi-tissue Adaptive Physics-Based Non-Rigid Registration framework for brain tumor resection Fotios Drakopoulos, Yixun Liu, Panagiotis Foteinos and Nikos Chrisochoides. Published in Front. Neuroinform.,, Publisher Frontiers, doi: 10.3389/fninf.2014.00011, Volume 8, February, 2014 [PDF] [BibTex]

	72. An ITK implementation of a physics-based non-rigid registration method for brain deformation in image-guided neurosurgery Yixun Liu, Andriy Kot, Fotios Drakopoulos, Andriy Fedorov, Chengjun Yao, Andinet Enquobahrie, Olivier Clatz and Nikos Chrisochoides. Published in Front. Neuroinform.,, Publisher Frontiers, doi: 10.3389/fninf.2014.00033, Volume 8, February, 2014 [PDF] [BibTex]

	73. High Quality Real-Time Image-to-Mesh Conversion for Finite Element Simulations Panagiotis Foteinos and Nikos Chrisochoides. Published in Journal on Parallel and Distributed Computing, Publisher Elsevier, Volume 74, No. 2, pages 2123 -- 2140, 2014 [PDF] [BibTex]

	74. Guaranteed Quality Tetrahedral Delaunay Meshing for Medical Images Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in Computational Geometry: Theory and Applications, Publisher Elsevier, Volume 47, No. 4, pages 539 -- 562, 2014 [PDF] [BibTex]

	75. Estimating loop length from CryoEM images at medium resolutions Andrew McKnight, Dong Si, Kamal Al Nasr, Andrey Chernikov, Nikos Chrisochoides and Jing He. Published in BMC Structural Biology CSBW Special Issue, doi:10.1186/1472-6807-13-S1-S5, Volume 13, pages S5 -- November, 2013 [PDF] [BibTex]

	76. A mesh generation and machine learning framework for Drosophila gene expression pattern image analysis Wenlu Zhang, Daming Feng, Rongjian Li, Andrey Chernikov, Nikos Chrisochoides, Christopher Osgood, Charlotte Konikoff, Stuart Newfeld, Sudhir Kumar and Shuiwang Ji. Published in Journal BMC Bioinformatics, Volume 14, pages 372 -- 2013 [PDF] [BibTex]

77. Tetrahedral image-to-mesh conversion approaches for surgery simulation and navigation.

Andrey Chernikov, Panagiotis Foteinos, Yixun Liu, Michel Audette, Andinet Enquobahrie and Nikos Chrisochoides.
Published in Image-Based Geometric Modeling and Mesh Generation, Publisher Springer, in press, Lecture Notes in Computational Vision and Biomechanics (Yongjie (Jessica) Zhang, ed.)., pages 69 -- 84, 2013

[PDF] [BibTex]

	78. Mesh Deformation-based Multi-tissue Mesh Generation for Brain Images Yixun Liu, Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer, Volume 8, No. 4, pages 305 -- 318, October, 2012 [PDF] [BibTex]

	79. High-Quality Multi-Tissue Mesh Generation for Finite Element Analysis Panagiotis Foteinos and Nikos Chrisochoides. Published in Image-Based Geometric Modeling and Mesh Generation, Publisher Springer, in press, Editor Yongjie (Jessica) Zhang, pages 161 -- 172, 2012 [PDF] [BibTex]

	80. An ITK Implementation of Physics-based Non-rigid Registration Method Yixun Liu, Andriy Kot, Fotios Drakopoulos, Andriy Fedorov, Andinet Enquobahrie, Olivier Clatz and Nikos Chrisochoides. Published in Insight Journal, 2012 [PDF] [BibTex]

	81. Multi-Tissue Tetrahedral Image-to-Mesh Conversion with Guaranteed Quality and Fidelity Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 33, No. 6, pages 3491 -- 3508, 2011 [PDF] [BibTex]

	82. A Review of Mesh Generation for Medical Simulators Michel Audette, Andrey Chernikov and Nikos Chrisochoides. Published in Publisher John Wiley and Sons, Inc, in press, Chapter in Handbook of Real-World Applications in Modeling and Simulations, 2011 [PDF] [BibTex]

	83. Non-Rigid Registration for Brain MRI: Faster and Cheaper Yixun Liu, Andriy Fedorov, Ron Kikinis and Nikos Chrisochoides. Published in International Journal of Functional Informatics and Personalized Medicine (IJFIPM), Publisher Inderscience Enterprises Ltd., Volume 3, No. 1, pages 48 -- 57, 2010 [PDF] [BibTex]

	84. A Quantitative Assessment of Approaches to Mesh Generation for Surgical Simulation Bhautik Joshi, Andriy Fedorov, Nikos Chrisochoides, Simon K. Warfield and Sebastien Ourselin. Published in Engineering with Computers, Publisher Springer, Volume 24, pages 417 -- 430, 2008 [PDF] [BibTex]

	85. The Use of Robust Local Hausdorff Distances in Accuracy Assessment for Image Alignment of Brain MRI Eric Billet, Andriy Fedorov and Nikos Chrisochoides. Published in Insight Journal, 2008 [PDF] [BibTex]

86. Non-rigid alignment of preoperative MRI, fMRI, DT-MRI, with intra-operative MRI for enchanced visualization and navigation in image-guided neurosurgery

Neculai Archip, Olivier Clatz, Andriy Fedorov, Andriy Kot, Stephen Whalen, Dan Kacher, Nikos Chrisochoides, Ferenc Jolesz, Alexandra Golby, Peter Black and Simon K. Warfield.
Published in Neuroimage, Volume 35, No. 2, pages 609 -- 624, 2007

[PDF] [BibTex]

	87. Parallel N-Dimensional Exact Signed Euclidean Distance Transform Robert Staubs, Andriy Fedorov, Leonidas Linardakis, Benjamin Dunton and Nikos Chrisochoides. Published in Insight Journal, 2006 [PDF] [BibTex]

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Parallel Runtime Systems

	1. Towards Runtime Support for Domain-Specific Languages of Adaptive and Irregular Applications Polykarpos Thomadakis and Nikos Chrisochoides. Published in The 28th International Conference on Parallel & Distributed Processing Techniques & Applications (PDPTA'22), March, 2022 [PDF] [BibTex]

	2. On the End-User Productivity of a Pseudo-constrained Parallel Data Refinement Method for the Advancing Front Local Reconnection Mesh Generation Software Kevin Garner, Polykarpos Thomadakis, Thomas Kennedy, Christos Tsolakis and Nikos Chrisochoides. Published in AIAA Aviation Forum 2019, June, 2019 [PDF] [BibTex]

	3. Parallel Software Framework for Large-Scale Parallel Mesh Generation and Adaptation for CFD Solvers Polykarpos Thomadakis, Christos Tsolakis, Konstantinos Vogiatzis, Andriy Kot and Nikos Chrisochoides. Published in AIAA Aviation Forum 2018, Atlanta, Georgia, June, 2018 [PDF] [BibTex]

	4. Telescopic Approach for Extreme-scale Parallel Mesh Generation for CFD Applications Nikos Chrisochoides Published in AIAA Aviation, June, 2016 [PDF] [BibTex]

	5. Exascale-Era Mesh Generation For Medical Images Nikos Chrisochoides, Andrey Chernikov and Christos Tsolakis. Poster in Publisher SPL25, Brigham and Women's Hospital & Harvard Medical School, April, 2016 [PDF] [BibTex]

	6. Image-to-Mesh Conversion Tool Kevin Garner, Daming Feng, Fotios Drakopoulos, Yixun Liu and Nikos Chrisochoides. Published in 24th International Meshing Roundtable, October, 2015 [PDF] [BibTex]

	7. Parallel Two-Dimensional Unstructured Anisotropic Delaunay Mesh Generation for Aerospace Applications Juliette Pardue, Nikos Chrisochoides and Andrey Chernikov. Published in 24th International Meshing Roundtable, October, 2015 [PDF] [BibTex]

	8. Scalability of a parallel arbitrary-dimensional image distance transform Scott Pardue, Nikos Chrisochoides and Andrey Chernikov. Published in VMASC 2014 Capstone Conference, Suffolk, VA, April, 2014 [PDF] [BibTex]

	9. A parallel marching cubes algorithm for extracting isosurfaces from medical images Jing Xu and Andrey Chernikov. Published in VMASC 2013 Capstone Conference, pages 88 -- 93, Suffolk, VA, April, 2013 [PDF] [BibTex]

	10. The Evaluation of an Effective Out-of-core Run-Time System in the Context of Parallel Mesh Generation Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, pages 164 -- 175, May, 2011 [PDF] [BibTex]

	11. Towards Exascale Parallel Delaunay Mesh Generation Nikos Chrisochoides, Andrey Chernikov, Andriy Fedorov, Andriy Kot, Leonidas Linardakis and Panagiotis Foteinos. Published in 18^th International Meshing Roundtable, pages 319 -- 336, Salt Lake City, Utah, October, 2009 [PDF] [BibTex]

	12. Parallel Mesh Generation Using COTS Nikos Chrisochoides Published in Invited Talk, Intel, Hillsboro, OR, May, 2008 [PDF] [BibTex]

	13. A (Contensed) Parametric Study of Optimistic Computation in Wide-Area Distributed Environments Craig Lee and Nikos Chrisochoides. Published in Mardi Gras Conference 2008, Publisher ACM, Article 11, 14 pages, 2008 [PDF] [BibTex]

	14. Experience with Memory Allocators for Parallel Mesh Generation on Multicore Architectures Andrey Chernikov, Christos Antonopoulos, Nikos Chrisochoides, Scott Schneider and Dimitris Nikolopoulos. Published in 10^th International Conference on Numerical Grid Generation in Computational Field Simulations, Published on CD-ROM, Forth, Crete, Greece, September, 2007 [PDF] [BibTex]

	15. Parallel Unstructured Mesh Generation Using COTS: One Step Closer to Real-time Mesh Generation Nikos Chrisochoides Published in Invited talk in Computational Visualization Center (CVC), Institute of Computational Engineering an, February, 2007 [PDF] [BibTex]

	16. Evaluation of Remote Memory Access Communication on the Cray XT3 Vinod Tipparaju, Andriy Kot, Jarek Nieplocha, Monika ten Bruggencate and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, 2007 [PDF] [BibTex]

	17. Effective Out-of-Core Parallel Delaunay Mesh Refinement using Off-the-Shelf Software Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, April, 2006 [PDF] [BibTex]

	18. Out-of-Core Parallel Delaunay Refinement Method using COTS Andriy Kot and Nikos Chrisochoides. Invited talk in February, 2006 [PDF] [BibTex]

	19. Parallel Out-of-Core Delaunay Refinement Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, September, 2005 [PDF] [BibTex]

	20. Out-of-Core Parallel Delaunay Mesh Generation Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in 17^th IMACS World Congress Scientific Computation, Applied Mathematics and Simulation, July, 2005 [PDF] [BibTex]

	21. Practical Performance Model For Optimizing Dynamic Load Balancing of Adaptive Applications Kevin Barker and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, pages 28.a -- 28.b, 2005 [PDF] [BibTex]

	22. Communication Support for Dynamic Load Balancing of Irregular Adaptive Applications Andriy Fedorov and Nikos Chrisochoides. Published in 2004 International Conference on Parallel Processing Workshops (ICPPW04), pages 555 -- 562, 2004 [PDF] [BibTex]

	23. Location management in object-based distributed computing Andriy Fedorov and Nikos Chrisochoides. Published in 2004 IEEE International Conference on Cluster Computing (CLUSTER04), pages 299 -- 308, 2004 [PDF] [BibTex]

	24. An Evaluation of a Framework for the Dynamic Load Balancing of Highly Adaptive and Irregular Kevin Barker and Nikos Chrisochoides. Published in IEEE/ACM International Conference for High Performance Computing, Networking, Storage and Analysis (Supercomputing), Publisher ACM/IEEE, pages 45 -- November, 2003 [PDF] [BibTex]

	25. Mult-Layered "Smart'' Memory Management System Andriy Kot and Nikos Chrisochoides. Published in Intelligent Data Acquisition and Advanced Computing Systems: Technology and Applications, September, 2003 [PDF] [BibTex]

	26. A Case Study of Optimistic Computing on the Grid: Parallel Mesh Generation Nikos Chrisochoides, Andriy Fedorov, Bruce B. Lowekamp, Marcia Zangrilli and Craig Lee. Published in IEEE International Parallel and Distributed Processing Symposium, pages 204 -- 213, 2003 [PDF] [BibTex]

	27. Computational Science Simulations based on Web Services Paul Chew, Nikos Chrisochoides, S. Gopalsamy, Gerd Heber, Tony Ingraffea, Edward Luke, Joaquim Neto, Keshav Pingali, Alan Shih, Bharat Soni, Paul Stodghill, David Thompson, Steve Vavasis and Paul Wawrzynek. Published in International Conference on Computational Science, pages 299 -- 308, 2003 [PDF] [BibTex]

	28. Parallel Programming Environment for Mesh Generation Andrey Chernikov, Nikos Chrisochoides and Kevin Barker. Published in 8^th International Conference on Numerical Grid Generation in Computational Field Simulations, pages 805 -- 814, Honolulu, HI, June, 2002 [PDF] [BibTex]

	29. Towards Runtime Support for Unstructured and Dynamic Exascale-era Applications Polykarpos Thomadakis and Nikos Chrisochoides. Submitted to The Journal of Supercomputing, Publisher Springer, January, 2023 [PDF] [BibTex]

	30. Multithreaded Runtime Framework for Parallel and Adaptive Applications Polykarpos Thomadakis, Christos Tsolakis and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer, 2022 [PDF] [BibTex]

	31. Towards Performance Portable Programming for Distributed Heterogeneous Systems Polykarpos Thomadakis and Nikos Chrisochoides. In arXiv, 2210.01238, 2022 [PDF] [BibTex]

	32. Tasking Framework for Adaptive Speculative Parallel Mesh Generation Christos Tsolakis, Polykarpos Thomadakis and Nikos Chrisochoides. Published in The Journal of Supercomputing, Publisher Springer, October, 2021 [PDF] [BibTex]

	33. An ITK Implementation of Physics-based Non-rigid Registration Method Yixun Liu, Andriy Kot, Fotios Drakopoulos, Andriy Fedorov, Andinet Enquobahrie, Olivier Clatz and Nikos Chrisochoides. Published in Insight Journal, 2012 [PDF] [BibTex]

	34. Non-Rigid Registration for Brain MRI: Faster and Cheaper Yixun Liu, Andriy Fedorov, Ron Kikinis and Nikos Chrisochoides. Published in International Journal of Functional Informatics and Personalized Medicine (IJFIPM), Publisher Inderscience Enterprises Ltd., Volume 3, No. 1, pages 48 -- 57, 2010 [PDF] [BibTex]

	35. A Load Balancing Framework for Adaptive and Asynchronous Applications Kevin Barker, Andrey Chernikov, Nikos Chrisochoides and Keshav Pingali. Published in IEEE Transactions on Parallel and Distributed Systems, Volume 15, No. 2, pages 183 -- 192, February, 2004 [PDF] [BibTex]

	36. Green Multi-layered Smart Memory Management System Andriy Kot and Nikos Chrisochoides. Published in International Scientific Journal of Computing, Volume 2, No. 3, 2004 [PDF] [BibTex]

	37. "Green" Multi-layered "Smart" Memory Management System Andriy Kot and Nikos Chrisochoides. Published in International Scientific Journal of Computing, Volume 2, No. 3, 2004 [PDF] [BibTex]

	38. Data Movement and Control Substrate for Parallel Adaptive Applications Kevin Barker, Nikos Chrisochoides, Demian Nave, Jeff Dobellaere and Keshav Pingali. Published in Concurrency and Computation:Practice and Experience, pages 77 -- 105, February, 2002 [PDF] [BibTex]

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Sequential Mesh Generation

	1. On the End-User Productivity of a Pseudo-constrained Parallel Data Refinement Method for the Advancing Front Local Reconnection Mesh Generation Software Kevin Garner, Polykarpos Thomadakis, Thomas Kennedy, Christos Tsolakis and Nikos Chrisochoides. Published in AIAA Aviation Forum 2019, June, 2019 [PDF] [BibTex]

	2. Three-Dimensional Prism-Dominant Mesh Generation for Viscous Flows Around Surface Slope Discontinuities Juliette Pardue and Andrey Chernikov. Published in AIAA Aviation Forum 2018, Atlanta, Georgia, June, 2018 [PDF] [BibTex]

	3. Sequential Metric-Based Adaptive Mesh Generation Christos Tsolakis, Fotios Drakopoulos and Nikos Chrisochoides. Published in 2018 Modeling, Simulation, and Visualization Student Capstone Conference, Suffolk, VA, April, 2018 [PDF] [BibTex]

	4. Stability of Advancing Front Local Reconnection for Parallel Data Refinement Kevin Garner, Thomas Kennedy, Christos Tsolakis and Nikos Chrisochoides. Published in Virginia Space Grant Consortium (VSGC) 2018 Student Research Conference, Norfolk, VA, April, 2018 [PDF] [BibTex]

	5. Homeomorphic Tetrahedralization of Multi-material Images with Quality and Fidelity Guarantees Jing Xu and Andrey Chernikov. Published in 26th International Meshing Roundtable, pages 40 -- 52, Barcelona, Spain, September, 2017 [PDF] [BibTex]

	6. Homeomorphic Tetrahedral Tesselation for Biomedical Images Jing Xu and Andrey Chernikov. Published in 2017 Modeling, Simulation, and Visualization Student Capstone Conference, Suffolk, VA, April, 2017 [PDF] [BibTex]

	7. Tetrahedralization of multi-material images with quality and Hausdorff distance guarantees Jing Xu and Andrey Chernikov. Published in 25th International Meshing Roundtable, Washington, D.C., USA, September, 2016 [PDF] [BibTex]

	8. Lattice-Based Multi-Tissue Mesh Generation for Biomedical Applications Fotios Drakopoulos and Nikos Chrisochoides. Published in Publisher SPL25, Brigham and Women's Hospital & Harvard Medical School, April, 2016 [PDF] [BibTex]

	9. Tetrahedral Image-To-Mesh Conversion Software for Anatomic Modeling of Arteriovenous Malformations Fotios Drakopoulos, Ricardo Ortiz, Andinet Enquobahrie, Deanna Sasaki-Adams and Nikos Chrisochoides. Published in 24th International Meshing Roundtable, October, 2015 [PDF] [BibTex]

	10. A sufficient condition of validity for cubic Bezier triangles Jing Xu and Andrey Chernikov. Published in 24th International Meshing Roundtable, October, 2015 [PDF] [BibTex]

	11. Curvilinear triangular discretization of biomedical images with smooth boundaries Jing Xu and Andrey Chernikov. Published in 11th International Symposium on Bioinformatics Research and Applications, July, 2015 [PDF] [BibTex]

	12. High Fidelity Image-to-Mesh Conversion for Brain Aneurysm/Stent Geometries Ronak J. Dholakia, Fotios Drakopoulos, Chander Sadasivan, Xiangmin Jiao,, David J. Fiorella, Henry H. Woo, Baruch B. Lieber and Nikos Chrisochoides. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, April, 2015 [PDF] [BibTex]

	13. Automatic curvilinear quality mesh generation with smooth mesh boundaries of medical images Jing Xu and Andrey Chernikov. Published in VMASC 2015 Capstone Conference, April, 2015 [PDF] [BibTex]

	14. Tetrahedral Image-To-Mesh Conversion for Anatomical Modeling and Surgical Simulations Fotios Drakopoulos and Nikos Chrisochoides. Published in VMASC 2015 Capstone Conference, 2015 [PDF] [BibTex]

	15. Automatic curvilinear mesh generation with smooth boundary driven by guaranteed validity and delity Jing Xu and Andrey Chernikov. Published in International Meshing Roundtable, Publisher Springer, accepted, October, 2014 [PDF] [BibTex]

	16. A guaranteed quality boundary graded triangular meshing algorithm backed by a computer-assisted proof Jing Xu and Andrey Chernikov. Published in 22^nd International Meshing Roundtable, 5-page research note, Orlando, FL, October, 2013 [PDF] [BibTex]

	17. 4D Space-Time Delaunay Meshing for Medical Images Panagiotis Foteinos and Nikos Chrisochoides. Published in International Meshing Roundtable, Publisher Springer International, pages 223 -- 240, 2013 [PDF] [BibTex]

	18. High-Quality Multi-Tissue Mesh Generation for Finite Element Analysis Panagiotis Foteinos and Nikos Chrisochoides. Published in MeshMed, Workshop on Mesh Processing in Medical Image Analysis (MICCAI), pages 18 -- 28, September, 2011 [PDF] [BibTex]

	19. Tetrahedral Image-To-Mesh Conversion For Biomedical Applications Andrey Chernikov and Nikos Chrisochoides. Published in ACM Conference on Bioinformatics, Computational Biology and Biomedicine, pages 125 -- 134, Chicago, IL, August, 2011 [PDF] [BibTex]

	20. Multi-tissue mesh generation for brain images Yixun Liu, Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in 19^th International Meshing Roundtable, pages 367 -- 384, October, 2010 [PDF] [BibTex]

	21. Guaranteed Quality Tetrahedral Delaunay Meshing for Medical Images Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in 7^th International Symposium on Voronoi Diagrams in Science and Engineering, pages 215 -- 223, Laval University, Quebec City, Canada, June, 2010 [PDF] [BibTex]

	22. Toward Real Time Image to Mesh Conversion for Non Rigid Registration Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Poster in IEEE International Conference on Bioinformatics & Biomedicine, accepted, refereed, November, 2009 [PDF] [BibTex]

	23. Boundary Generation Methods For Optimal 2D Delaunay Triangulation Alison Smith, Nikos Chrisochoides and Andrey Chernikov. Poster in Virginia Space Grant Consortium Student Research Conference, Hampton VA, April, 2009 [PDF] [BibTex]

	24. Adaptive Mesh Refinement for Non-Rigid Registration of Brain MRI Andriy Fedorov and Nikos Chrisochoides. Published in Computational Bioimaging and Visualization in 8th World Congress on Computational Mechanics, 2008 [PDF] [BibTex]

	25. Three-Dimensional Semi-Generalized Point Placement Method for Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 16^th International Meshing Roundtable, Publisher Elsevier, pages 25 -- 44, Seattle, WA, October, 2007 [PDF] [BibTex]

	26. Application-driven Quantitative Assessment of Approaches to Mesh Generation Bhautik Joshi, Andriy Fedorov, Nikos Chrisochoides, Simon K. Warfield and Sebastien Ourselin. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, acceptance rate .65, pages 1160 -- 1163, 2007 [PDF] [BibTex]

	27. Parallel Graded Generalized Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in 16^th Annual Fall Workshop on Computational Geometry, Northampton, MA, November, 2006 [PDF] [BibTex]

	28. Generalized Delaunay Mesh Refinement: From Scalar to Parallel Andrey Chernikov and Nikos Chrisochoides. Published in 15^th International Meshing Roundtable, Publisher Elsevier, pages 563 -- 580, Birmingham, AL, September, 2006 [PDF] [BibTex]

	29. An evaluation of three approaches to tetrahedral mesh generation for deformable registration of brain MR images Andriy Fedorov, Nikos Chrisochoides, Ron Kikinis and Simon K. Warfield. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, acceptance rate .56, pages 658 -- 661, 2006 [PDF] [BibTex]

	30. Tetrahedral mesh generation for medical imaging Andriy Fedorov, Nikos Chrisochoides, Ron Kikinis and Simon K. Warfield. Published in 8th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2005), 2005 [PDF] [BibTex]

	31. Construction of Discrete Descriptions of Biological Shapes through Curvilinear Image Meshing Jing Xu and Andrey Chernikov. Published in International Journal of Bioinformatics Research and Applications, in press, 2017 [PDF] [BibTex]

	32. Proof of Correctness of a Marching Cubes Algorithm Carried out with Coq Andrey Chernikov and Jing Xu. Published in Computational Geometry: Theory and Applications, Publisher Elsevier, March, 2015 [PDF] [BibTex]

	33. Guaranteed Quality Tetrahedral Delaunay Meshing for Medical Images Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in Computational Geometry: Theory and Applications, Publisher Elsevier, Volume 47, No. 4, pages 539 -- 562, 2014 [PDF] [BibTex]

	34. Mesh Deformation-based Multi-tissue Mesh Generation for Brain Images Yixun Liu, Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer, Volume 8, No. 4, pages 305 -- 318, October, 2012 [PDF] [BibTex]

	35. High-Quality Multi-Tissue Mesh Generation for Finite Element Analysis Panagiotis Foteinos and Nikos Chrisochoides. Published in Image-Based Geometric Modeling and Mesh Generation, Publisher Springer, in press, Editor Yongjie (Jessica) Zhang, pages 161 -- 172, 2012 [PDF] [BibTex]

	36. Generalized Insertion Region Guides for Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 34, No. 3, pages A1333 -- A1350, 2012 [PDF] [BibTex]

	37. Multi-Tissue Tetrahedral Image-to-Mesh Conversion with Guaranteed Quality and Fidelity Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 33, No. 6, pages 3491 -- 3508, 2011 [PDF] [BibTex]

	38. A Review of Mesh Generation for Medical Simulators Michel Audette, Andrey Chernikov and Nikos Chrisochoides. Published in Publisher John Wiley and Sons, Inc, in press, Chapter in Handbook of Real-World Applications in Modeling and Simulations, 2011 [PDF] [BibTex]

	39. Fully Generalized 2D Constrained Delaunay Mesh Refinement Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 32, No. 5, pages 2659 -- 2686, August, 2010 [PDF] [BibTex]

	40. Fully Generalized 2D Constrained Delaunay Mesh Refinement: Revisited Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 32, No. 5, pages 2659 -- 2686, August, 2010 [PDF] [BibTex]

	41. A Template for Developing Next Generation Parallel Delaunay Refinement Methods Andrey Chernikov and Nikos Chrisochoides. Published in Finite Elements in Analysis and Design, Publisher Elsevier, Volume 46, pages 96 -- 113, 2010 [PDF] [BibTex]

	42. Generalized Two-Dimensional Delaunay Mesh Refinement Andrey Chernikov and Nikos Chrisochoides. Published in SIAM Journal on Scientific Computing, Volume 31, No. 5, pages 3387 -- 3403, 2009 [PDF] [BibTex]

	43. A Quantitative Assessment of Approaches to Mesh Generation for Surgical Simulation Bhautik Joshi, Andriy Fedorov, Nikos Chrisochoides, Simon K. Warfield and Sebastien Ourselin. Published in Engineering with Computers, Publisher Springer, Volume 24, pages 417 -- 430, 2008 [PDF] [BibTex]

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Problem Solving Enviroments

	1. Numerical Simulation of Cerebral Aneurysm by Flow Diversion Melina Kazakidi, Fotios Drakopoulos, Chander Sadasivan, Nikos Chrisochoides, John Ekaterinaris and Baruch B. Lieber. Published in European Congress on Computational Methods in Applied Sciences and Engineering, Workshop on Simulation of Cardiovascular Procedures and Devices, June, 2016 [PDF] [BibTex]

	2. Telescopic Approach for Extreme-scale Parallel Mesh Generation for CFD Applications Nikos Chrisochoides Published in AIAA Aviation, June, 2016 [PDF] [BibTex]

	3. Familiar video stories as a means for children with autism: An analytics approach. Chung-Hao Chen, Jonna Bobzien, Michail Giannakos, Ann Bruhn, Alexis Brueggeman, Shahram Mohrehkesh, Ming Zhang, Wei-Wen Hsu and Nikos Chrisochoides. Published in IEEE International Conference on Healthcare Informatics, 10.1109/ICHI.2015.52, October, 2015 [PDF] [BibTex]

	4. High Fidelity Image-to-Mesh Conversion for Brain Aneurysm/Stent Geometries Ronak J. Dholakia, Fotios Drakopoulos, Chander Sadasivan, Xiangmin Jiao,, David J. Fiorella, Henry H. Woo, Baruch B. Lieber and Nikos Chrisochoides. Published in IEEE International Symposium on Biomedical Imaging: From Nano to Macro, April, 2015 [PDF] [BibTex]

	5. A Parallel Adaptive Physics-Based Non-Rigid Registration Environment for brain tumor resection Fotios Drakopoulos and Nikos Chrisochoides. Published in CompImage, September, 2014 [PDF] [BibTex]

	6. Open System and Service for Accessible Video Learning Analytics Konstantinos Chorianopoulos, Michail Giannakos, Nikos Chrisochoides and Scott Reed. Published in 14th IEEE International Conference on Advanced Learning Technologies, (ICALT 2014), 2014 [PDF] [BibTex]

	7. PROTEIN LOOP LENGTH ESTIMATION FROM MEDIUM RESOLUTION CRYOEM IMAGES Andrew McKnight Published in Msc Thesis, Computer Science, Old Dominion University, May, 2013 [PDF] [BibTex]

	8. Estimating Lower Bounds on the Length of Protein Polymer Chain Segments using Robot Motion Planning Andrew McKnight, Jing He, Nikos Chrisochoides and Andrey Chernikov. Published in VMASC 2013 Capstone Conference, April, 2013 [PDF] [BibTex]

	9. CryoEM Skeleton Length Estimation using a Decimated Curve Andrew McKnight, Kamal Al Nasr, Dong Si, Andrey Chernikov, Nikos Chrisochoides and Jing He. Published in Computational Structural Bioinformatics Workshop, Publisher IEEE, pages 109 -- 113, Philadelphia, PA, October, 2012 [PDF] [BibTex]

	10. Heterogeneous Biomechanical Model on Correcting Brain Deformation Induced by Tumor Resection Yixun Liu and Nikos Chrisochoides. Published in Computational Biomechanics for Medicine Workshop CBM7, 2012 [PDF] [BibTex]

11. Toward Real-Time, Image Guided Neurosurgery Using Distributed and Grid Computing

[PDF] [BibTex]

	12. Parallel Programming Environment for Mesh Generation Andrey Chernikov, Nikos Chrisochoides and Kevin Barker. Published in 8^th International Conference on Numerical Grid Generation in Computational Field Simulations, pages 805 -- 814, Honolulu, HI, June, 2002 [PDF] [BibTex]

	13. Making Sense of Video Analytics: Lessons Learned from Clickstream Interactions, Attitudes, and Learning Outcome in a Video-Assisted Course Michail Giannakos, Konstantinos Chorianopoulos and Nikos Chrisochoides. Published in International Review of Research in Open and Distance Learning, Volume 16, No. 1, pages 260 -- 283, February, 2015 [PDF] [BibTex]

	14. Evolutionary soft co-clustering: formulations, algorithms, and applications Wenlu Zhang, Rongjian Li, Daming Feng, Andrey Chernikov, Nikos Chrisochoides, Christopher Osgood and Shuiwang Ji. Published in Data Mining and Knowledge Discovery, Publisher Springer, DOI 10.1007/s10618-014-0375-9, August, 2014 [PDF] [BibTex]

	15. Estimating loop length from CryoEM images at medium resolutions Andrew McKnight, Dong Si, Kamal Al Nasr, Andrey Chernikov, Nikos Chrisochoides and Jing He. Published in BMC Structural Biology CSBW Special Issue, doi:10.1186/1472-6807-13-S1-S5, Volume 13, pages S5 -- November, 2013 [PDF] [BibTex]

16. Tetrahedral image-to-mesh conversion approaches for surgery simulation and navigation.

[PDF] [BibTex]

	17. Mesh Deformation-based Multi-tissue Mesh Generation for Brain Images Yixun Liu, Panagiotis Foteinos, Andrey Chernikov and Nikos Chrisochoides. Published in Engineering with Computers, Publisher Springer, Volume 8, No. 4, pages 305 -- 318, October, 2012 [PDF] [BibTex]

	18. An ITK Implementation of Physics-based Non-rigid Registration Method Yixun Liu, Andriy Kot, Fotios Drakopoulos, Andriy Fedorov, Andinet Enquobahrie, Olivier Clatz and Nikos Chrisochoides. Published in Insight Journal, 2012 [PDF] [BibTex]

	19. A Review of Mesh Generation for Medical Simulators Michel Audette, Andrey Chernikov and Nikos Chrisochoides. Published in Publisher John Wiley and Sons, Inc, in press, Chapter in Handbook of Real-World Applications in Modeling and Simulations, 2011 [PDF] [BibTex]

	20. A Load Balancing Framework for Adaptive and Asynchronous Applications Kevin Barker, Andrey Chernikov, Nikos Chrisochoides and Keshav Pingali. Published in IEEE Transactions on Parallel and Distributed Systems, Volume 15, No. 2, pages 183 -- 192, February, 2004 [PDF] [BibTex]

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Other

	1. Towards Personalized Quantum Information Learning for Dynamic Class Environment and Student Engagement Nikos Chrisochoides, Norou Diawara and Michail Giannakos. Submitted to IEEE International Conference on Quantum Computing & Engineering (QCE24), 2024 [PDF] [BibTex]

	2. Track Identification for CLAS12 using Artificial Intelligence Gagik Gavalian, Polykarpos Thomadakis, Angelos Angelopoulos and Nikos Chrisochoides. Published in 26TH INTERNATIONAL CONFERENCE ON COMPUTING IN HIGH ENERGY & NUCLEAR PHYSICS, May, 2023 [PDF] [BibTex]

	3. Image-to-Mesh (I2M) Conversion: Use Cases from Medical and Physical Sciences Experience from Classical Supercomputers to Quantum Computers Nikos Chrisochoides, Polykarpos Thomadakis, Emmanuel Billias and Kevin Garner. Poster in Advancing Medical Care through Discovery in the Physical Sciences 2023, March, 2023 [PDF] [BibTex]

	4. Evaluation of Scalable Quantum and Classical Machine Learning for Particle Tracking Classification in Nuclear Physics Polykarpos Thomadakis, Emmanuel Billias and Nikos Chrisochoides. Old Dominion University Graduate Research Achievement Day, 2023 [PDF] [BibTex]

	5. Scalable Quantum Edge Detection Method for D-NISQ Imaging Simulations: Use Cases from Nuclear Physics and Medical Image Computing Emmanuel Billias and Nikos Chrisochoides. Poster in Old Dominion University Graduate Research Achievement Day, 2023 [PDF] [BibTex]

	6. CLAS12 Track Reconstruction with Artificial Intelligence Gagik Gavalian, Polykarpos Thomadakis, Angelos Angelopoulos, Raffaella De Vita, Veronique Ziegler and Nikos Chrisochoides. In arXiv, 2202.06869, 2022 [PDF] [BibTex]

	7. A Machine Learning Approach to Denoising Particle Detector Observations in Nuclear Physics Polykarpos Thomadakis, Angelos Angelopoulos, Gagik Gavalian and Nikos Chrisochoides. Poster in Old Dominion University Graduate Research Achievement Day, 2022 [PDF] [BibTex]

	8. Convolutional Auto-Encoders for Drift Chamber data de-noising for CLAS12 Gagik Gavalian, Polykarpos Thomadakis, Angelos Angelopoulos and Nikos Chrisochoides. In arXiv, 2205.02616, 2022 [PDF] [BibTex]

	9. Particle Trajectory Classification and Prediction Using Machine Learning Angelos Angelopoulos, Polykarpos Thomadakis, Gagik Gavalian and Nikos Chrisochoides. Poster in Old Dominion University Undergraduate Research Symposium in February, 2020 [PDF] [BibTex]

	10. Hybrid RANS/LES Simulation of Vortex Breakdown Over a Delta Wing Beckett Y. Zhou, Nicolas R. Gauger, Christos Tsolakis, Juliette Pardue, Andrey Chernikov, Fotios Drakopoulos, Nikos Chrisochoides and Boris Diskin. In AIAA Aviation Forum 2019, Dallas, June, 2019 [PDF] [BibTex]

	11. Deep Learning Real-Time Adaptive Physics-based Non-Rigid Registration for Accurate Geometry Representation of Brain in Modeling Deformation During Glioma Resection Angelos Angelopoulos and Nikos Chrisochoides. Old Dominion University Undergraduate Research Symposium in 2019 [PDF] [BibTex]

	12. Familiar video stories as a means for children with autism: An analytics approach. Chung-Hao Chen, Jonna Bobzien, Michail Giannakos, Ann Bruhn, Alexis Brueggeman, Shahram Mohrehkesh, Ming Zhang, Wei-Wen Hsu and Nikos Chrisochoides. Published in IEEE International Conference on Healthcare Informatics, 10.1109/ICHI.2015.52, October, 2015 [PDF] [BibTex]

	13. Reviewing the Flipped-Inverted Classroom Research: Reflections for Computer Science Education Michail Giannakos and Nikos Chrisochoides. Published in Computer Science Education Research Conference, October, 2014 [PDF] [BibTex]

	14. Open System and Service for Accessible Video Learning Analytics Konstantinos Chorianopoulos, Michail Giannakos, Nikos Chrisochoides and Scott Reed. Published in 14th IEEE International Conference on Advanced Learning Technologies, (ICALT 2014), 2014 [PDF] [BibTex]

	15. Designing Playful Games and Applications to Support Science Centers Learning Activities Michail Giannakos, David Jones, Helen Crompton and Nikos Chrisochoides. Published in 16th International Conference on Human-Computer Interaction, Crete, Greece, 2014 [PDF] [BibTex]

	16. Open System for Video Learning Analytics Konstantinos Chorianopoulos, Michail Giannakos and Nikos Chrisochoides. Published in ACM Learning at Scale Conference, 2014 [PDF] [BibTex]

	17. A Computer-Assisted Proof of Correctness of a Marching Cubes Algorithm Andrey Chernikov and Jing Xu. Published in 22^nd International Meshing Roundtable, pages 505 -- 523, Orlando, FL, October, 2013 [PDF] [BibTex]

	18. How Students Estimate the Effects of ICT and Programming Courses Michail Giannakos, Peter Hubwieser and Nikos Chrisochoides. Published in 44th ACM technical symposium on Computer Science Education, 2013 [PDF] [BibTex]

	19. This game is girly! Perceived enjoyment and student acceptance of edutainment Michail Giannakos, Konstantinos Chorianopoulos, Letizia Jaccheri and Nikos Chrisochoides. Published in 7th International Conference on E-Learning and Games, (Edutainment 2012), 2012 [PDF] [BibTex]

	20. Students� Perceptions of the Differences Between ICT and Programming Courses Michail Giannakos, Peter Hubwieser and Nikos Chrisochoides. Published in 12th Koli Calling International Conference on Computing Education Research, 2012 [PDF] [BibTex]

	21. The Evaluation of an Effective Out-of-core Run-Time System in the Context of Parallel Mesh Generation Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in IEEE International Parallel and Distributed Processing Symposium, pages 164 -- 175, May, 2011 [PDF] [BibTex]

	22. Modeling Class Cohesion as Mixtures of Latent Topics Yixun Liu, Denys Poshyvanyk, Rudolf Ferenc, Tibor Gyim�thy and Nikos Chrisochoides. Published in 25^th International Conference on Software Maintenance (ICSM), pages 233 -- 242, September, 2009 [PDF] [BibTex]

	23. A (Contensed) Parametric Study of Optimistic Computation in Wide-Area Distributed Environments Craig Lee and Nikos Chrisochoides. Published in Mardi Gras Conference 2008, Publisher ACM, Article 11, 14 pages, 2008 [PDF] [BibTex]

	24. Experience with Memory Allocators for Parallel Mesh Generation on Multicore Architectures Andrey Chernikov, Christos Antonopoulos, Nikos Chrisochoides, Scott Schneider and Dimitris Nikolopoulos. Published in 10^th International Conference on Numerical Grid Generation in Computational Field Simulations, Published on CD-ROM, Forth, Crete, Greece, September, 2007 [PDF] [BibTex]

	25. Multigrain Parallel Delaunay Mesh Generation: Challenges and Opportunities for Multithreaded Architectures Christos Antonopoulos, Xiaoning Ding, Andrey Chernikov, Filip Blagojevic, Dimitris Nikolopoulos and Nikos Chrisochoides. Published in 19^th ACM International Conference on Supercomputing, pages 367 -- 376, Cambridge, MA, June, 2005 [PDF] [BibTex]

	26. Parallel Mesh Generation: Web-services and COTS Software Nikos Chrisochoides, Andrey Chernikov, Andriy Kot and Andriy Fedorov. Published in 6^th International Conference On Spectral and High Order Methods, Providence, RI, June, 2004 [PDF] [BibTex]

	27. A Categorical Approach for Parallel Delaunay Mesh Generation Stratos Prassidis and Nikos Chrisochoides. Published in Algebraic Topological Methods in Computer Science in 2004 [PDF] [BibTex]

	28. Computational Science Simulations based on Web Services Paul Chew, Nikos Chrisochoides, S. Gopalsamy, Gerd Heber, Tony Ingraffea, Edward Luke, Joaquim Neto, Keshav Pingali, Alan Shih, Bharat Soni, Paul Stodghill, David Thompson, Steve Vavasis and Paul Wawrzynek. Published in International Conference on Computational Science, pages 299 -- 308, 2003 [PDF] [BibTex]

	29. test-multi Fotios Drakopoulos, Yixun Liu, Kevin Garner and Nikos Chrisochoides. 2024 [PDF] [BibTex]

	30. Charged Particle Reconstruction in CLAS12 using Machine Learning Polykarpos Thomadakis, Kevin Garner, Gagik Gavalian and Nikos Chrisochoides. Published in Computer Physics Communications, Publisher Elsevier, February, 2023 [PDF] [BibTex]

	31. Using Machine Learning for Particle Track Identification in the CLAS12 Detector Polykarpos Thomadakis, Angelos Angelopoulos, Gagik Gavalian and Nikos Chrisochoides. Published in Computer Physics Communications, Publisher Elsevier, Volume 276, July, 2022 [PDF] [BibTex]

	32. De-noising drift chambers in CLAS12 using convolutional auto encoders Polykarpos Thomadakis, Angelos Angelopoulos, Gagik Gavalian and Nikos Chrisochoides. Published in Computer Physics Communications, Publisher Elsevier, Volume 271, October, 2021 [PDF] [BibTex]

	33. Using Artificial Intelligence for Particle Track Identification in CLAS12 Detector Gagik Gavalian, Polykarpos Thomadakis, Angelos Angelopoulos, Veronique Ziegler and Nikos Chrisochoides. Published in arXiv, 2008.12860, August, 2020 [PDF] [BibTex]

	34. Construction of Discrete Descriptions of Biological Shapes through Curvilinear Image Meshing Jing Xu and Andrey Chernikov. Published in International Journal of Bioinformatics Research and Applications, in press, 2017 [PDF] [BibTex]

	35. Proof of Correctness of a Marching Cubes Algorithm Carried out with Coq Andrey Chernikov and Jing Xu. Published in Computational Geometry: Theory and Applications, Publisher Elsevier, March, 2015 [PDF] [BibTex]

	36. Making Sense of Video Analytics: Lessons Learned from Clickstream Interactions, Attitudes, and Learning Outcome in a Video-Assisted Course Michail Giannakos, Konstantinos Chorianopoulos and Nikos Chrisochoides. Published in International Review of Research in Open and Distance Learning, Volume 16, No. 1, pages 260 -- 283, February, 2015 [PDF] [BibTex]

	37. Effective Out-of-Core Parallel Delaunay Mesh Refinement using Off-the-Shelf Software Andriy Kot, Andrey Chernikov and Nikos Chrisochoides. Published in ACM Journal on Experimental Algorithmics, in press, 2011 [PDF] [BibTex]

	38. A Multigrain Delaunay Mesh Generation Method for Multicore SMT-based Architectures Christos Antonopoulos, Filip Blagojevic, Andrey Chernikov, Nikos Chrisochoides and Dimitris Nikolopoulos. Published in Journal on Parallel and Distributed Computing, Volume 69, No. 7, pages 589 -- 600, 2009 [PDF] [BibTex]

	39. Algorithm, Software, and Hardware Optimizations for Delaunay Mesh Generation on Simultaneous Multithreaded Architectures Christos Antonopoulos, Filip Blagojevic, Andrey Chernikov, Nikos Chrisochoides and Dimitris Nikolopoulos. Published in Journal on Parallel and Distributed Computing, Volume 69, No. 7, pages 601 -- 612, 2009 [PDF] [BibTex]

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