Dhananjai M. Rao, PhD.

Refereed Journal Articles


  1. M. A. Johansson, K. M. Apfeldorf, S. Dobson, J Devita, A. Buczak, B. Baugher, L. J. Moniz, T. Bagley, S. M. Babin, E. Guven, T. K. Yamana, J. Shaman, T. Moschou, N. Lothian, A. Lane, G. Osborne, G. Jiang, L. C. Brooks, D. C. Farrow, S. Hyun, R. J. Tibshirani, R. Rosenfeld, J. Lessler, N. G. Reich, D. A. T. Cummings, S. A. Lauer , S. M. Moore, H. E. Clapham, R. Lowe, T. C. Bailey , M. García-Díez , M. S. Carvalho, X. Rodó , T. Sardar, R. Paul, E. L. Ray, K. Sakrejda, A. C. Brown, X. Meng, O. Osoba, R. Vardavas, D. Manheima, M. Moore, D. M. Rao, T. C. Porcocc, S. Ackley, F. Liu, L. Worden, M. Convertino, Y. Liu, A. Reddy, E. Ortiz, J. Rivero, H. Brito, A. Juarrero, L. R. Johnson , R. B. Gramacy, J. M. Cohen, E. A. Mordecai, C. C. Murdock, J. R. Rohrn, S. J. Ryan, A. M. Stewart-Ibarra, D. P. Weikel, A. Jutla, R. Khan, M. Poultney, R. R. Colwell, R. Rivera-García, C. M. Barker, J. E. Bell, M. Biggerstaff, D. Swerdlow, L. Mier-y-Teran-Romero, B. M. Forshey, J. Trtanj, J. Asher, M. Clay, H. S. Margolis, A. M. Hebbeler, D. George and J. Chretien. "An open challenge to advance probabilistic forecasting for dengue epidemics", Proceedings of the National Academies of Science (PNAS), Nov 2019, Vol 116 (48), Pages: 24268-24274, DOI: 10.1073/pnas.1909865116 (PDF PDF)

  2. N. Parvez, D. M. Rao, and M. B. Zanjani, "Investigation of Geometric Landscape and Structure-Property Relations for Colloidal Superstructures Using Genetic Algorithm", Journal of Physical Chemistry, 2019 (PDF PDF)

  3. D. M. Rao, and A. Chernyakhovsky, "Automatic generation of agent-based models of migratory waterfowl for epidemiological analyses", International Journal of Computer Aided Engineering and Technology , Vol 11, Issue 6, 2019, Pages: 747-762, 10.1504/IJCAET.2019.102502 (PDFPDF)

  4. D. M. Rao and J. D. Higiro, "Managing Pending Events in Sequential & Parallel Simulations using 3-Tier Heap & 2-Tier-Ladder Queue", ACM Transactions on Modeling and Computer Simulation, 2019 DOI: 10.1145/3265750 (PDF PDF)

  5. N. Giridharan and D. M. Rao, "Eliciting characteristics of H5N1 in High-Risk Regions Using Phylogeography and Phylodynamic Simulations", IEEE Computing in Science and Engineering, Vol. 18, No. 04, Pages 11-24, July 2016, DOI: 10.1109/mcse.2016.77 (PDF PDF)

  6. D. M. Rao, "Efficient Parallel Simulation of Spatially-explicit Agent-based Epidemiological Models", Journal of Parallel and Distributed Computing (JPDC), Volume 93, Pages 102-119, July 2016, DOI: 10.1016/j.jpdc.2016.04.004 (PDF PDF)

  7. D. M. Rao, "Enhancing Global Epidemiological Analysis of Avian Influenza using Phylogeography", BMC Proceedings, Volume 8, Suppl 6, 2014, DOI: 10.1186/1753-6561-8-S6-S1 (PDF PDF)

  8. P. V Ponangi, P Kidambi, D. M. Rao, N. Edala, M. Fendley, M. W. Haas, and S. Narayanan, "On the offense: Using cyber weapons to influence cognitive behavior", International Journal of Cyber Society and Education (IJCSE), Vol. 5, No. 2, pp. 127-150, 2012, DOI : 10.7903/ijcse.1101 (PDF PDF).

  9. D. M. Rao, J. C. Moler, M. Ozden, Y. Zhang, C. Liang, and J. E. Karro, "PEACE: Parallel Environment for Assembly and Clustering of Gene Expression", Nucleic Acids Research, 2010, DOI: 10.1093/nar/gkq470 (PDF PDF)

  10. D. M. Rao, A. Chernyakhovsky, and V. Rao, "Avian Influenza: Predicting and Preventing a Pandemic", Elsevier Journal of Environmental Modelling and Software, 2008, DOI: 10.1016/j.envsoft.2008.06.011 (PDF PDF)

  11. D. M. Rao and P. A. Wilsey, "Predicting Performance Impacts due to Resolution Changes in Parallel Simulations", SCS Transactions: Simulation Journal, Vol. 84, No.10, Pages 535-555, December 2008, DOI: 10.1177/0037549708096134 (PDF PDF)

  12. D. M. Rao and P. A. Wilsey, "Accelerating ATM Simulations using Dynamic Component Substitution (DCS)", SCS Transactions: Simulation Journal, Vol. 82, No. 4, Pages 235-253, April 2006, DOI: 10.1177/0037549706067271 (PDF PDF)

  13. D. M. Rao and P. A. Wilsey, "An Active Networks Simulation Environment", SCS Transactions: Simulation Journal, Vol. 78, No. 7, 447-460, July 2002, DOI: 10.1177/0037549702078007582 (PDF PDF)

  14. D. E. Martin, R. Radhakrishnan, D. M. Rao, M. Chetlur, K. Subramani, and P. A. Wilsey, "Analysis and Simulation of Mixed-Technology VLSI Systems", Journal of Parallel and Distributed Computing, Volume 62, Number 3, Pages 468-493, March 2002, DOI: 10.1006/jpdc.2001.1805 (PDF PDF)

  15. D. M. Rao and P. A. Wilsey, "An Ultra-large Scale Simulation Framework", Journal of Parallel and Distributed Computing, Volume 62, Issue 11, Pages 1670-1693, January 2002, DOI: 10.1016/S0743-7315(02)00003-5 (PDF PDF)

  16. V. Balakrishnan, R. Radhakrishnan, D. M. Rao, N. B. Abu-Ghazaleh, and P. A. Wilsey, "A Performance and Scalability Analysis Framework for Parallel Discrete Event Simulations", Simulation Practice and Theory, Volume 8, Pages 529-553, 2001, DOI: 10.1016/S0928-4869(01)00033-7 (PDF PDF)

  17. S. Subramanian, D. M. Rao, and P. A. Wilsey, "Applying Multilevel Partitioning to Parallel Logic Simulation", Parallel and Distributed Computing Practices , Volume 4, Number 1, Pages 37-59, March 2001 http://www.scpe.org/index.php/scpe/article/view/224

  18. D. M. Rao, R. Radhakrishnan, and P. A. Wilsey, "Web-based Network Analysis and Design", ACM Transactions on Modeling and Computer Simulation, Volume 10, Issue 1, 18-38, January 2000 10.1145/353735.353737 (PDF PDF)

Refereed Conference Papers


  1. D. M. Rao, "A Concurrent Multi-tier Priority Queue for Multithreaded Optimistic Parallel Discrete Event Simulation", The 33rd annual European Simulation and Modelling Conference (ESM'19), October 28-30, 2019, Palma de Mallorca, Spain (PDF PDF)

  2. D. M. Rao, "Experiences with auto-grading in a systems course", IEEE Frontiers in Education (FIE'19), Cincinnati, OHIO, USA, October 2019 (PDF PDF)

  3. D. M. Rao, "Accessibility in an educational software system: Experiences and Design", IEEE Frontiers in Education (FIE'19), Cincinnati, OHIO, USA, October 2019 (PDF PDF)

  4. L. Mosley and D. M. Rao, "Analyzing Evolution of Avian Influenza using detailed Genotypic and Antigenic Models and Phylodynamic Simulation", The 2019 Conference on Artifical Life (ALife'19), Newcastle, UK, July 29-Aug 3, 2019, Pages 220-227, DOI: 10.1162/isal_a_00165 (PDF PDF), Presentation

  5. D. M. Rao, "Characterizing rollbacks in parallel optimistic simulations", In Proceedings of the 2019 Summer Simulation Conference (SummerSim '19). Society for Computer Simulation International, San Diego, CA, USA, Article 40, 12 pages. ACM Digital Library (PDF PDF)

  6. D. M. Rao, S. Sreeskandarajan, and C. Liang, "Accelerating Clustering using Approximate Spanning Tree and Prime Number based Filter", 2019 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW), Rio de Janeiro, Brazil, 2019, pp. 166-174. DOI: 10.1109/IPDPSW.2019.00037 (PDF PDF)

  7. D. M. Rao, "Temporospatial Epidemic Simulations using Heterogeneous Computing", Proceedings of the 32nd European Modelling and Simulation Conference (ESM'18), University of Ghent, Ghent, Belgium. Oct 26-28, 2018. (PDF PDF)

  8. D. M. Rao, "Performance comparison of Cross Memory Attach capable MPI vs. Multithreaded Optimistic Parallel Simulations", Proceedings of the ACM SIGSIM/PADS conference on Principles of Advanced Discrete Simulation (ISBN: 978-1-4503-5092-1), Pages 37–48, Rome, Italy, May 2018. 10.1145/3200921.3200935 (PDF PDF)

  9. D. M. Rao, "A parallel framework for Ab initio Transcript-Clustering", Proceedings fo the 40th International Conference on Software Engineering: Companion Proceeedings, Pages 331–332, Sweden,July 2018 (PDF PDF)

  10. E. Schmidt and D. M. Rao, "Generating Synthetic Individual-Human Population and Activity Models", Proceedings of the 31st European Modelling and Simulation Conference (ESM'17), University of Las Palmas, Lisbon, Portual. Oct 26-28, 2017. (PDF PDF)

  11. D. M. Rao, "Music Maker: Using music to introduce coding and concurrency to young learners", IEEE Frontiers in Education, Indianapolis, October 2017, Pages: 1-6. 10.1109/FIE.2017.8190611 (PDF PDF)

  12. J. Higiro, M. Gebre, and D. M. Rao, "Multi-tier Priority Queues and 2-tier Ladder Queue for Managing Pending Events in Sequential and Optimistic Parallel Simulations", Proceedings of the ACM SIGSIM/PADS conference on Principles of Advanced Discrete Simulation, Singapore, May 2017, DOI: 10.1145/3064911.3064921 (PDF PDF)

  13. G. Sheffield and D. M. Rao, "Modeling and Simulation of Phylodynamics of Avian Influenza", Proceedings of the 30th European Modelling and Simulation Conference (ESM’16), University of Las Palmas, Siani, Spain. Oct 26-28, 2016. (PDF PDF)

  14. D. M. Rao, "Accelerating Parallel Agent-based Epidemiological Simulations", Proceedings of the 28th ACM/SIGSIM Conference on Principles of Advanced Discrete Simulation (ACM SIGSIM PADS), Denver, Colorado, USA. May 18-21, 2014, DOI: 10.1145/2601381.2601387 (PDF PDF)

  15. P. V. Ponangi, P. Kidambi, D. M. Rao, N. Edala, M. Fendley, M. Haas and S Narayanan, "Influencing Cognitive Behavioral Changes using a Suite of Cyber Weapons", International Conference on Applied and Theoretical Information Systems Research (ATISR), Taipei, Taiwan, February 2012

  16. D. M. Rao, "Enhancing Temporo-Geospatial Epidemiological Analysis of H5N1 Influenza using Phy- logeography", Proceedings of the Great Lakes Bioinformatics Conference (GLBIO’2014), Cincinnati, OHIO, USA. May 16-18, 2014 (Best runner up research paper).

  17. D. M. Rao and A. Chernyakhovsky, "Automatic Generation of Global Agent Based Model of Migratory Waterfowl for Epidemiological Analysis of Avian Influenza and Other Zoonotic Diseases", Proceedings of the 2013 European Simulation and Modeling Conference (ESM’13), Lancaster, Lancashire, UK. October 23-25, 2013, Best paper award (PDF PDF).

  18. Y. Zhang, D. M. Rao, J. Mueller, M. Ozden, C. Liang, J. E. Karro, "Transcript assembly through a d2-based MST approach", IEEE Workshop on Computational Advances in Bio and Medical Sci- ences (ICCABS), Orlando, Florida, 2011. ISBN: 978-1-6284-851-8, Page: 279, DOI: 10.1109/iccabs.2011.5729933 (PDF PDF)

  19. D. M. Rao and A. Chernyakhovsky, "Parallel Simulation of the Global Epidemiology of Avian Influenza", Proceedings of the 2008 Winter Simulation Conference (WSC'08), Miami, USA, December, 2008, DOI: 10.1109/WSC.2008.4736241 (PDF PDF)

  20. D. M. Rao, A. Chernyakhovsky, and V. Rao, "SEARUMS: Studying Epidemiology of Avian Influenza Rapidly Using Simulation", Proceedings of the 2007 International Conference in Modeling Health Advances (ICMHA'07), Berkeley, CA, October, 2007, Pages 667-673 (best paper nominee), DOI: http://www.iaeng.org/publication/WCECS2007/WCECS2007_pp667-672.pdf (PDF PDF)

  21. D. M. Rao and P. A. Wilsey, "Applying Parallel, Dynamic-Resolution Simulations to Accelerate VLSI Power Estimation", Proceedings of the 2006 Winter Simulation Conference (WSC'06), December 2006, Pages 694-702, DOI: 10.1109/WSC.2006.323148 (PDF PDF)

  22. D. M. Rao and P. A. Wilsey, "Predicting Performance of Resolution Changes in Parallel Simulations", Proceedings of the 20th ACM/IEEE/SCS Workshop on on Principles of Advanced and Distributed Simulation (PADS'06), Singapore, May 2006, Pages 45-54 (best paper nominee), DOI: 10.1109/PADS.2006.30 (PDF PDF)

  23. D. M. Rao and P. A. Wilsey, "Accelerating Spatially Explicit Simulations of Spread of Lyme Disease", Proceedings of the 38th Annual Simulation Symposium, San Diego, California, Pages 251-258, April 2005, DOI: 10.1109/ANSS.2005.10 (PDF PDF)

  24. D. M. Rao and P. A. Wilsey, "Performance Prediction of Dynamic Component Substitutions", Proceedings of the Winter Simulation Conference, Pages 816-824, December 2002, DOI: 10.1109/WSC.2002.1172965 (PDF PDF)

  25. D. M. Rao and P. A. Wilsey, "Multi-Resolution Network Simulations through Dynamic Component Substitution", In Proceedings of the Ninth International Symposium on Modeling, Analysis and Simulation of Computer and Telecommunication Systems (MASCOTS'01), Pages 142-149, August 2001, DOI: 10.1109/mascot.2001.948863 (PDF PDF)

  26. D. M. Rao and P. A. Wilsey, "Modeling and Simulation of Active Networks", In the Proceedings of the 34th Annual Simulation Symposium, Pages 177-184, April 2001, DOI: 10.1109/SIMSYM.2001.922130 (PDF PDF)

  27. D. M. Rao, H. W. Carter, and P. A. Wilsey, "Optimizing Costs of Web-based Modeling and Simulation" In Proceedings of 15th International Parallel and Distributed Processing Symposium (IPDPS), April 2001, DOI: IPDPS.2001.925167 (PDF PDF)

  28. D. M. Rao and P. A. Wilsey, "Dynamic Component Substitution in Web-based Simulation", In Proceedings of the 2000 Winter Simulation Conference, Pages 1840-1848, December 2000, DOI: 10.1109/WSC.2000.899177 (PDF PDF)

  29. D. M. Rao and P. A. Wilsey, "Parallel Co-simulation of Conventional and Active Networks", Proceedings of the Eighth International Symposium on Modeling, Analysis and Simulation of Computer and Telecommunication Systems (MASCOTS 2000), Pages 291-298, August 2000, DOI: 10.1109/MASCOT.2000.876551 (PDF PDF)

  30. S. Subramanian, D. M. Rao, and P. A. Wilsey, "Study of a Multilevel Approach to Partitioning for Parallel Logic Simulation", International Parallel and Distributed Processing Symposium (IPDPS 2000), Pages 833-838, May 2000, DOI: 10.1109/IPDPS.2000.846071 (PDF PDF)

  31. D. M. Rao, V. Chernyakhovsky, and P. A. Wilsey, "WESE: A Web-based Environment for Systems Engineering", 2000 International Conference On Web-Based Modelling & Simulation (WEBSIM 2000), January 2000

  32. D. M. Rao, and P. A. Wilsey, "An Object Oriented Framework for Parallel Simulation of Ultra-large Communication Networks", The Third International Symposium on Computing in Object-Oriented Parallel Environments (ISCOPE '99), (LNCS 1732), S. Matsuoka, R. R. Oldehoeft, and M. Tholburn (eds), Pages 37-48, December 1999, DOI: 10.1109/IPDPS.2000.846071 (PDF PDF)

  33. D. M. Rao and P. A. Wilsey, "Simulation of Ultra-large Communication Networks", Proceedings of the Seventh International Symposium on Modeling, Analysis and Simulation of Computer and Telecommunication Systems (MASCOTS '99), Pages 112-119, October 1999, DOI: 10.1109/mascot.1999.805046 (PDF PDF)

  34. N. V. Thondugulam, D. M. Rao, R. Radhakrishnan and P. A. Wilsey, "Relaxing Causal Constraints in PDES", 13th International Parallel Processing Symposium (IPPS'99), Pages 696-700, April 1999 10.1109/IPPS.1999.760551 (PDF PDF)

  35. D. M. Rao, R. Radhakrishnan, and P. A. Wilsey, "FWNS: Framework for Web-based Network Simulation", 1999 International Conference On Web-Based Modeling & Simulation (WEBSIM'99), January 1999

  36. R. Radhakrishnan, D. E. Martin, M. Chetlur, D. M. Rao, and P. A. Wilsey, "An Object-Oriented Time Warp Simulation Kernel", The Second International Symposium on Computing in Object-Oriented Parallel Environments (ISCOPE'98), Pages 13-23, December 1998. 10.1007/3-540-49372-7 2 (PDF PDF)

  37. D. M. Rao, N. V. Thondugulam, R. Radhakrishnan, and P. A. Wilsey, "Unsynchronized Parallel Discrete Event Simulation", Proceedings of the 1998 Winter Simulation Conference (WSC'98), Pages 1563-1570, December 1998 10.1109/WSC.1998.746030 (PDF PDF)

  38. D. M. Rao, K. Swaminathan, R. Radhakrishnan, P. A. Wilsey, and P. Alexander, "ANSE: An Active Networks Simulation Environment", Workshop on Distributed and Parallel Systems (DAPSYS'98), September 1998

Book and Book Chapters


  1. D. M. Rao, A, Chernyakhovsky, and V. Rao, "Analyzing Global Epidemiology of Diseases Using Human-in-the-Loop Bio-Simulations", book chapter in "Human-in-the-Loop Simulations: Methods and Practice", Springer, September 15, 2011, ISBN-10: 0857298828 | ISBN-13: 978-0857298829

  2. D. M. Rao, A. Chernyakhovsky, and V. Rao, "Computational-Evolutionary Methodologies for Knowledge Discovery and Forecasting in Epidemiology and Medicine", book chapter in Current Themes in Engineering Technologies: World Congress on Engineering and Computer Science: Selected Papers, ISBN: 978-0-7354-0526-4, 223-234

  3. D. M. Rao, D. D. Hodson, M. Stieger, C. B. Johnson, P. Kidambi, and S. Narayanan, "Design and Implementation of Virtual and Constructive Simulations Using OpenEaagles", ISBN: 1-60797-019-8

Other Articles and Technical Reports


  1. D. M. Rao, "Study of Dynamic Component Substitutions", Doctoral Dissertation, University of Cincinnati, August 2003

  2. D. M. Rao, "Improving Efficiency of Simulation Studies using Dynamic Component Substitution", Doctoral Dissertation Proposal, September 2001

  3. D. M. Rao, "Estimating Changes to Model and Simulation related Parameters induced by Component Aggregation and De-Aggregation", A Report submitted to the Division of Research and Advanced Studies, University of Cincinnati, Fall 2001

  4. D. M. Rao, "A Network Simulation Toolkit", Master's Thesis, August 2000

  5. D. M. Rao and P. A. Wilsey, "Validation of Ultra-Large Active Networks Simulations", DARPA Workshop on Active Networks, April 2000. Washington D.C.

  6. D. M. Rao, "Study of Over-Optimistic Parallel Discrete Event Simulation", A Report submitted to the Division of Research and Advanced Studies, University of Cincinnati, Summer 2000