Research Interests:

  • Modeling and Simulation  

  • Complex System

  • High Performance Computing

  • Bioinformatics

 
Publications  External Grants  Professional Activities  Presentations

Publications:

  1. Zhong, W., and Gu, F. Predicting local protein 3D structures using clustering deep recurrent neural network. IEEE/ACM Transactions on Computational Biology and Bioinformatics, IEEE, 2020.
  2. Hou, Y., Hao, G.-S., Zhang, Y., Gu, F., Wang, X., and Zhang, T. T. A molecular interations-based social learning particle swarm optimization algorithm. IEEE Access, IEEE, 8: 135661-135674, 2020.
  3. Zhang, X., Xiao, J., Gong, Y., Yu, N., Zhang, W., Jang, S., and Gu, F. Handing the missing data problem in electronic health records for cancer prediction, MSM 2020, 2020 Spring Simulation Multi-Conference, 57: 1-9, 2020.
  4. Zhong, Wei, and Gu, F. A multi-level deep learning system for malware detection. Expert Systems with Applications, 133: 151-162, 2019.
  5. Zhang, X., and Gu, F. Adaptive particle sampling and resampling parallel/distributed particle filters, HPC 2019, 2019 Spring Simulation Multi-Conference, 2019.
  6. Zhang, X., Xiao, J., and Gu, F. Applying support vector machine to electronic health records for cancer classification, MSM 2019, 2019 Spring Simulation Multi-Conference, 2019.
  7. Zhang, X., Mohamed, A., Nguyen, L, and Gu, F. Performance analysis of parallel/distributed particle filters, 2018 Spring Simulation Multi-Conference, 761-771, 2018. (TMS/DEVS 2018 best paper award)
  8. Gu, F. On-demand data assimilation of large-scale spatial temporal systems using sequential Monte Carlo methods. Simulation Modelling Practice and Theory, 85: 1-14, 2018.
  9. Dai, M., He, W., Tian, X., Giraldi, A., and Gu, F. Working with communities on social media varieties in the use of Facebook and Twitter by local police. Online Information Review, 41(6): 782-796, 2017. (Outstanding Paper in the 2018 Emerald Literati Awards)
  10. Yu, N., Yu, Z., Gu, F., and Pan, Y. Evaluating the impact of encoding schemes on deep auto-encoders for DNA annotation, 13th International Symposium on Bioinformatics Research and Applications, 390-395, 2017.
  11. Gu, F. Localized recursive spatial-temporal state quantification method for data assimilation of wildfire spread simulation. Simulation: Transactions of the Society for Modeling and Simulation International, 93(4): 343-360, 2017.
  12. Yu, N., Yu, Z., Gu, F., Li, T., Tian, X., and Pan, Y. Deep learning in genomic and medical image data analysis: challenges and approaches. J Inf Process Syst, 13(2): 204-214, 2017.
  13. Zhang, X., Huang, L., Ferguson-Hull, E., and Gu, F. Adaptive particle routing in parallel/distributed particle filters, 2017 Spring Simulation Multi-Conference, 580-589, 2017.
  14. Liao, S., Xiao, J., Xie, Y., and Gu, F. Towards use of electronic health records: Cancer classification, 2017 Spring Simulation Multi-Conference, 845-854,2017.
  15. Yu, N., Guo, X., Gu, F., and Pan, Y. Signalign: An ontology of DNA as signal for comparative gene structure prediction using information-coding-and-processing techniques. IEEE Transactions on NanoBioScience, 15(2): 119-130, 2016.
  16. Bai, F., Gu, F., Hu, X., and Guo, S. Particle routing in distributed particle filters for large-scale spatial temporal systems. IEEE Transactions on Parallel and Distributed Systems, 27(2): 483-491, 2016.
  17. Gu, F., Syeda, R., and Ai, C. Geo-reference image data assimilation for wildfire spread simulation, 2016 Spring Simulation Multi-Conference, 78-85.
  18. Xie, X., Verbraeck, A., and Gu, F. Data assimilation in discrete event simulations: a rollback based Sequential Monte Carlo approach, 2016 Spring Simulation Multi-Conference, 522-529, 2016.
  19. Yu, N., Yu, Z., Li, B., Gu, F., and Pan, Y. A comprehensive review of emerging computational methods for gene identification. Journal of Information Processing Systems, 21 (1): 1-34, 2016.
  20. Wu, S., Zhang, P., Li, F., Gu, F., and Pan, Y. A hybrid discrete particle swarm optimization-genetic algorithm for multi-task scheduling problem in service oriented manufacturing systems. Journal of Central South University, 23(2): 421-429, 2016.
  21. Gu, F., and Wang, X. Analysis of allele specific expression -- A Survey. Tsinghua Science and Technology, 20(5): 513-529, 2015.
  22. Gu, F., Butt, M., Ai, C., Shen, X., and Xiao, J. Adaptive particle filtering in data assimilation of wildfire spread simulation, 2015 Summer Simulation Multi-Conference, 159-168, 2015.
  23. Yu, N., Guo, X., and Gu, F., and Pan, Y. DNA AS X: An information-coding-based model to improve the sensitivity in comparative gene analysis, 11th International Symposium on Bioinformatics Research and Applications, 366-377, 2015.
  24. Yu, N., Gu, F., Guo, X., and He, Z. A fine-grained flow control model for cloud-assisted data broadcasting, CNS 2015, 2015 Spring Simulation Multi-Conference, 324-331, 2015.
  25. Gu, F. Adaptively perturbing localized state space in data assimilation of wildfire spread simulation. ANSS 2015, 2015 Spring Simulation Multi-Conference, 254-263, 2015. (Runner-up of the best paper award for ANSS 2015)
  26. Ai, C., Zhong, W., Yan, M., and Gu, F. A partner-matching framework for social activity communities. Computational Social Networks, 1:5, 2014.
  27. Guo, X., Yu, N., Gu, F., Ding, X., Wang, J., and Pan, Y. Genome-wide interaction-based association of human Diseases-a survey. Tsinghua Science and Technology, Tsinghua Science and Technology, 9(16), 596-616, 2014.
  28. Ai, C., Zhong, W., Yan, M., and Gu, F. Partner matching applications of social networks. COCOON 2014: 647-656, 2014.
  29. Zheng, X., and Gu, F. Fast Fourier transform on FCC and BCC lattices with outputs on FCC and BCC lattices respectively, Journal of Mathematical Imaging and Vision, 49(3): 530-550, 2014.
  30. Yan, X., Gu, F., Hu, X., and Pan, Y. Dynamic formation control for autonomous underwater vehicles, Journal of Central South University, 2014(21):113-123, 2014.
  31. Yan, X., Gu, F., Hu, X., and Engstrom, C. Dynamic data driven event reconstruction for traffic system using sequential Monte Carlo methods, 2013 Winter Simulation Conference, 2042-2053, 2013.
  32. Xue, H., Gu, F., Hu, X. Data assimilation using sequential Monte Carlo methods in wildfire spread simulation, ACM Transaction on Modeling and Computer Simulation, 22(4):23:1-25, 2012.
  33. Gu, F., Hu, X. Analysis and quantification of data assimilation based on sequential Monte Carlo methods for wildfire spread simulation, International Journal of Modeling, Simulation, and Scientific Computing, 4, 445-468, 2010.
  34. Yan, X., Gu, F., Hu, X., Guo, S. A dynamic data driven application system for wildfire spread simulation, Proc. 2009 Winter Simulation Conference (WSC'09), 2009.
  35.  Yan, X., Chen, B., Qian, H., Gu, F., Hu, X. A handover scheme for subnet mobility in heterogeneous networks. World Conference on Engineering, 2009.
  36. Gu, F., Yan, X., Hu, X. State estimation using particle filters in wildfire spread simulation. Proc. 42nd Annual Simulation Symposium (ANSS), 2009.
  37. Gu, F., Hu, X. Towards applications of particle filter in wildfire spread simulation. Proc. 2008 Winter Simulation Conference (WSC'08), 2008.
  38.  Gu, F., Hu, X., Ntaimo, L. Towards validation of DEVS-FIRE wildfire simulation model. Proc. High Performance Computing and Simulation Symposium (HPCS08), part of SpringSim'08, 2008.
  39.  Liu, C., Xie, T., Bi, H., and Gu, F. Analysis of MBO in Chinese corporations. Journals  of Beijing Institute of Machinery, 17(3): 83-87, 2002.
  40. Gu, F., Lu, T. The study and implementation of web-based office automation. Journals  of Beijing Institute of Machinery, 17(3): 40-45, 2002.
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External Grants:

  1. Applying Artificial Intelligence to Person-Based Policing Practices, National Institute of Justice, co-PI, $563,411, 2019-2022.
  2. An Integrated Agent-Based Model with Geographic Information System of Childhood Obesity in the Urban Communities in New York City, CUNY-IRG, co-PI, $40,000, 2018-2019.
  3. Exploring Introduction of High Performance Computing and Big Data in High Schools, NSF, co-PI, $50,000, 2018-2019.
  4. Integrating NSF/IEEE-TCPP Curriculum Initiative on PDC to Software Engineering Course System at Beijing Normal University Zhuhai, NSF/IEEE, co-PI, $2,000, 2014-2015.
  5. Integrating NSF/TCPP Curriculum Initiative on PDC into Undergraduate Courses at Guangdong University of Petrochemical Technology, NSF/IEEE, co-PI, $2,000, 2014-2015.
  6. Enhance Parallel and Distributed Computing Teaching by Infusing NSF/IEEE-TCPP Curriculum Initiative into the Existing Courses and Developing a New Course, NSF/IEEE, co-PI, $2,500, 2014-2015.
  7. Research Initiation Award: Spatial-temporal Information Fusion and Real-time Sensor Data Assimilation Using Sequential Monte Carlo Methods, NSF, PI, $199,884, 2013-2015.
  8. Experimentally Guided In-silico Analysis of Cellular Aggregate Fusion in Bioprinting, Grants for Exploratory Academic Research, South Carolina EPSCoR/IDeA, co-PI, $100,000, 2013-2014.
  9. Modeling and Simulation of Fusion and Phase Evolution in Biofabrication Processes, Grants for Exploratory Academic Research, South Carolina EPSCoR/IDeA, co-PI, $85,000, 2011-2012.
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Professional Activities:

Peer Reviewer for the following journals and conferences

  1. Smart Science

  2. Mathematical Problems in Engineering

  3. Big Data and Analytics

  4. IEEE Access

  5. IEEE Transactions on Parallel and Distributed Systems

  6. Expert Systems with Applications

  7. Concurrency and Computation

  8. Personal and Ubiquitous Computing

  9. International Journal of Simulation and Process Modelling

  10. Physica A

  11. IEEE Transactions on Neural Networks and Learning Systems

  12. 12. IEEE INFOCOM 2017

  13. Tsinghua Science and Technology

  14. Transactions on Spatial Algorithms and Systems

  15. IEEE INFOCOM 2016

  16. Engineering Application of Artificial Intelligence

  17. Symposium on Theory of Modeling and Simulation (TMS/DEVS) 2015

  18. IEEE INFOCOM 2015

  19. IEEE/ACM Transactions on Computational Biology and Bioinformatics

  20. IEEE INFOCOM 2014

  21. ACM Transaction on Modeling and Computer Simulation

  22. Symposium on Theory of Modeling and Simulation (TMS/DEVS) 2013

  23. Intelligent Agent Technology 2013

  24. 26th ACM/IEEE/SCS Workshop on Principles of Advanced and Distributed Simulation (PADS 2012)

  25. 9th International Conference on Modeling, Optimization and SIMulation (MOSIM 2012)

  26. International Journal of Agent Technologies and Systems

  27. Simulation: Transactions of the Society for Modeling and Simulation International

  28. International Journal of Modeling, Simulation, and Scientific Computing

  29. International Journal of Knowledge and Systems Science

  30. Agent-Directed Simulation Symposium 2011 (ADS 2011)

  31. Huntsville Simulation Conference 2010

     

Member of Scientific Working Group Board of SC EPSCoR/IDeA

Technical Program Committee and Session Chair

  1. Artificial Intelligence for Industries 2020 (ai4i 2020), TPC

  2. 2020 International Symposium on Neural Computing and Applications (ISNCA 2020), TPC

  3. 2020 2nd International Conference on Information Technology and Computer Communications (ITCC 2020), TPC

  4. 2020 the 3rd International Conference on Computing and Big Data (ICCBD 2020), TPC

  5. 2020 3rd Artificial Intelligence and Cloud Computing Conference  (AICCC 2020), TPC

  6. 2020 The 4th International Conference on E-Business and Internet (ICEBI 2020), TPC

  7. 2020 International Conference on Electronics, Communications and Information Technology (CECIT 2020), TPC

  8. 2020 2nd International Conference on Advanced Information Science and System (AISS 2020), TPC

  9. 2020 3rd International Conference on Data Science and Information Technology (DSIT 2020, TPC

  10. 2020 International Conference on Big Data Engineering (BDE 2020), TPC

  11. 2020 International Conference on Computing, Networks, and Internet of Things (CNIOT 2020), TPC

  12. 2020 5th International Conference on Big Data and Computing (ICBDC 2020), TPC

  13. 2020 International Conference on Big Data and Education (ICBDE 2020), TPC

  14. 2020 the 3rd International Conference on Big Data Management (ICBDM 2020), TPC

  15. The 5th IEEE International Conference on Cloud Computing and Big Data Analysis (ICCCBDA 2020), TPC

  16. Artificial Intelligence for Industries 2019 (ai4i 2019), TPC

  17. 2019 2nd Artificial Intelligence and Cloud Computing Conference (AICCC 2019), TPC

  18. 2019 International Conference on Advanced Information Science and System (AISS 2019), TPC

  19. 2019 International Conference on Big Data Engineering (BDE 2019), TPC

  20. 2019 International Conference on Information Technology and Computer Communications (ITCC 2019), TPC

  21. The 2nd International Conference on Computing and Big Data (ICCBD 2019), TPC

  22. 2019 4th International Conference on Big Data and Computing (ICBDC 2019), TPC

  23. 2019 International Conference on Big Data and Education (ICBDE 2019), TPC

  24. The 4th IEEE International Conference on Cloud Computing and Big Data Analysis (ICCCBDA 2019), TPC

  25. The 3rd International Conference on Cloud and Big Data Computing (ICCBDC 2019), TPC

  26. The 3rd IEEE International Conference on Cloud Computing and Big Data Analysis (ICCCBDA 2018) , TPC

  27. The Fourth International Workshop on Mobile Cloud Computing Systems, Management, and Security (MCSMS 2018), TPC

  28. First IEEE International Conference on Artificial for Industries (IEEE AI4I 2018), TPC

  29. Tools with Artificial Intelligence (ICTAI), 2018 IEEE 30th International Conference on (IEEE ICTAI 2018), TPC

  30. Winter Simulation Conference 2018 (WSC 2018), TPC

  31. Annual Simulation Symposium 2018 (ASNN 2018), TPC

  32. International Conference on Cloud and Big Data Computing (ICCBDA 2018), TPC

  33. Tools with Artificial Intelligence (ICTAI), 2017 IEEE 29th International Conference on (IEEE ICTAI 2017), TPC

  34. Winter Simulation Conference 2017 (WSC 2017), TPC

  35. The 2nd IEEE International Conference on Cloud Computing and Big Data Analysis (ICCCBDA 2017), TPC

  36. International Conference on Cloud and Big Data Computing (ICCBDC 2017), TPC

  37. Annual Simulation Symposium  (ANSS 2017), TPC

  38. Symposium on Theory of Modeling and Simulation 2017 (TMS/DEVS 2017), TPC

  39. The 6th IEEE International Conference on Big Data and Cloud Computing (BDCloud 2016), TPC

  40. Tools with Artificial Intelligence (ICTAI), 2016 IEEE 28th International Conference on (IEEE ICTAI 2016), TPC

  41. 13th ACS/IEEE International Conference on Computer Systems and Applications (AICCSA 2016), TPC

  42. The 1st International Workshop on Dew Computing (DEWCOM 2016), TPC

  43. Annual Simulation Symposium  2016 (ANSS 2016), TPC

  44. Symposium on Theory of Modeling and Simulation 2016 (TMS/DEVS 2016), TPC

  45. Winter Simulation Conference 2015 (WSC 2015), TPC

  46. 3rd International IMB Cloud Academy Conference 2015 (ICACON 2015), TPC

  47. 5th International Conference on Simulation and Modeling Methodologies, Technologies and Applications (SIMULTECH 2015), TPC

  48. Symposium on Theory of Modeling and Simulation 2015 (TMS/DEVS 2015), TPC and session chair

  49. 4th International Conference on Simulation and Modeling Methodologies, Technologies and Applications (SIMULTECH 2014), TPC

  50. Winter Simulation Conference 2014 (WSC 2014), TPC

  51. ACM Southeast Conference 2014 (ACMSE 2014), TPC and session chair

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Presentations:

  1. Dynamic data driven application system for wildfire spread simulation, Changsha University of Science & Technology, Changsha, Hunan, China, July 3, 2018.
  2. Performance analysis of parallel/distributed particle filters, 2018 Spring Simulation Multi-Conference, Baltimore, MD, April 15-18, 2018.
  3. Evaluating the impact of encoding schemes on deep auto-encoders for DNA annotation, 13th International Symposium on Bioinformatics Research and Applications, Honolulu, HI, May 3-June 2, 2017.
  4. Adaptive particle routing in parallel/distributed particle filters, 2017 Spring Simulation Multi-Conference, Virginia Beach, VA, April 23-26, 2017.
  5. Towards use of electronic health records: Cancer classification, 2017 Spring Simulation Multi-Conference, 2017 Spring Simulation Multi-Conference, Virginia Beach, VA, April 23-26, 2017.
  6. Geo-reference image data assimilation for wildfire spread simulation, 2016 Spring Simulation Multi-Conference, Pasadena, CA, April 3-6, 2016.
  7. Data assimilation in discrete event simulations: a rollback based Sequential Monte Carlo approach, 2016 Spring Simulation Multi-Conference, Pasadena, CA, April 3-6, 2016.
  8. Adaptive particle filtering in data assimilation of wildfire spread simulation, 2015 Summer Simulation Multi-Conference, Chicago, IL, July 26-29, 2015.
  9. A fine-grained flow control model for cloud-assisted data broadcasting, 2015 Spring Simulation Multi-Conference, Alexandria, VA, April 12-15, 2015.
  10. Adaptively perturbing localized state space in data assimilation of wildfire spread simulation, 2015 Spring Simulation Multi-Conference, Alexandria, VA, April 12-15, 2015.
  11. Dynamic data driven application system for wildfire spread simulation, Beijing Normal University Zhuhai, Zhuhai, China, June 2014.
  12. Dynamic data driven application system for wildfire spread simulation, Civil Aviation University of China, Tianjin, China, June 2014.
  13. Dynamic data driven application system for wildfire spread simulation, Tianjin University, Tianjin, China, December 2013.
  14. Dynamic data driven event reconstruction for traffic system using sequential Monte Carlo methods, 2013 Winter Simulation Conference (WSC'13), Washington, D.C., December 8-11, 2013.
  15. Dynamic data driven application system for wildfire spread simulation, Jiangsu Normal University, Xuzhou, Jiangsu, China, December 2012.
  16. A dynamic data driven application system for wildfire spread simulation, 2009 Winter Simulation Conference (WSC'09), Austin, TX, December 13-26, 2009.
  17. State estimation using particle filters in wildfire spread simulation, 42nd Annual Simulation Symposium (ANSS), San Diego, CA, March 22-27, 2009.
  18. Towards applications of particle filter in wildfire spread simulation, 2008 Winter Simulation Conference, Miami, FL, December 7-10, 2008.
  19. Towards validation of DEVS-FIRE wildfire simulation model, HPCS 2008, Ottawa, Canada, April 14-16, 2008.
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