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BING BING ZHOU

 

Centre for Distributed and High Performance Computing

School of Information Technologies

The University of Sydney

NSW 2006

Australia
P: +61 2 9036 9112
F: +61 2 9351 3838
E:  bing.zhou@sydney.edu.au
URL http://www.it.usyd.edu.au/~bbz


Degrees / year

BS(EE) / 1982, Nanjing Institute of Technology, China

PhD(CS) / 1989, Australian National University, Australia


Current Appointment

Associate Professor

School of Information Technologies

Faculty of Engineering and Information Technology

The University of Sydney

Australia


Units of Study Taught

Parallel and Distributed Computing

Operating System Internals

Algorithms

Computer Architecture

Computer Networks

 


Research Interests

Parallel and Distributed Computing

Algorithm Design and Analysis

Grid and Cloud Computing

Bioinformatics


Research Grants (2007 onwards)

[1] A. Y. Zomay and B. B. Zhou, Optimising Service Level Agreements for Performance and Energy Efficiency in Cloud Computing Systems, ARC Discovery Project, DP130104591, A$366,000, 2013-2015.

[2] A. Y. Zomaya and B. B. Zhou, Replica Placement in Data-Intensive Distributed Computing Systems, ARC Discovery Project, DP1097111, A$250,000, 2010-2013.

[3] B. B. Zhou and R. P. Brent, An Integrative and Interactive Approach for Co-estimation of Multiple Sequence Alignment and Phylogeny Reconstruction, ARC Discovery Project, DP0985271, A$230,000, 2009-2011.

[4] A. Y. Zomaya and B. B. Zhou, M. Charleston and A. Viglas, A Grid-enabled Meta-Server for Protein Threading, ARC Discovery Project, DP0067266, A$366,000, 2006-2008.

[5] B. B. Zhou, J. Dongarra and R. P. Brent, Grid Computing for Phylogenetic Analysis, ARC Discovery Project, DP0557909, A$259,000, 2005-2007.


Peer-Reviewed Research Publications (2007 onwards)

(Dr Zhou has published over 100 articles and below is his publications from 2007 onwards.)

 

Scholarly Book Chapters

[1] Pengyi Yang, Yee Hwa Yang, Bing B. Zhou, Albert Y. Zomaya, Stability of feature selection algorithms and ensemble feature selection methods in bioinformatics, In: Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (in press).

[2] B. A. Alqaralleh, C. Wang, B. B. Zhou, A. Y. Zomaya: A Flexible Data Store for Managing Bioinformatics Data, Chapter 11 in Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications, M. Elloumi and A. Y. Zomaya (eds) John Wiley & Sons, Inc. 2011, pp. 221-240 (Chapter 11).

[3] P. D. Yoo, B. B. Zhou, and A. Y. Zomaya, Protein Domain Boundary Prediction, in Algorithms in Computational Molecular Biology, edited by M. Elloumi and A.Y. Zomaya, John Wiley & Sons, Inc., 2011, pp. 501–519 (Chapter 23).

[4] C. Wang, A. Y. Zomaya, and B. B. Zhou, Data Syndication Techniques for Bioinformatics Applications, in Grid Computing for Bioinformatics and Computational Biology, John Wiley and Sons, 2008, pp. 157-178 (Chapter 7).

 

Referred Journal Articles

[5] D. Li, X. Liao, H. Jin, B. B. Zhou and Q. Zhang, A new disk I/O model of virtualized cloud environment, IEEE Transactions on Parallel and Distributed Systems  (in press).

[6] X. Liu, C. Wang, B. B. Zhou, J. Chen, T. Yang, A. Y. Zomaya: Priority-based Consolidation of Parallel Workloads in the Cloud, IEEE Transactions on Parallel and Distributed Systems (in press, Available online 7 September 2012).

[7] D. Li, H. Jin X. Liao, Y. Zhang, and B. B. Zhou, Improving disk I/O performance in a virtualized system, Journal of Computer and System Sciences, 79(2), 2013 (Available online 8 May 2012).

[8] P. Yang, J. Ma, P. Wang, Y. Zhu, B. B. Zhou, and Y. H. Yang, Improving X!Tandem on peptide identification from mass spectrometry by self-boosted Percolator, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 9(5):1273-1280, 2012.

[9] Y. C. Lee, C. Wang, A. Y. Zomaya, B. B. Zhou: Profit-driven scheduling for cloud services with data access awareness, Journal of Parallel Distributed Computing, Volumn 72, Issue 4, 2012, pp.591-602.

[10] P. Yang, J. W.K. Ho, Y. H. Yang, B. B. Zhou, Gene-gene interaction filtering with ensemble of filters, BMC Bioinformatics, 12:S10, 2011.

[11] P. Yang, Y. H. Yang, B. B. Zhou, A. Y. Zomaya, A review of ensemble methods in bioinformatics, Current Bioinformatics, vol. 5, pp. 296-308, 2010.

[12] P. Yang, J. W.K. Ho, A. Y. Zomaya, B. B. Zhou, A genetic ensemble approach for gene-gene interaction identification, BMC Bioinformatics, 2010, 11:524.

[13] C. Wang, B. B. Zhou, A. Y. Zomaya: EvolvingSpace: a Data Centric Framework for Integrating Bioinformatics Applications, IEEE Transactions on Computers, Vol. 59, No. 6, 2010, pp. 721-734.

[14] P. Yang, Z. Zhang, B. B. Zhou, A. Y. Zomaya, A clustering based hybrid system for biomarker selection and sample classification of mass spectrometry data, Neurocomputing, 73:2317-2331, 2010.

[15] P. Yang, B. B. Zhou, Z. Zhang, A. Y. Zomaya, A multi-filter enhanced genetic ensemble system for gene selection and sample classification of microarray data, BMC Bioinformatics, 11:S5, 2010

[16] P. Wang, B. B. Zhou, C. Wang, and A. Y. Zomaya, A Novel Integrative Phylogenetic Analysis System, International Journal of Computational Biology and Drug Design, Vol. 3, No. 1, 2010, pp. 1–14.

[17] C. Wang, B. B. Zhou, and A. Y. Zomaya, A Decentralized Method for Scaling up Genome Similarity Search Service, IEEE Transactions on Parallel and Distributed Systems, Vol. 20, No. 3, 2009, pp. 303–315.

[18] P. Yang, L. Xu, B. B. Zhou, Z. Zhang, A. Y. Zomaya, A particle swarm based hybrid system for imbalanced medical data sampling, BMC Genomics, 10:S34, 2009

[19] P. D. Yoo, B. B. Zhou, A. Y. Zomaya, A modular kernel approach for integrative analysis of protein inter-domain linker regions. BMC Genomics, 10(3):S21, 2009.

[20] P. D. Yoo, J. Taheri, B. B. Zhou, and A. Y. Zomaya, DomNet: Protein Domain Boundary Prediction Using Enhanced General Regression Network and New Profiles, IEEE Transactions on NanoBioscience, Vol. 7, No. 2, 2008, pp. 172–181.

[21] P. D. Yoo, Y. S.  Ho, B. B. Zhou, and A. Y. Zomaya, SiteSeek: Post–Translational Modification Analysis Using Adaptive Locality–Effective Kernel Methods and New Profiles, BMC Bioinformatics, Vol. 9, 2008, pp. 272–288.

[22] P. D. Yoo, B. B.  Zhou, and A. Y. Zomaya, Machine Learning Techniques for Protein Secondary Structure Prediction: An Overview and Evaluation, Current Bioinformatics, Vol. 3, No. 2, 2008, pp. 74–86.

[23] P. D Yoo, A. R. Sikder, B. B. Zhou and A. Y. Zomaya, Improved General Regression Network for Protein Domain Boundary Prediction, BMC Bioinformatics, 9 (Suppl 1):S12, 2008.

[24] Y. Zhang, M. Chen, B. B. Zhou, L. S. Jermiin and A. W. D. Larkum, Evolution of the Inner Light-Harvesting Antenna Protein Family of Cyanobacteria, Algae and Pplants, Journal of Molecular Evolution, 64(3), 2007, pp. 321-331.

 

Refereed Conference Papers

[25] P. Lu, Y. C. Lee, C. Wang, B. B. Zhou, J. Chen, T. Yang and A. Y. Zomaya, Workload characteristic oriented scheduler for MapReduce, Proceedings of the 18th IEEE International Conference on Parallel and Distributed Systems, Singapore, 2012.

[26] X. Liu, C. Wang, X. Qiu, B. B. Zhou, B. Chen, and A. Y. Zomaya: Backfilling under two-tier virtual machines, Proceedings of the 2012 IEEE International Conference on Cluster Computing, Beijing, China, 2012.

[27] C. Wang, J. Chen, B. B. Zhou, and A. Y. Zomaya, Just satisfactory resource provisioning for parallel applications in the cloud, Proceedings of IEEE 2012 Services Workshop on Performance Aspects of Cloud and Service Virtualization, Hawaii, 2012.

[28] A. V. Do, J. Chen, C. Wang, Y. C. Lee, A. Y. Zomaya, and B. B. Zhou, Profiling Applications for Virtual Machine Placement in Clouds. Proceedings of IEEE International Conference on Cloud Computing, Washington DC, 2011.

[29] W. N. S. W. Nik, B. B. Zhou, A. Y. Zomaya, and J. H. Abawajy, Efficient resource selection algorithm for enterprise grid systems. Proceedings of IEEE 9th International Symposium on Parallel and Distributed Processing with Applications, Busan, Korea, 2011.

[30] J. Chen, C. Wang, B. B. Zhou, L. Sun, Y. C. Lee, and A. Y. Zomaya, Tradeoffs between Profit and Customer Satisfaction for Service Provisioning in the Cloud, Proceedings of the 20th International ACM Symposium on High-Performance Parallel and Distributed Computing, San Jose, California, 2011.

[31] P. Yang, Z. Zhang, B. B. Zhou, A. Y. Zomaya, Sample subsets optimization for classifying imbalanced biological data, accepted by the 15th Pacific-Asia Conference on Knowledge Discovery and Data Mining, Shenzhen, China, 2011.

[32] G. Chen, H. Jin, D. Zou, B. B. Zhou, W. Qiang, G. Hu, SHelp: Automatic Self-healing for Multiple Application Instances in a Virtual Machine Environment, Proceedings of 2010 IEEE International Conference on Cluster Computing, Heraklion, Greece, 2010.

[33] Y. C. Lee, C. Wang, A. Y. Zomaya, B. B. Zhou, Profit-driven Service Request Scheduling in Clouds, The 10th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGrid 2010), Melbourne, Australia, 2010. (the Best Paper Award)

[34] Y. C. Lee, C. Wang, J. Taheri, A. Y. Zomaya and B. B. Zhou, On the Effect of Using Third–Party Clouds for Maximizing Profit, Proceedings of the 10th International Conference on Algorithms and Architectures for Parallel Processing, Lecture Notes in Computer Science 6081, Springer, Ching-Hsien, H., Yang, L.T., Park, J.H. and Yeo, S.-S.  (eds.), Busan, Korea, 2010.

[35] P. Yoo, Y. S. Ho, B. B. Zhou and A. Y. Zomaya, Adaptive Locality-Effective Kernel Methods for Phosphorylation Site Prediction, Proceedings of the 5th International Workshop on High Performance Computational Biology, Miami, 2008.

[36] P. Wang, B. B. Zhou, and A. Y.Zomaya, An Integrative Approach to Phylogenetic Inference, Proceeding of  International Conference on Bioinformatics and Computational Biology, Las Vegas, USA, 2008.

[37] P. Wang, B. B. Zhou, and A. Y. Zomaya, A Near Minimum Evolution Maximum Likelihood Phylogenetic Reconstruction Method, Proceedings of the 2008 International Conference on Bioinformatics and Computational Biology, Las Vegas, USA, 2008.

[38] B. A. Alqaralleh, C. Wang, A. Almazari, B. B. Zhou, and A. Y. Zomaya, The Effects of Replica Propagation Speed Performance of Structured Overlay Networks, Proceedings of PDPTA’08 Conference. Las Vegas, USA, 2008.

[39] J. Taheri, A. Y. Zomaya, and B. B. Zhou, RBT-I: A Novel Approach for Solving the Multiple Sequence Alignment Problem, Proceeding of the IEEE/ACS International Conference on Computer Systems and Applications (AICCSA-08), Doha, Qatar, 2008.

[40] B. A. Alqaralleh, C. Wang, B. B. Zhou and A. Y. Zomaya, A Proactive Method for Content Distribution in a Data Indexed DHT Overlay, Proceeding of 2007 International Conference on High Performance Computing and Communications, Houston, 2007.

[41] C. Wang, B. B. Zhou and A. Y. Zomaya, Scaling up Genome Similarity Search Services through Content Distribution, Proceedings of the 2007 International Conference on Parallel Processing, Xi'an, China, 2007.

[42] C. Wang, B. B. Zhou, F. Brites, B. Liu, and A. Y. Zomaya, Distributing Genome Sequence Databases with a Publish/Subscribe Middleware, Proceedings Of IEEE International Conference on Self-Adaptive and Self-Organizing Systems, MIT, Cambridge, MA, USA, 2007.

[43] P. D. Yoo, B. B. Zhou and A. Y. Zomaya, Machine Learning Techniques for Protein Secondary Structure Prediction, Proceedings of the 2007 International Conference on Bioinformatics & Computational Biology, Monte Carlo Resort, Las Vegas, Nevada, 2007.

[44] M. Tarawneh, B. B. Zhou, P. Wang and A. Y. Zomaya, Investigation of relationships among excavate taxa using a new quartet-based phylogenetic analysis method, Proceedings of the IEEE International Symposium on Bioinformatics and Life Science Computing, Niagara Fall, Canada, 2007.

[45] B. A. Alqaralleh, C. Wang, B. B. Zhou, and A. Y. Zomaya, A Proactive Method for Content Distribution in a Data Indexed DHT Overlay, Proceedings of the 3rd International Conference on High Performance Computing and Communications, Lecture Notes in Computer Science 4782 Springer, Perrott, R.H., Chapman, B.M., Subhlok, J., de Mello, R.F., Yang, L.T. (eds.), 2007, Houston, USA.

[46] B. A. Alqaralleh, C. Wang, B. B. Zhou and A. Zomaya, Effects of Replica Placement Algorithms on Performance of structured Overlay Networks, Proceedings of the 4th International Workshop on Hot Topics in Peer-to-Peer Systems In conjunction with 21st IEEE International Parallel & Distributed Processing Symposium, Long Beach, California, 2007.

[47] P. Wang, B. B. Zhou, M. Tarawneh, D. Chu, A. Y. Zomaya and R. P. Brent, A Global maximum likelihood super-quartet phylogeny method, Proceedings of The 5th Asia-Pacific Bioinformatics Conference, Hong Kong, 2007.


Other Professional and Public Outreach Activities

Dr Bing Bing Zhou has been a member of the technical program committees of several international conferences and acted as a reviewer for many international journals, including IEEE Trans on Computers, IEEE Trans on Parallel and Distributed Computing and Journal of Parallel and Distributed Computing.


Last updated on November 26, 2012