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Scientific Data Management Research Grou
Scientific Data Management Research Group

Bin Dong

bin
Bin Dong
Research Scientist
Computational Research Division, Data Science & Technology Department
Phone: 510-779-8060
Web: https://crd.lbl.gov/bin-dong
Scientific Data Management Group
Lawrence Berkeley National Laboratory One Cyclotron Road
MS 50B 3239A
Berkeley, California 94720 US

Bin Dong (董斌)

Position

Research Scientist , Scientific Data Management (SDM) Group, LBNL,  2016 - Present

Postdoctoral Research Fellow, Scientific Data Management (SDM) Group, LBNL, 2013 - 2016.

Research Interests

Bin's research interests are in Big scientific data management and analysis, parallel computing, machine learning,  etc.  

Currently, Bin is exploring new and scalable algorithms and data structures for sorting, organizing, indexing, searching, analyzing Big scientific data (mostly as array) with supercomputers. 

 

Temporary repositories for the software I am working on:

SDS framework (ask permission): https://code.lbl.gov/svn/sds/

ArrayUDF : https://bitbucket.org/arrayudf/

DataElevator : https://bitbucket.org/sbyna/dataelevator

SDS-Sort: to come soon.

Full publication lists are here: Google Scholar

Journal Articles

Suren Byna, M. Scot Breitenfeld, Bin Dong, Quincey Koziol, Elena Pourmal, Dana Robinson, Jerome Soumagne, Houjun Tang, Venkatram Vishwanath, and Richard Warren, "ExaHDF5: Delivering Efficient Parallel I/O on Exascale Computing Systems", Journal of Computer Science and Technology 2020, 35(1): 145-160, February 2, 2020,

DOI: 10.1007/s11390-020-9822-9

Bin Dong, Xiuqiao Li, Limin Xiao, Li Ruan, "Towards minimizing disk I/O contention: A partitioned file assignment approach", Future Generation Computer Systems, Volume 37, July 2014, Pages 178-190, 2014,

Bin Dong, Xiuqiao Li, Qimeng Wu, Limin Xiao, Li Ruan, "A dynamic and adaptive load balancing strategy for parallel file system with large-scale I/O servers", Journal of Parallel and Distributed Computing (JPDC), Volume 72, Issue 10, October 2012, Pages 1254-1268, 2012,

Conference Papers

Bin Dong, Veronica Rodriguez Tribaldos, Xin Xing, Suren Byna, Jonathan Ajo-Franklin, and Kesheng Wu, "DASSA: Parallel DAS Data Storage and Analysis for Subsurface Event Detection", IPDPS, May 15, 2020,

Richard Warren, Jerome Soumagne, Jingqing Mu, Houjun Tang, Suren Byna, Bin Dong, Quincey Koziol, "Analysis in the Data Path of an Object-centric Data Management System", 26th IEEE International Conference on High Performance Computing, Data, and Analytics (HiPC 2019), December 18, 2019,

Houjun Tang, Suren Byna, Stephen Bailey, Zarija Lukic, Jialin Liu, Quincey Koziol, Bin Dong, "Tuning Object-centric Data Management Systems for Large Scale Scientific Applications", 26th IEEE International Conference on High Performance Computing, Data, and Analytics (HiPC 2019), December 18, 2019,

Bin Dong, Patrick Frank Heiner Kilian, Xiaocan Li, Fan Guo, Suren Byna and Kesheng Wu, "Terabyte-scale Particle Data Analysis: An ArrayUDF Case Study", SSDBM 2019, July 23, 2019,

Bin Dong, Kesheng Wu, Suren Byna, Houjun Tang, "SLOPE: Structural Locality-aware Programming Model for Composing Array Data Analysis", ISC 2019 ((Acceptance rate:24%),), June 16, 2019,

Bin Dong, Teng Wang, Houjun Tang, Quincey Koziol, Kesheng Wu, and Suren Byna, "ARCHIE: Data Analysis Acceleration with Array Caching in Hierarchical Storage", IEEE BigData, 2018, December 10, 2018,

Xin Xing, Bin Dong, Jonathan Ajo-Franklin, Kesheng Wu, "Automated Parallel Data Processing Engine with Application to Large-Scale Feature Extraction", 2018 IEEE/ACM Machine Learning in HPC Environments (MLHPC) in SC 2018, November 10, 2018,

Teng Wang, Suren Byna, Bin Dong, and Houjun Tang, "UniviStor: Integrated Hierarchical and Distributed Storage for HPC", IEEE Cluster 2018., September 1, 2018,

Weijie Zhao, Florin Rusu, Bin Dong, Kesheng Wu, Anna Ho, and Peter Nugent, "Distributed Caching for Processing Raw Arrays", SSDBM, 2018,

Houjun Tang, Suren Byna, Francois Tessier, Teng Wang, Bin Dong, Jingqing Mu, Quincey Koziol, Jerome Soumagne, Venkatram Vishwanath, Jialin Liu, and Richard Warren, "Toward Scalable and Asynchronous Object-centric Data Management for HPC", 18th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGrid) 2018, May 1, 2018,

Tzu-Hsien Wu, Jerry Chou, Shyng Hao, Bin Dong, KeshengWu, Scott Klasky, "Optimizing the Query Performance of Block Index Through Data Analysis and I/O Modeling", The International Conference for High Performance Computing, Networking, Storage and Analysis (SC'17), November 13, 2017,

Houjun Tang, Suren Byna, Bin Dong, Jialin Liu, and Quincey Koziol, "SoMeta: Scalable Object-centric Metadata Management for High Performance Computing", IEEE Cluster 2017, September 5, 2017,

Bin Dong, Kesheng Wu, Surendra Byna, Jialin Liu, Weijie Zhao, Florin Rusu, "ArrayUDF: User-Defined Scientific Data Analysis on Arrays", The ACM International Symposium on High-Performance Parallel and Distributed Computing (HPDC) 2017 (Acceptance rate:19%), June 26, 2017,

Weijie Zhao, Florin Rusu, Bin Dong, Kesheng Wu, and Peter Nugent, "Incremental View Maintenance over Array Data", In Proceedings of the 2017 ACM International Conference on Management of Data (SIGMOD '17) (Acceptance rate: 20%). ACM, New York, NY, USA, May 14, 2017,

Bin Dong, Suren Byna, Kesheng Wu, Prabhat, Hans Johansen, Jeffrey N. Johnson, and Noel Keen, "Data Elevator: Low-contention Data Movement in Hierarchical Storage System", The 23rd annual IEEE International Conference on High Performance Computing, Data, and Analytics (HiPC) (Acceptance rate: 25%), December 19, 2016,

Wenzhao Zhang, Houjun Tang, Stephen Ranshous, Surendra Byna, Daniel F Martín, Kesheng Wu, Bin Dong, Scott Klasky, Nagiza F Samatova, "Exploring memory hierarchy and network topology for runtime AMR data sharing across scientific applications", 2016 IEEE International Conference on Big Data (Big Data) (Acceptance rate: 19.39% as short papers.), December 5, 2016,

Houjun Tang, Suren Byna, Steve Harenberg, Wenzhao Zhang, Xiaocheng Zou, Daniel F Martin, Bin Dong, Dharshi Devendran, Kesheng Wu, David Trebotich, others, "In Situ Storage Layout Optimization for AMR Spatio-temporal Read Accesses", 2016 45th International Conference on Parallel Processing (ICPP) (Acceptance rate: 21.1%), August 16, 2016, 406--415,

Bin Dong, Suren Byna, and Kesheng Wu,, "SDS-Sort: Scalable Dynamic Skew-aware Parallel Sorting", The ACM International Symposium on High-Performance Parallel and Distributed Computing (HPDC) 2016, July 1, 2016,

Bin Dong, Surendra Byna, Kesheng Wu, "SDS-Sort: Scalable Dynamic Skew-aware Parallel", HPDC 16, New York, NY, USA, ACM, 2016, 57--68, doi: 10.1145/2907294.2907300

Tzuhsien Wu, Shyng Hao, Jerry Chou, Bin Dong and Kesheng Wu, "Indexing Blocks to Reduce Space and Time Requirements for Searching Large Data Files", 16th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGrid) 2016, May 16, 2016,

Houjun Tang, Suren Byna, Steve Harenberg, Xiaocheng Zou, Wenzhao Zhang, Kesheng Wu, Bin Dong, Oliver Rubel, Kristofer Bouchard, Scott Klasky, others, "Usage Pattern-Driven Dynamic Data Layout Reorganization", Cluster, Cloud and Grid Computing (CCGrid), 2016 16th IEEE/ACM International Symposium on, January 1, 2016, 356--365,

Wenzhao Zhang, Houjun Tang, Steve Harenberg, Surendra Byna, Xiaocheng Zou, Dharshi Devendran, Daniel F Martin, Kesheng Wu, Bin Dong, Scott Klasky, others, "AMRZone: A Runtime AMR Data Sharing Framework for Scientific Applications", Cluster, Cloud and Grid Computing (CCGrid), 2016 16th IEEE/ACM International Symposium on, January 1, 2016, 116--125,

Xiaocheng Zou, David Boyuka, Dhara Desai, Martin, Suren Byna, Kesheng Wu, Kushal, Bin Dong, Wenzhao Zhang, Houjun Tang Dharshi Devendran, David Trebotich, Scott, Hans Johansen, Nagiza Samatova, "AMR-aware In Situ Indexing and Scalable Querying", The 24th High Performance Computing Symposium (HPC, January 1, 2016,

Weijie Zhao, Florin Rusu, Bin Dong, Kesheng, "Similarity Join over Array Data", SIGMOD 16, New York, NY, USA, ACM, January 1, 2016, 2007--2022, doi: 10.1145/2882903.2915247

Bin Dong, Suren Byna, and Kesheng Wu, "Heavy-tailed Distribution of Parallel I/O System Response Time", 10th Parallel Data Storage Workshop (PDSW) 2015, to be held in conjunction with SC15, 2015,

Jinoh Kim, Bin Dong, Suren Byna, and Kesheng Wu, "Security for the Scientific Data Service Framework", 2nd International Workshop on Privacy and Security of Big Data (PSBD 2015), in conjunction with IEEE BigData 2015, 2015,

Bin Dong, Suren Byna, and Kesheng Wu, "Spatially Clustered Join on Heterogeneous Scientific Data Sets", 2015 IEEE International Conference on Big Data (IEEE BigData 2015), IEEE, 2015,

Spyros Blanas, Kesheng Wu, Surendra Byna, Bin Dong, Arie Shoshani, "Parallel data analysis directly on scientific file formats", Proceedings of the 2014 ACM SIGMOD International Conference on Management of Data (SIGMOD '14)., June 23, 2014, doi: 10.1145/2588555.2612185

Spyros Blanas, Kesheng Wu, Surendra Byna, Bin Dong, Arie Shoshani, "Parallel Data Analysis Directly on Scientific File", SIGMOD 14, 2014, 385--396, doi: 10.1145/2588555.2612185

Bin Dong, S. Byna, Kesheng Wu, "Parallel query evaluation as a Scientific Data Service", Cluster Computing (CLUSTER), 2014 IEEE International Conference on, January 1, 2014, 194-202, doi: 10.1109/CLUSTER.2014.6968765

Jialin Liu, S. Byna, Bin Dong, Kesheng Wu, Chen, "Model-Driven Data Layout Selection for Improving Read", Parallel Distributed Processing Symposium Workshops 2014 IEEE International, 2014, 1708--1716, doi: 10.1109/IPDPSW.2014.190

Bin Dong; Byna, S.; Kesheng Wu, "Expediting scientific data analysis with reorganization of data", 2013 IEEE International Conference on Cluster Computing (CLUSTER), pp.1,8, 23-27 Sept. 2013, September 1, 2013,

B. Dong, S. Byna, K. Wu, "SDS: a framework for scientific data services", Proceedings of the 8th Parallel Data Storage, January 1, 2013, doi: http://dx.doi.org/10.1145/2538542.2538563

Bin Dong, Xiuqiao Li, Limin Xiao, Li Ruan, "A New File-Specific Stripe Size Selection Method for Highly Concurrent Data Access", The 13th ACM/IEEE International Conference on Grid Computing (Grid 2012), 2012, 2012,

Presentation/Talks

Suren Byna, Quincey Koziol, Venkatram Vishwanath, Jerome Soumagne, Houjun Tang, Kimmy Mu, Richard Warren, François Tessier, Bin Dong, Teng Wang, and Jialin Liu, Proactive Data Containers (PDC): An object-centric data store for large-scale computing systems, AGU Fall Meeting, December 13, 2018,

Others

Kesheng Wu, Surendra Byna, Bin Dong, others, VPIC IO utilities, 2018,

Last edited: 05/24/2019
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