Weiguo Liu

Professor

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Biography

刘卫国，教授，博士，博士生导师。 1994年进入西安交通大学并获得学士和硕士学位，2007年在新加坡南洋理工大学获得博士学位，2012年加入山东大学计算机学院任教。

Work Experience

• 2012-05 — Now
  山东大学计算机科学与技术学院
• 2012-05 — Now
  软件学院山东大学
  教授
• 2005-10 — 2007-05
  南洋理工大学

Publication

Research direction

1. 主要研究领域为高性能计算、大数据处理，智能计算。

Papers

(1)Wan, Wubing. 69.7-PFLOPS Extreme Scale Earthquake Simulation with Crossing Multi-faults and Topography on Sunway .2023 International Conference for High Performance Computing, Networking, Storage and Analysis, SC 2023 .2023

(2)段晓辉. Enabling Real World Scale Structural Superlubricity All-Atom Simulation on the Next-Generation Sunway Supercomputer .2023 International Conference for High Performance Computing, Networking, Storage and Analysis, SC 2023 .2023

(3)高萍. Redesign and Accelerate the AIREBO Bond-Order Potential on the New Sunway Supercomputer .IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS .2023 ,34 (12):3117-3132

(4)王明凯. RabbitTrim:highly optimized trimming ofIllumina sequencing data on multi-core platforms(CCF C国际会议) .The 20th International Symposium on Bioinformatics Research and Application (ISBRA 2024) .2024

(5)闫立峰. RabbitQCPlus: More Efficient Quality Control for Sequencing Data .2022 IEEE International Conference on Bioinformatics and Biomedicine .2022

(6)Yan, Lifeng. RabbitQCPlus 2.0: More efficient and versatile quality control for sequencing data .METHODS .2023 ,216 :39-50

(7)徐晓明. RabbitKSSD: Accelerating genome distance estimation on modern multi-core architectures .Bioinformatics .2023 ,39 (11)

(8)Xu, Borui. Leveraging Data Density and Sparsity for Efficient SVM Training on GPUs .23rd IEEE International Conference on Data Mining, ICDM 2023 .2023 :698-707

(9)Zhang, Hao. DeepFilter: A Deep Learning Based Variant Filter for VarDict .TSINGHUA SCIENCE AND TECHNOLOGY .2023 ,28 (4):665-672

(10)许凯. Redesigning and Optimizing UCSF DOCK3.7 on Sunway TaihuLight .IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS .2022 ,33 (12)

(11)张浩. RabbitFX: Efficient Framework for FASTA/Q File Parsing on Modern Multi-Core Platforms .IEEE/ACM .2022

(12)Xu, Xiaoming. RabbitTClust: enabling fast clustering analysis of millions of bacteria genomes with MinHash sketches .GENOME BIOLOGY .2023 ,24 (1)

(13)徐博瑞. A Multi-scale Convolution and Gated Recurrent Unit Based Network for Limit Order Book Prediction .the 15th International Conference on Knowledge Science, Engineering and Management .2022

(14)张浩. RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures .Bioinformatics .2022

(15)刘卫国. LMFF: Efficient and Scalable Layered Materials Force Field on Heterogeneous Many-Core Processors .2021

(16)刘卫国. RabbitQC: high-speed scalable quality control for sequencing data .Bioinformatics .2020 (4)

(17)刘卫国. RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures .Bioinformatics .2020 (6)

(18)刘卫国. Optimization of Reactive Force Field Simulation: Refactor, Parallelization, and Vectorization for Interactions .IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS .2022 (2)

(19)刘卫国. Cell-List based Molecular Dynamics on Many-Core Processors: A Case Study on Sunway TaihuLight Supercomputer .2020

(20)高萍. Millimeter-Scale and Billion-Atom Reactive Force Field Simulation on Sunway Taihulight .IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS .2020 ,31 (12):2954

(21)许凯. FMapper: Scalable read mapper based on succinct hash index on SunWay TaihuLight .Journal of Parallel and Distributed Computing .2022 ,161 :72

(22)李新. SWMapper: Scalable Read Mapper on SunWay TaihuLight(CCF B会议) .Proceedings of the 49th International Conference on Parallel Processing(CCF B) .2020

(23)刘卫国. Efficient Parallel Sort on AVX-512-based Multi-core and Many-core Architectures .HPCC 2019 .2019

(24)刘卫国. SW_Gromacs: Acceletate Gromacs on Sunway Taihulight .SC .2019

(25)刘卫国. Refactoring and Optimizing WRF Model on Sunway TaihuLight .ICPP .2019

(26)刘卫国. XLCS: A New Bit-Parallel Longest Common Subsequence Algorithm on Xeon Phi Clusters .HPCC .2019

(27)刘卫国. DGCF: A Distributed Greedy Clustering Framework for Large-scale Genomic Sequences .BIBM .2019

(28)刘卫国. SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures .ICPP 2018 .2018

(29)刘卫国. MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi based Architectures .Current Bioinformatics .2018

(30)刘卫国. End-to-end I/O Monitoring on a Leading Supercomputer .NSDI 2019 .2019

(31)刘卫国. Fast and efficient short read mapping based on a succinct hash index .BMC Bioinformatics .2018

(32)刘卫国. BGSA: A Bit-Parallel Global Sequence Alignment Toolkit for Multi-core and Many-core Architectures .Bioinformatics .2018

(33)刘卫国. Redesigning LAMMPS for Peta-scale and Hundred-billion-atom Simulation on Sunway TaihuLight .SC 2018 .2018

(34)张庆科. 基于随机维度划分与学习的粒子群优化算法 .浙江大学学报(工学版) .2018 (02)

(35)产院东. PUNAS: A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment .31st IEEE International Parallel and Distributed Processing Symposium (IPDPS) .2017 :52

(36)张庆科. Vector coevolving particle swarm optimization algorithm .Information Sciences .2017 ,394 :273

(37)张帅. Mapping of option pricing algorithms onto heterogeneous many-core architectures .JOURNAL OF SUPERCOMPUTING .2017 ,73 (9):37

(38)兰海东. SWhybrid: A Hybrid-Parallel Framework for Large-Scale Protein Sequence Database Search .31st IEEE International Parallel and Distributed Processing Symposium (IPDPS) .2017 :42

(39)殷泽坤. Computing Platforms for Big Biological Data Analytics: Perspectives and Challenges .Computational and Structural Biotechnology Journal .2017 ,15 :403

(40)段晓辉. S-Aligner: Ultrascalable read mapping on Sunway Taihu Light .IEEE International Conference on Cluster Computing (CLUSTER) .2017 :36

(41)刘卫国. CUDA-MEME: Accelerating Motif Discovery in Biological Sequences Using CUDA-enabled Graphics Processing Units .Pattern Recognition Letters .2009

(42)刘卫国. A Parallel Algorithm for Error Correction in High-Throughput Short-Read Data on CUDA-enabled Graphics Hardware .Journal of computational biology .2010

(43)刘卫国. Accelerating Large-Scale Biological Database Search on Xeon Phi-based Neo-Heterogeneous Architectures .2015

(44)刘卫国. XMapper - A Parallel Full Comprehensive DNA Read Mapping Algorithm Based on Intel Xeon and Xeon Phi Heterogeneous Architecture .2015

(45)刘卫国. Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters .BMC Bioinformatics .2016

(46)刘卫国. Parallel Monte Carlo Option Pricing Algorithms on Hybrid Heterogeneous Many-Core Architectures .2014

(47)刘卫国. Using Graphics Hardware to Accelerate Motif Finding in DNA Sequences .2008

(48)刘卫国. Accelerating Error Correction in High-Throughput Short-Read DNA Sequencing Data with CUDA .2009

(49)刘卫国. Quality-Score Guided Error Correction for Short-Read Sequencing Data using CUDA .2010

(50)刘卫国. Mapping of BLASTP Algorithm onto GPU Clusters .2011

(51)刘卫国. Accelerating Molecular Dynamics Simulations using Graphics Processing Units with CUDA .Computer Physics Communications .2008

(52)刘卫国. CUDA-BLASTP: Accelerating BLASTP on CUDA-enabled Graphics Hardware .IEEE/ACM transactions on computational biology and bioinformatics .2011

(53)刘卫国. Accelerating de Bruijn Graph-based Genome Assembly for High-Throughput Short Read Data .2013

(54)刘卫国. GCMR: A GPU Cluster-based MapReduce Framework for Large-scale Data Processing .2013

(55)刘卫国. A New Parallel PROSITE Profile Search Algorithm on Xeon Phi .2014

(56)刘卫国. XSW: Accelerating Biological Database Search on Xeon Phi .2014

(57)刘卫国. HiPGA: A High Performance Genome Assembler for Short Read Sequence Data .2014

(58)刘卫国. A Dynamic Hashing approach to build de Bruijn graph for genome assembly .2013

(59)刘卫国. SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures .2018

(60)刘卫国. MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi based Architectures .Current Bioinformatics .2018

(61)刘卫国. End-to-end I/O Monitoring on a Leading Supercomputer .2019

(62)刘卫国. Fast and efficient short read mapping based on a succinct hash index .BMC Bioinformatics .2018

(63)刘卫国. BGSA: A Bit-Parallel Global Sequence Alignment Toolkit for Multi-core and Many-core Architectures .Bioinformatics .2018

(64)刘卫国. Redesigning LAMMPS for Peta-scale and Hundred-billion-atom Simulation on Sunway TaihuLight .2018

(65)张庆科. 基于随机维度划分与学习的粒子群优化算法 .浙江大学学报(工学版) .2018 (02)

(66)殷泽坤. Computing Platforms for Big Biological Data Analytics: Perspectives and Challenges .COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL .2017 , 15 :403

(67)张帅. Mapping of option pricing algorithms onto heterogeneous many-core architectures .JOURNAL OF SUPERCOMPUTING .2017 ,73 (9):37

(68)产院东. PUNAS: A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment .2017 31ST IEEE INTERNATIONAL PARALLEL AND DISTRIBUTED PROCESSING SYMPOSIUM (IPDPS) .2017 :52

(69)段晓辉. S-Aligner: Ultrascalable read mapping on Sunway Taihu Light .2017 IEEE INTERNATIONAL CONFERENCE ON CLUSTER COMPUTING (CLUSTER) .2017 :36

(70)兰海东. SWhybrid: A Hybrid-Parallel Framework for Large-Scale Protein Sequence Database Search .2017 31ST IEEE INTERNATIONAL PARALLEL AND DISTRIBUTED PROCESSING SYMPOSIUM (IPDPS) .2017 :42

(71)张庆科. Vector coevolving particle swarm optimization algorithm .Information Sciences .2017 , 394 :273

(72)刘卫国. Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters .BMC Bioinformatics .2016

(73)刘卫国. XMapper - A Parallel Full Comprehensive DNA Read Mapping Algorithm Based on Intel Xeon and Xeon Phi Heterogeneous Architecture .CCF 2015全国高性能计算学术年会 .2015

(74)刘卫国. Accelerating Large-Scale Biological Database Search on Xeon Phi-based Neo-Heterogeneous Architectures .2015 IEEE International Conference on Bioinformatics and Biomedicine .2015

(75)刘卫国. Parallel Monte Carlo Option Pricing Algorithms on Hybrid Heterogeneous Many-Core Architectures .HPC China 2014 .2014

(76)刘卫国. A New Parallel PROSITE Profile Search Algorithm on Xeon Phi .IEEE International Conference on Bioinformatics and Biomedicine .2014

(77)刘卫国. XSW: Accelerating Biological Database Search on Xeon Phi .IEEE International Parallel & Distributed Processing Symposium .2014

(78)刘卫国. HiPGA: A High Performance Genome Assembler for Short Read Sequence Data .IEEE International Parallel & Distributed Processing Symposium .2014

(79)刘卫国. Accelerating de Bruijn Graph-based Genome Assembly for High-Throughput Short Read Data .IEEE International Conference on Parallel and Distributed Systems .2013

(80)刘卫国. GCMR: A GPU Cluster-based MapReduce Framework for Large-scale Data Processing .IEEE International Conference on High Performance Computing and Communications .2013

(81)刘卫国. A Dynamic Hashing approach to build de Bruijn graph for genome assembly .IEEE TENCON 2013 .2013

(82)刘卫国. Using Graphics Hardware to Accelerate Motif Finding in DNA Sequences .International Conference on Pattern Recognition in Bioinformatics .2008

(83)刘卫国. Accelerating Error Correction in High-Throughput Short-Read DNA Sequencing Data with CUDA .IEEE International Parallel & Distributed Processing Symposium .2009

(84)刘卫国. Quality-Score Guided Error Correction for Short-Read Sequencing Data using CUDA .The International Conference on Computational Science .2010

(85)刘卫国. Mapping of BLASTP Algorithm onto GPU Clusters .IEEE International Conference on Parallel and Distributed Systems .2011

(86)刘卫国. Accelerating Molecular Dynamics Simulations using Graphics Processing Units with CUDA .Computer Physics Communications .2008

(87)刘卫国. CUDA-MEME: Accelerating Motif Discovery in Biological Sequences Using CUDA-enabled Graphics Processing Units .Pattern Recognition Letters .2009

(88)刘卫国. A Parallel Algorithm for Error Correction in High-Throughput Short-Read Data on CUDA-enabled Graphics Hardware .Journal of computational biology .2010

(89)刘卫国. CUDA-BLASTP: Accelerating BLASTP on CUDA-enabled Graphics Hardware .IEEE/ACM transactions on computational biology and bioinformatics .2011

(90)刘卫国. MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi based Architectures .Current Bioinformatics .2018

(91)刘卫国. SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures .2018

(92)刘卫国. Fast and efficient short read mapping based on a succinct hash index .BMC Bioinformatics .2018

(93)刘卫国. Redesigning LAMMPS for Peta-scale and Hundred-billion-atom Simulation on Sunway TaihuLight .2018

(94) BGSA: A Bit-Parallel Global Sequence Alignment Toolkit for Multi-core and Many-core Architectures .Bioinformatics .2018

(95) Fast and efficient short read mapping based on a succinct hash index .BMC Bioinformatics .2018

(96) MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi based Architectures, Current Bioinformatics .Current Bioinformatics .2018

(97) 18.9-Pflops Nonlinear Earthquake Simulation on Sunway TaihuLight: Enabling Depiction of 18-Hz and 8-Meter Scenarios .SC 2017 .2017

(98) Redesigning CAM-SE for Petascale Climate Modeling Performance on Sunway TaihuLight .SC 2017 .2017

(99) Computing Platforms for Big Biological Data Analytics: Perspectives and Challenges .Computational and Structural Biotechnology Journal .2017

(100) A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment .IPDPS 2017 .2017

Patents

1. 分子动力学邻接表构建优化方法、系统及超级计算机平台

2. 众核架构处理器的原子Tersoff势模拟方法及系统

3. 一种适用于多核处理器的AIREBO势优化方法及系统

4. 基于分子动力学模拟的高熵合金拉伸性能预测方法及系统

5. 基于最小哈希的大规模蛋白质序列聚类方法、系统及产品

6. 基于分组的蛋白质序列聚类方法及系统

7. 一种空间转录组测序方法、系统、介质及设备

8. 一种基于多线程计算的生物序列比对方法及系统

9. 超长基因序列的相似性快速比对方法及系统

10. 一种空间转录组测序方法、系统、介质及设备

11. 一种基于多线程计算的生物序列比对方法及系统

12. 一种三代测序数据重叠检测方法及系统

13. 面向多核处理器的基因变异检测方法及系统

14. 基于SIMD的哈希函数的基因序列快速分类方法及系统

15. 双缓冲模型实现大规模数据库聚类方法及系统

16. 超级计算机平台上的分子动力学模拟短程力并行优化方法

17. 一种生物基因序列的概要数据生成方法及系统

18. 基于众核平台上面向二代测序数据的序列比对方法及系统

19. 基于生成树的大规模生物数据聚类方法及系统

20. 多核平台下BAM文件解析还原方法及系统

21. 一种生物测序序列快速修剪方法及系统

22. 一种基于文本数据的金融舆情识别方法及系统

23. 测序数据质量控制方法及系统

24. 基于异构众核架构的大规模生物数据库搜索方法

25. 基于Xeon Phi微异构平台的并行期权定价方法

26. 201920381+ 一种基于音形码的中文字符串相似度计算方法及装置

Research Projects

1. GROMACS软件生态NRE激励合作协议, 2025-02-10-2026-05-10

2. LAMMPS软件多体势优化, 2024-11-04-2025-11-04

3. 生态NRE激励合作协议, 2024-11-04-2025-11-04

4. 基于太初国产人工智能加速器软硬件环境及开发工具开发国产高性能新药研发软件, 2024-06-19-2027-06-30

5. 模式移植服务项目, 2022-11-02-2022-12-31

6. 盘古大模型推理优化项目, 2023-11-25-2025-03-25

7. 弹性分布式计算技术研究项目, 2021-07-19-2023-12-31

8. 精准医疗和个性化药物应用示范, 2016-07-01-2020-12-31

9. 超融合架构下数据算法, 2019-12-19-2022-12-31

10. 面向影视动漫行业的渲染系统关键技术研发与应用, 2014-01-01-2016-12-31

11. 面向超大规模短读生物序列数据的高性能匹配算法研究, 2019-08-16-2023-12-31

12. 海量数据驱动下的高分辨率海洋数值模式关键算法研究, 2019-01-01-2023-11-30

13. 面向超级计算机处理器的新型应用研究, 2018-05-11-2021-12-30

14. 大规模并行计算的工具库和领域相关基础软件包, 2017-07-01-2021-06-30

15. 大数据处理与分析关键技术和系统的研究与开发, 2014-01-01-2016-12-01

16. 大数据处理关键技术研究, 2013-09-01-2014-12-31

17. 面向大规模异构机群系统的高性能计算模型关键技术研究, 2013-12-03-2016-12-31