西安电子科技大学计算机科学与技术学院导师教师师资介绍简介-霍红卫

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基本信息
霍红卫　教授
博士生导师，硕士生导师
博士学科：计算机科学与技术
硕士学科：计算机科学与技术　
工作单位：西安电子科技大学计算机科学系

联系方式
通信地址：西安市西安电子科技大学163信箱，710071
电子邮箱：hwhuo@mail.xidian.edu.cn
办公电话：
办公地点：北校区计算中心213

个人简介
西安电子科技大学计算机学院教授、博士生导师。先后于西北大学获数学学士学位，西安电子科技大学分别获计算机软件与理论及信号与信息处理硕士和博士学位。受到Jeffrey S. Vitter教授邀请，曾在堪萨斯大学工作一年。IEEE高级会员，ACM会员，中国计算机学会高级会员。在IEEE Transactions on Knowledge and Data Engineering (TKDE)， IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), Knowledge-Based Systems (KNOSYS)和IEEE Data Compression Conference (DCC), ACM-SIAM Algorithm Engineering and Experiments (ALENEX), String Processing and Information Retrieval (SPIRE) 等国内外重要刊物和会议发表学术论文100余篇。共同提出并开发了同时达到高阶熵且支持快速检索的实用压缩索引。共同提出并开发了首个图数据库相似性搜索的简明索引。共同提出了最优原位后缀排序算法。开发了可在GitHub上访问的压缩索引及其应用系列软件。
2012年邀请Jeffrey S. Vitter教授访问西电（http://oice.xidian.edu.cn/info/1010/1897.htm）
（https://meeting.xidian.edu.cn/html/news/201301/202.html）

研究领域与专长
主要研究方向：

（1）算法设计与分析，算法工程，串算法, 图算法
（2）压缩索引与检索，压缩数据结构
（3）图数据库压缩索引与相似性搜索, 基因组压缩与模式搜索
（4）泛基因组表示与分析
（5）并行与分布式算法，外存算法
Featured publications:
1. X. Chen, H. Huo, J. Huan, J. S. Vitter, W. Zheng, and L. Zou, MSQ-Index: A succinct index for fast graph similarity search, IEEE Transactions on Knowledge and Data Engineering (TKDE), November 2019, DOI: 10.1109/TKDE.2019.**. CCF A类刊物
2. H. Huo, P. Long, J. S. Vitter, Practical high-order entropy-compressed text self-indexing, IEEE Transactions on Knowledge and Data Engineering (TKDE), revision, 2021.
3.H. Huo, P. Liu, C. Wang , H. Jiang and J. S.Vitter, CIndex: compressed indexes for fast retrieval of FASTQ files, Bioinformatics, revision, 2021.
4. X. Chen, H. Huo, J. Huan, and J. S. Vitter, An efficient algorithm for graph edit distance computation, Knowledge-Based Systems (KBS),163(2019): 762–775, 2019. 中科院一区
5. H. Huo, X. Chen, X. Guo, J. S. Vitter, Efficient compression and indexing for highly repetitive DNA sequence collections, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), January 2020, DOI:10.1109/TCBB.2020.**. CCF B类刊物
6. Z. Sun, H. Huo, J. Huan, and J. S. Vitter, Feature reduction based on semantic similarity for graph classification, Neurocomputing, February 2020, DOI: 10.1016/j.neucom.2020.02.047. 中科院二区
7. H. Huo, X. Chen, Y. Zhao, X. Zhu, and J. S. Vitter, Practical succinct text indexes in external memory, IEEE Data Compression Conference (DCC), Snowbird, USA, 2018. CCF B类会议
8. Z. Li, J. Li and H. Huo, Optimal in-place suffix sorting, Proceedings of the 25th International Symposium on String Processing and Information Retrieval (SPIRE), Lima, Peru, 2018.
9. H. Huo, Z. Sun, S. Li, J. S. Vitter, et al., CS2A: a compressed suffix array-based method for short read alignment, IEEE Data Compression Conference (DCC), Snowbird, USA, 2016. CCF B类会议
10. H. Huo, L. Chen, H. Zhao, J. S. Vitter, et al., A data-aware FM-index, ACM-SIAM Proceedings of the 17th Meeting on Algorithm Engineering and Experiments (ALENEX), San Diego, California, USA, 2015.
11. H. Huo, L. Chen, J. S. Vitter, and Y. Nekrich, A practical implementation of compressed suffix arrays with applications to self-indexing, IEEE Data Compression Conference (DCC), Snowbird, USA, 2014. CCF B类会议
Software:
实验室开发的软件可在GitHub上访问（压缩索引与检索、数据压缩、外存压缩索引，基因组压缩与模式搜索，图数据库压缩索引与相似性搜索）

学生去向：中科院、高校、研究所、百度、腾讯、阿里、华为、中兴、三星、美团、SPSS、IBM、Intel、字节跳动、创建软件公司等。

科学研究
主持的部分科研项目：

1．大规模图数据库的压缩索引与搜索算法研究，国家自然科学基金
2．大规模序列数据集的压缩索引与搜索算法研究，国家自然科学基金

学术论文
近期发表论文
2020
Journal Papers
1. Hongwei Huo, Xiaoyang Chen, Xu Guo, Jeffrey Scott Vitter, Efficient compression and indexing for highly repetitive DNA sequence collections, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), 21 January, 2020.
2. Zhigang Sun, Hongwei Huo, Jun Huan, and Jeffrey Scott Vitter, Feature Reduction Based on Semantic Similarity for Graph Classification, Neurocomputing, to appear.
2019
Journal Papers
1. Xiaoyang Chen, Hongwei Huo, Jun Huan, and Jeffrey S. Vitter, MSQ-Index: A Succinct Index for Fast Graph Similarity Search, 20 November, 2019.
2. Xiaoyang Chen, Hongwei Huo, Jun Huan, and Jeffrey S. Vitter, An efficient algorithm for graph edit distance computation,Knowledge-Based Systems,163(2019): 762–775, 2019.
2018
Journal Papers
1. Xiaoyang Chen, Hongwei Huo, Jun Huan, and Jeffrey S. Vitter, MSQ-Index: A Succinct Index for Fast Graph Similarity Search, arxiv.org/abs/1612.09155.
2. Xiaoyang Chen, Hongwei Huo, Jun Huan, and Jeffrey S. Vitter, An efficient algorithm for graph edit distance computation,Knowledge-Based Systems,163(2019): 762–775, 2018, https://doi.org/10.1016/j.knosys.2018.10.002.
3. Zhize Li, Jian Li and Hongwei Huo, Optimal In-Place Suffix Sorting, arxiv.org/abs/1610.08305.
4. Qiang Yu, Dingbang Wei, Hongwei Huo, SamSelect: a sample sequence selection algorithm for quorum planted motif search on large DNA datasets, BMC Bioinformatics, 2018, 19:228.
5. Zhigang Sun, Hongwei Huo, and Xiaoyang Chen, Fast Top-k Graph Similarity Search via Representative Matrices, IEEE Access, 6(3):21408- 21417, 2018.
Conference Papers
1.Hongwei Huo, Xiaoyang Chen, Yuhao Zhao, Xiaojin Zhu, and Jeffrey S. Vitter, Practical Succinct Text Indexes in External Memory, Proceedings of the IEEE Data Compression Conference (DCC), Snowbird, USA, March 27 - March 30, 2018.
2. Zhize Li, Jian Li and Hongwei Huo, Optimal In-Place Suffix Sorting, Proceedings of the 25th International Symposium on String Processing and Information Retrieval (SPIRE), Lima, Peru, October 9th –11th, 2018.
3. Zhize Li, Jian Li and Hongwei Huo, Optimal In-Place Suffix Sorting, Proceedings of Data Compression Conference (DCC), Snowbird, USA, March 27 - March 30, 2018, 422. Poster.
2017
Journal Papers
1. Xiaoyang Chen, Hongwei Huo, Jun Huan, Jeffrey S. Vitter, Efficient Graph Similarity Search in External Memory, IEEE Access, 5(1): 4551-4560, 2017.
2. Haitao Guo and Hongwei Huo, A New Algorithm for Identifying Cis-regulatory Modules Based on Hidden Markov Model, BioMed Research International, Volume 2017 (2017), Article ID **, 12 pages.
2016
Journal Papers
1. Qiang Yu,HongweiHuo, Ruixing Zhao, Dazheng Feng, Jeffrey S. Vitter and Jun Huan, RefSelect: a reference sequence selection algorithm for planted (l, d) motif search, BMC Bioinformatics, 17(Suppl 9):266, 2016.
2. Qiang Yu,Hongwei Huo and Dazheng Feng, PairMotifChIP: A Fast Algorithm for Discovery of Patterns Conserved in Large ChIP-seq Data Sets, BioMed Research International, Volume 2016, Article ID **, 10 pages.
3. 霍红卫，陈晓阳，陈龙刚，于强，高阶熵压缩的全文自索引，计算机学报，39(12):2494–2511, 2016.
4. 郭海涛, 霍红卫, 于强, SegHMC: 一种基于segmental HMM模型的顺式调控模块识别算法，自动化学报, 42(11):1718–1731，2016.
Conference Papers
1.Hongwei Huo, Zhigang Sun, Shuangjiang Li, Jeffrey S. Vitter, Xinkun Wang, Qiang Yu and Jun Huan, CS2A: a compressed suffix array-based method for short read alignment, Proceedings of the IEEE Data Compression Conference (DCC), Snowbird, USA, March 29 - April 1, 2016. 271–278.
2015
Journal Papers
1. Qiang Yu, Hongwei Huo, Jeffrey S. Vitter, Jun Huan and Yakov Nekrich, An Efficient Exact Algorithm for the Motif Stem Search Problem over Large Alphabets, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), 12(2):384–397, March/April 2015.
2. Qiang Yu, Hongwei Huo, Xiaoyang Chen, Haitao Guo, Jeffrey S. Vitter, and Jun Huan, An Efficient Algorithm for Discovering Motifs in Large DNA Data Sets, IEEE Transactions on NanoBioScience, 14(5):535–544, 2015.
Conference Papers
1. Hongwei Huo, Longgang Chen, Heng Zhao, Jeffrey S. Vitter, Yakov Nekrich, and Qiang Yu. A Data-Aware FM-index. ACM-SIAM Proceedings of the 17th Meeting on Algorithm Engineering and Experiments (ALENEX), San Diego, California, USA, 2015
2014
Conference Papers
1. Hongwei Huo, Longgang Chen, Jeffrey S. Vitter, and Yakov Nekrich, A Practical Implementation of Compressed Suffix Arrays with Applications to Self-indexing, Data Compression Conference (DCC), Snowbird, USA, 2014, 292–301. http://www.ittc.ku.edu/~jsv/Papers/HCV13.PracticalCSAImplementation.pdf
2. Qiang Yu, Hongwei Huo, Xiaoyang Chen, Haitao Guo, Jeffrey S. Vitter, and Jun Huan, An Efficient Motif Finding Algorithm for Large DNA Data Sets, IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Belfast, UK, 2014. Student Travel Award.
2013
Journal Papers
1. Q. Yu, H. Huo, Y. Zhang, H. Guo, and H. Guo, PairMotif+: A Fast and Effective Algorithm for De Novo Motif Discovery in DNA sequences, International Journal of Biological Sciences, 9(4):412-424, 2013.
2. Yipu Zhang, Hongwei Huo, Qiang Yu, A Heuristic Cluster-based EM Algorithm for the Planted (l, d) Problem, Journal of Bioinformatics and Computational Biology, 11(4): **(19 pages), 2013.
3. 张懿璞, 霍红卫, 于强, 郭鸿志, 用于转录因子结合位点识别的定位投影求精算法, 计算机学报, Vol. 36, No.12, pp. 2545–2559, 2013.
Conference Papers
1. Q. Yu, H. Huo, J. S. Vitter, J. Huan and Y. Nekrich, StemFinder: An Efficient Algorithm for Searching Motif Stems over Large Alphabets, IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Shanghai, pages 473-476, 2013.
2012
Journal Papers
1. Yu Q, Huo H, Zhang Y, and Guo H, PairMotif: A New Pattern-driven Algorithm for Planted (l, d) DNA Motif Search, PLoS ONE, 7(10): e48442, 2012.
2.霍红卫, 郭丹丹, 于强等, (l, d)-模体识别问题的遗传优化算法，计算机学报, Vol. 35, No. 7, pp.1429–1439, 2012.
Conference Papers
1. H. Huo, S. Lin, Q. Yu, Y. Zhang, and V. Stojkovic, A MapReduce-based Algorithm for Motif Search, 2012 IEEE 26th International Parallel and Distributed Processing Symposium Workshops (IPDPSW), Shanghai, pages 2052-2060, 2012.
2010
Journal Papers
1. Hongwei Huo, Zhenhua Zhao, V. Stojkovic, Optimizing Genetic Algorithm for Motif Discovery, Mathematical and Computer Modelling, 52(11–12): 2011-2020, 2010.

荣誉获奖

科研团队

课程教学
本人承担的教学任务：
1. 算法设计与分析
2. 并行与分布式计算
3. 生物信息学算法
4. 数据结构

招生要求
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关于研究生招生的信息：
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欢迎对我们研究方向感兴趣的同学报考！
实验室接收有推免资格、优研计划的研究生。
本实验室（在西安电子科技大学计算机学院下）现希望招聘青年教师，请有相关研究基础且感兴趣我们研究方向的近期毕业的国内外博士生，博士后联系我：hwhuo@mail.xidian.edu.cn
本实验室已毕业学生去向：中科院、高校、研究所、百度、腾讯、阿里、华为、中兴、三星、美团、SPSS、IBM、创建软件公司等。

Dr. Hongwei Huo
Name Title: Professor Hongwei Huo
Department: Computer Science

Contact Information
Address:
Email: hwhuo@mail.xidian.edu.cn
Tel:

Introduction
Hongwei Huo received the B.S. degree in mathematics from Northwest University, China, and the M.S. degree in computer science and the Ph.D. degree in electronic engineering from Xidian University.
Hongwei Huo is a Professor in School of Computer Science and Technology at Xidian University. She is the director of Lab of Algorithm Theory and Applications for Big Data (ATA).
Her research interests involve all aspects of algorithms, spanning from the design and analysis of efficient algorithms and data structures for the storage, compression, indexing, and retrieving information for big data like textual collections, larger-scale graph databases, and genomic sequences to the algorithm engineering. She has published more than 100 peer-reviewed papers in peer-reviewed journals abd leading conferences, including IEEE Transactions on Knowledge and Data Engineering (TKDE), IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), Knowledge-Based Systems (KNOSYS), and Data Compression Conference (DCC), ACM-SIAM Algorithm Engineering and Experiments (ALENEX), String Processing and Information Retrieval (SPIRE).

Research Interests
1. Algorithm and its complexity, Algorithm engineering,String algorithms, Graph algorithms
2. Compressed data structure, Compressed indexes and retrieval
3. Succinct indexing for graph databases, Graph compression and search, Genomic compression and pattern search
4. Pan-genome representations, Applications of pan-genome analysis
5. Parallel and distributed algorithms, external memory algorithms, algorithm engineering
Featured publications:
1. X.Chen, H.Huo, J.Huan, J.S.Vitter, W.Zheng, and L.Zou, MSQ-Index: A succinct index for fast graph similarity search, IEEE Transactions on Knowledge and Data Engineering (TKDE), November 2019, DOI: 10.1109/TKDE.2019.**.
2. H. Huo, P. Long, J. S. Vitter, Practical high-order entropy-compressed text self-indexing, IEEE Transactions on Knowledge and Data Engineering (TKDE), revision, 2021.
3. H. Huo, P. Liu, C. Wang , H. Jiang and J. S.Vitter, CIndex: compressed indexes for fast retrieval of FASTQ files, Bioinformatics, revision, 2021.
4. X.Chen, H.Huo, J.Huan, and J.S.Vitter, An efficient algorithm for graph edit distance computation, Knowledge-Based Systems (KBS),163(2019): 762–775, 2019.
5. H.Huo, X.Chen, X.Guo, J.S.Vitter, Efficient compression and indexing for highly repetitive DNA sequence collections, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), January 2020, DOI:10.1109/TCBB.2020.**.
6. Z. Sun, H. Huo, J. Huan, and J. S. Vitter, Feature reduction based on semantic similarity for graph classification, Neurocomputing, February 2020, DOI: 10.1016/j.neucom.2020.02.047.
7. H.Huo, X.Chen, Y.Zhao, X. Zhu, and J.S.Vitter, Practical succinct text indexes in external memory, IEEE Data Compression Conference (DCC), Snowbird, USA, 2018.
8. Z.Li, J.Li and H.Huo, Optimal in-place suffix sorting, Proceedings of the 25th International Symposium on String Processing and Information Retrieval (SPIRE), Lima, Peru, 2018..
9. H.Huo, Z.Sun, S.Li, J.S.Vitter, et al., CS2A: a compressed suffix array-based method for short read alignment, IEEE Data Compression Conference (DCC), Snowbird, USA, 2016.
10. H.Huo, L.Chen, H.Zhao, J S.Vitter, et al., A data-aware FM-index, ACM-SIAM Proceedings of the 17th Meeting on Algorithm Engineering and Experiments (ALENEX), San Diego, California, USA, 2015.
11. H.Huo, L.Chen, J.S.Vitter, and Y.Nekrich, A practical implementation of compressed suffix arrays with applications to self-indexing, IEEE Data Compression Conference (DCC), Snowbird, USA, 2014.
Software:
The software developed by her Lab can be accessed at the following website of GitHub:
Graduates:
Chinese Academy of Sciences, Universities, Research Institutes, Baidu, Tencent, Ali, Huawei, ZTE, Samsung, Meituan, SPSS, IBM, Intel, ByteDance, Start Company

Research
目前研究团队承担的科研项目：

Papers
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Honors
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Team
团队教师

博士研究生
硕士研究生

Teaching
目前本人承担的教学任务：

课件下载示例

Admission
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关于研究生招生的信息：
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