中国科学院计算技术研究所 卜东波 男 汉族 博导
作者：科大科院考研网 发表时间：2019-11-20 来源：研招办
科院考研推荐链接：
研究领域
算法设计与分析。包括SAT问题理论和算法，信息检索，生物信息学。
教育背景
学历
- Education
- Institute of Computing Technology, Chinese Academy of Sciences, Ph.D., 2001 (Advisors: Guojie Li, Thesis title: Theory of Clustering/Classification and Their Applications in Text Mining. )
- Institute of Computing Technology, Chinese Academy of Sciences, Master, 1997 (Advisors: Shuo Bai, Thesis title: SAT Problem: Theory and Algorithms.)
- Shandong University, Department of Computer Science, B.Sc., 1994.
学位
计算所 19970901--20010701 博士
出国学习工作
2006-2008 Visiting Scholar, Post-doctoral fellow, University of Waterloo, Canada (Advisor: Ming Li)
工作经历
工作简历
- Associate Professor, Institute of Computing Technology, Chinese Academy of Sciences, May 2004 --- present
- Visiting Scholar, Post-doctoral Fellow, Department of Computer Science, University of Waterloo, (Advisor: Ming Li) Apr. 2006 --- July 2008.
- Assistant Professor, Institute of Computing Technology, Chinese Academy of Sciences, Apr. 2001 --- Apr. 2004.
教授课程
出版信息
发表论文
Articles Published or Accepted in Refereed Journals and Conferences
- Improving consensus contact prediction via server correlation reduction, BMC structural biology. 06/2009; 9(1):28.
- FragQA: predicting local fragment quality of a sequence-structure alignment. In The 18th International Conference on Genome Informatics (GIW 2007), pp. 27-39, Singapore, 2007. Best paper award.
- Fragment-HMM: A new approach to protein structure prediction, Protein Sci. 2008 17: 1925-1934
- Deriving the probabilities of water loss and ammonia loss for amino acids from tandem mass spectra, J. Proteome Res., 7 (01), 202–208, 2008. 10.1021
- Finding Largest Well-Predicted Subset of Protein Structure Models. CPM 2008: 44-55
- Designing succinct structural alphabets. ISMB 2008: 182-189
- A Fragmentation Event Model for Peptide Identification by Mass Spectrometry. RECOMB 2008: 154-166
- FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space. Bioinformatics 24(18): 1994-2001 (2008) 2007
- Finding Compact Structural Motifs. CPM 2007: 142-149
- An Iterative Algorithm to Quantify Factors Influencing peptide Fragmentation during Tandem Mass Spectrometry. J. Bioinformatics and Computational Biology 5(2a): 297-311 (2007) 2006
- Improving locality of nonserial polyadic dynamic programming. IPDPS 2006
- Faster and more accurate global protein function assignment from protein interaction networks using the MFGO algorithm, FEBS Letters, 580(7) 2006; 1891-1896
- A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data. BMC Bioinformatics 7: 222 (2006)
- Improvement of Performance of MegaBlast Algorithm for DNA Sequence Alignment. J. Comput. Sci. Technol. 21(6): 973-978 (2006) 2005
- An Iterative Algorithm to Quantify the Factors Influencing Peptide Fragmentation for MS/MS Spectrum, CSB 2006
- An Optimized Algorithm of High Spatial-temporal Efficiency for MegaBlast. ICPADS (2) 2005: 704-708
- NONCODE: an integrated knowledge database of non-coding RNAs. Nucleic Acids Research 33(Database-Issue): 2005; 112-115
- The interactome as a tree--an attempt to visualize the protein-protein interaction network in yeast. Nucleic Acids Res., September 8, 2004; 32(16): 4804 – 4811
- A Note on the Single Genotype Resolution Problem. JCST, Vol.19, No.2, March 2004 254-258
- LSA: More Accurate DNA Fragment Assembly. RECOMB 2003 Satellite meeting at Stanford
- Topological structure analysis of the protein-protein interaction network in budding yeast Nucleic Acids Research, 2003.Vol.31, No.9 2443-2450
- TREC-10 Experiments at CAS-ICT: Filtering, Web and QA. TREC 2001
- Implementation of Text Categorization System Based on VSM. Application Research of Computers, 2001.
- Modeling the Phase Transition Phenomena of Satisfiability Problem, Proceeding of International Conference for Young Computer Scientist 99.
| Recent Software Developments: |
|---|
- FALCON, an Ab Initio method for protein structure prediction. Ranked 3rd in the FR-H category in CASP8
- PI, a database-searching package for tandem mass spectra.
发表著作
Book Chapter
- Consensus Approaches to Protein Structure Prediction. Chapter 5 in the book Machine Learning in Bioinformatics, John Wiley & Sons, 2008
科研活动
科研项目
863: Functional Genmics Research 2003-2005
973: Algorithms in Bioinformatics 2003-2008
NSFC: Protein Structure Prediction Based on Markov Random Field 2009-2012
NSFC: Non-canonical Knowledge Processing 2005-2009
CAS: Special Machine for Bioinformatics. 2003-2005
973: Algorithms in Bioinformatics 2003-2008
NSFC: Protein Structure Prediction Based on Markov Random Field 2009-2012
NSFC: Non-canonical Knowledge Processing 2005-2009
CAS: Special Machine for Bioinformatics. 2003-2005
参与会议
CSB 06, CPM 07, RECOMB 07, RECOMB 08, ISMB 08
指导学生
黄春林 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2009 from 中科大电子系）
张海仓 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2009 from 中国矿业大学计算机系）
邵明富 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2008 from 北理工）
袁雄鹰 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2007 from 北大生物系）
乔彦涛 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2006 from 天津大学）
韦 祎 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2006 from 南京邮电大学）
杨继爽 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2006 rom 河北科技大学）
董恭谨 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所（2005 from 山东大学）
林宇 硕士研究生 081202-计算机软件与理论 80132-计算技术研究所 （2004 from 中科大）
