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个人简介
社会兼职
研究领域(研究课题)
硕博研究方向
出版著作和论文
1、Z. He, C. Yang, W. Yu. Peak bagging for peptide mass fingerprinting. Bioinformatics, 2008, 24 (10): 1293-1299.
2、W. Yu, Z. He, J. Liu, H. Zhao. Improving Mass Spectrometry Peak Detection Using Multiple Peak Alignment Results. Journal of Proteome Research, 2008, 7 (1):123-129.
3、M. Dakna, Z. He, W. Yu, H. Mischak, W. Choch. Technical, bioinformatical and statistical aspects of LC-MS and CE-MS based clinical Proteomics: a critical assessment. Journal of Chromatography B, 2009, 877(13): 1250-1258.
4. Z. He, W. Yu. Improving Peptide Identification with Single-Stage Mass Spectrum Peaks. Bioinformatics, 2009, 25(22): 2969-2974
5、C. Yang, Z. He, X. Wan, Q. Yang, H. Xue, W. Yu. SNPHarvester: A Filtering-based Approach for Detecting Epistatic Interactions in Genome-Wide Association Studies. Bioinformatics, 2009, 25(4): 504-511.
6、C. Yang, Z. He, W. Yu. Comparison of Public Peak Detection Algorithms for MALDI Mass Spectrometry Data Analysis. BMC Bioinformatics, 2009, 10: 4.
7、Z. He, W. Yu. Stable Feature Selection for Biomarker Discovery. Computational Biology and Chemistry, 2010, 34(4): 215-225.
8、Z. He, Ch. Yang, C. Yang, R. Z. Qi, J. P-M. Tam, W. Yu. Optimization-Based Peptide Mass Fingerprinting for Protein Mixture Identification. Journal of Computational Biology, 2010, 17(3): 221-235 (RECOMB'09).
9、Z. He, C. Yang, W. Yu. A Partial Set Covering Model for Protein Mixture Identification Using Mass Spectrometry Data. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2011, 8(2): 368-380.
10、Z. He, C, Yang, G. Guo, N.Li, W. Yu. Motif-All: Discovering All Phosphorylation Motifs. BMC Bioinformatics, 2011, 12(S1): S22 (APBC’11).
11、Z. He, H. Zhao, W. Yu. Score Regularization for Peptide Identification. BMC Bioinformatics, 2011, 12(S1): S2 (APBC’11).
12、C. Yang, X. Wan, Z. He, Q. Yang, H. Xue, W. Yu. The Choice of Null Distributions for Detecting Gene-Gene Interactions in Genome-Wide Association Studies. BMC Bioinformatics, 2011, 12(S1): S26 (APBC’11).
13、T. Huang, J. Wang, W. Yu, and Z. He. Protein inference: A review. Briefings in Bioinformatics, 2012, 13(5): 586-614
14、C.Yang, Z. He, C. Yang, W. Yu. Peptide re-ranking with protein-peptide correspondence and precursor peak intensity information. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2012, 9(4): 1212-1219.
15、H. Gong, Z. He. Permutation Methods for Testing the Significance of Phosphorylation Motifs. Statistics and Its Interface, 2012, 5(1): 61-73.
16、Z. He, H. Gong. Comments on "MMFPh: A Maximal Motif Finder for Phosphoproteomics Datasets". Bioinformatics, 2012, 28(16): 2211-2212.
17、T. Huang, Z. He. A Linear Programming Model for Protein Inference Problem in Shotgun Proteomics. Bioinformatics, 2012, 28(22):2956-2962 .
18、T. Huang, H. Gong, C. Yang, Z. He. ProteinLasso: A Lasso regression approach to protein inference problem in shotgun proteomics. Computational Biology and Chemistry, 2013, 43: 46-54
19、Z.He, R.Z. Qi, W. Yu. Bioinformatic analysis of data generated from MALDI mass spectrometry for biomarker discovery. Topics in Current Chemistry, 2013, 331: 193-210
20、C.Yang, Z.He, W.Yu. A combinatorial perspective of the protein inference problem. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2013, 10(6):1542-1547
21、L. Wei, M. Liao, Y. Gao, R. Ji, Z. He, Q. Zou. Improved and Promising Identification of Human MicroRNAs by Incorporating a High-quality Negative Set. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014, 11(1): 192-201
22、B. Teng, T. Huang, Z. He. Decoy-free Protein-level False Discovery Rate Estimation. Bioinformatics, 2014, 30(5): 675-681.
23、H. Gong, X. Liu, J. Wu, Z. He. Data construction for phosphorylation site prediction. Briefings in Bioinformatics, 2014, 15(5): 839-855
24、X. Liu, J. Wu, H. Gong, S. Deng, Z. He. Mining conditional phosphorylation motifs. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014, 11(5): 915-927
25. B. Teng, C. Zhao, X. Liu, Z .He. Network Inference from AP-MS Data: Computational Challenges and Solutions. Briefings in Bioinformatics, 2015, 16(4): 658-674.
26. C. Zhao, D. Liu (Joint first author), B. Teng, Z. He. BagReg: Protein Inference through Machine Learning. Computational Biology and Chemistry, 2015, 57:12-20 (APBC'15).
[Book Chapter] Z. He, T. Huang, C. Zhao, B. Teng. Protein Inference. In: "Biological Mass Spectrometry – Sample Preparation, Analysis and Practical Applications". 2015
27. X. Liu, J. Wu, F. Gu, J. Wang, Z. He. Discriminative Pattern Mining and Its Applications in Bioinformatics. Briefings in Bioinformatics, 2015, 16(5): 884-900.
[My first Book] Z. He. Data mining for bioinformatics applications. WP| Elsevier, 2015 (http://store.elsevier.com/Data-Mining-for-Bioinformatics-Applications/He-Zengyou/isbn-9780081001004/)
28. Z. He, et al. Protein inference: A protein quantification perspective. Computational Biology and Chemistry, 2016 (APBC'16).
29. J. Wu, Z. He, F. Gu, X. Liu, J. Zhou, C. Yang. Computing Exact Permutation p-Values for Association Rules. Information Sciences, 2016.
30. Y. Liu, X. Zeng, Z. He, Q. Zou. Inferring microRNA-disease associations by random walk on a heterogeneous network with multiple data sources. IEEE/ACM Transactio
31. 谷飞洋, 田博, 张思萌, 陈征, 何增有. 基于置换检验的聚类结果评估. 智能系统学报(第六届中国数据挖掘会议论文,CCDM'16), 2016, 11(3): 301-309.
32. 赵璨, 段琼, 何增有. 基于概率图模型的蛋白质推断算法. 智能系统学报(第六届中国数据挖掘会议论文,CCDM'16), 2016, 11(3): 376-383.
工作成果(奖励、专利等)
在读学生人数
毕业学生人数