基本信息
李雷 男 博导 数学与系统科学研究院
电子邮件：lilei@amss.ac.cn
通信地址： 北京市海淀区中关村东路55号, 中科院数学与系统科学研究院
邮政编码： 100190

研究领域: 计算生物学与基因组学、长寿与衰老机制、统计建模与统计计算
招硕博连读研究生

招生专业: 概率和数理统计



招生方向: 计算生物学与基因组学中统计方法


教育背景

学历-- 研究生


学位-- 博士, 加利福尼亚大学伯克利分校, 统计系
硕士, 北京大学, 概率统计系
学士, 北京大学, 数学系
工作经历2010.2－至今 中国科学院数学与系统科学研究院, 研究员
2005.4-2010.5 南加利福尼亚大学计算生物及数学系, 副教授 (tenure终身职务)
2002.6-2005.4 南加利福尼亚大学数学及计算生物系, 助理教授(tenure track)
2000.9-2000.12 加利福尼亚大学洛杉矶分校，纯粹与应用数学研究所, 博士后
1991.6-1993.7 中国科学院系统科学研究所, 助理研究员

专利与奖励1998, Evelyn Fix Memorial Medal, UC Berkeley
出版信息Publications:

1 Li, LM. A method to factorize spectral densities of multiple moving average processes. Journal of Systems Sciences and Mathematics. 1994; 7:169-176.
2 Li, LM, Xie, Z. Model selection and order determination for time series by information between the past and the future. Journal of Time Series Analysis. 1996; 17:65-84.
3. Kheterpa,l I, Li, LM, Speed, TP, Mathies, RA. A three-wavelength labeling approach for DNA sequencing using energy transfer primers and capillary electrophoresis. Electrophoresis. 1998; 19:1403-1414.
4. Li, LM, Speed, TP. Estimation of the color separation matrix in four-dye fluorescence-based DNA sequencing. Electrophoresis. 1999; 20:1433-1442.
5. Li L, Speed TP. Parametric deconvolution of positive spike trains. Annals of Statistics. 2000; 28:1279-1301.
6. Li, LM, Yu, B. Iterated-logarithmic expansion of the pathwise code lengths for
exponential families. IEEE Transactions on Information Theory. 2000; 46:2683-2689.
7. Li, LM. DNA sequencing and parametric deconvolution. Statistica Sinica, Special issue in bioinformatics. 2002; 12:179-202.
8. Li, LM. Blind Inversion needs distribution (BIND): the general notion and case studies. Festschrift for Professor Speed’s 60th Birthday, IMS Lecture Note Series, edited by D. Goldstein, 2003, 40:273-293.
9. Rosenberg, NA, Li, LM, Ward, R and Pritchard, JK. Informativeness of genetic
markers for inference of ancestry, Journal of American Human Genetics, 2003, 73:1402-1422.
10. Li LM, Kim JH, Waterman MS. Haplotype reconstruction from SNP
alignment, Journal of Computational Biology, 2004, 11: 505-516.
11. Li, LM and Speed, TP. Deconvolution of sparse positive spikes, Journal
of Computational and Graphical Statistics, 2004, 13:1-18.
12. Li, LM. An Algorithm for computing exact least trimmed squares estimate of simple linear regression with constraints, Computational Statistics and Data Analysis, 2004, 48:717-734.
13. Li, M, Nordborg, M, Li, LM. Adjust quality scores from alignment and improve sequencing accuracy, Nucleic Acids Research, 2004, 32:5183-5191.
14. Li, LM. Factorization of moving-average spectral densities by state-space representations and stacking, Journal of Multivariate Analysis, 2005, 96: 425-438.
15. Li, LM, Lu, H.-S. Explore Biological Pathways from Noisy Array Data by Directed Acyclic Boolean Networks, Journal of Computational Biology, 2005, 12: 170-185.
16. Cheng, C. and Li, LM. Sub-array Normalization Subject to Differentiation,
Nucleic Acids Research, 2005, 33(17):5565-5573.
17. Li, LM. Some Notes on Mutual Information between Past and Future, Journal of Time Series Analysis, 2005, 27:309–322.
18. Valouev, A., Li, LM., Liu, Y.-C., Schwartz, D. C., Yang, Y., Zhang, Y. and Waterman, MS. Alignment of Optical Maps, RECOMB05, Lecture Notes in Computer Science, Vol 3500: 489-504, 2005, revision in Journal of Computational Biology, 2006, 13:442–462
19. Fabrizio P., Li, LM. and Longo, VD. (2005) Analysis of Gene Expression Profile in Yeast Aging Chronologically, Mechanisms of Ageing and Development, 2005, 126:11-16.
20. Kitsantas, P, Hollander M, Li LM. (2006) Using classification trees to assess low birth weight outcomes, Journal Artificial Intelligence in Medicine, 38: 275—289
21. Nicolas, P, Sun, F. Li, LM. (2006) A model-based approach to selection of tag SNPs, BMC Bioinformatics, 7:303.
22. Cheng, C., Ma, X., Yan, X., Sun, F. and Li, LM (2006) MARD: A New Method to Detect Differential Gene Expression in Treatment-Control Time Courses, Bioinformatics, 21: 2650-2657.
23. Kitsantas, P, Hollander M, Li LM. (2007) Assessing the Stability of Classifcation Trees, Journal of Statistical Planning and Inference, 137: 3917 – 3929
24. Kim,JH, Waterman, MS, Li, LM. (2007) Accuracy Assessment of Diploid Consensus Sequences, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 4:88-97.
25. Li, H, Valouev , A, Schwartz, DC. Waterman, MS and Li, LM (2007) A Quantile Method for Sizing Optical Maps, Journal of Computational Biology, 14: 255–266
26. Kim,JH, Waterman, MS, Li, LM. (2007) Diploid Genome Reconstruction of Ciona intestinalis and Comparative Analysis with Ciona savignyi, Genome Research, 17: 1101-1110
27. Cheng, C., Fabrizio, P., Ge, H. , Longo, VD and Li, LM (2007) Inference of Transcription Modificiation in Long-live Yeast Strains from their Expression Profiles, BMC Genomics, 8:219-228
28. Li, LM, Cheng, C. (2008) Differentiation Detection in Microarray Normalization, in Methods in Microarray Normalization, edited by Stafford, P., CRC press, 19-39
29. Cheng C, Fabrizio P, Ge H, Wei M, Longo VD, and Li LM (2007) Significant and Systematic Expression differentiation in Long-lived Yeast Strains, PLoS ONE 2(10): e1095. doi:10.1371/journal.pone.**
30. Zhang S and Li LM (2010) An Out-of-Sample Validation Study of Asset Pricing Models, Advances in Investment Analysis and Portfolio Management, Volume 4.
31. Chao Cheng, Xiting Yan, Fengzhu Sun and Lei M Li, Inferring activity changes of transcription factors by binding association with sorted expression profiles, BMC Bioinformatics, 8:452.
32. Ge H, Cheng C and Li LM (2008), A Probe-Treatment-Reference (PTR) Model for the Analysis of Oligonucleotide Expression Microarrays, BMC Bioinformatics, 9: 194.
33. Cheng, C and Li, LM (2008) Systematic identification of cell cycle regulated transcription factors from microarray time series data. BMC Genomics, 9:116.
34. Wei M, Fabrizio P, Jia H, Ge H, Cheng C, et al. (2008) Life Span Extension by Calorie Restriction Depends on Rim15 and Transcription Factors Downstream of Ras/PKA, Tor, and Sch9. PLoS Genet. 4(1): e13. doi:10.1371/journal.pgen.**
35. Cheng, C and Li, LM (2008) Inferring microRNA activities by combining gene expression with microRNA target prediction. PLoS ONE. 2008 Apr 23;3(4):e1989.
36. Cheng C, Li LM, Alves P, Gerstein M. (2009) Systematic identification of transcription factors associated with patient survival in cancers. BMC Genomics.10:225.
37. Wei M, Fabrizio P, Madia F, Hu J, Ge H, Li LM, Longo VD. (2009) Tor1/Sch9-regulated carbon source substitution is as effective as calorie restriction in life span extension, PLoS Genet. 2009 May; 5(5):e**. Epub 2009 May 8.
38. Kim JH, Kim W-C, Waterman MS, Park S, and Li LM (2009) HAPLOWSER: a whole-genome haplotype browser for personal genome and metagenome, Bioinformatics, btp399 [pii] 10.1093/bioinformatics/btp399
39. Ge, Huanying; Wei, Min; Fabrizio, Paola; Hu, Jia; Cheng, Chao; Longo, Valter; Li, Lei M (2010) Comparative analyses of time-course gene expression profiles of the long-lived sch9Δmutant，Nucleic Acids Research, doi:10.1093/nar/gkp849.
40. Lei M Li (2011) Accuracy Assessment of Consensus Sequence from Shotgun Sequencing, chapter in the book, “Handbook of Computational Statistics: Statistical Bioinformatics” edited by HS Lu and H Zhao, Springer, Chapter 1, Page 1-?.
41. Jong Hyun Kim, Woo-Cheol Kim, Lei M. Li and Sanghyun Park (2011), HapEdit: an accuracy assessment viewer for haplotype assembly using massively parallel DNA-sequencing technologies Nucl. Acids Res. (2011) first published online May 16, 2011 doi:10.1093/nar/gkr354
42. Lei M. Li (to appear) DNA Sequencing and Commentary, in the book, “Selected Works of Terry Speed” edited by Sandrine Dudoit, Springer, Chapter 13.
科研活动重大慢性多发疾病的动态网络构建, 中国科学院国家数学与交叉科学中心,数学与生物/医学交叉部


科研项目

参与会议
合作情况

项目协作单位华大基因研究院
北京大学医学院

指导学生现指导学生

王安琪 硕士研究生 070103-概率论与数理统计

王琳 博士研究生 070103-概率论与数理统计