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陈洛南：男，博士，研究员。1984年获华中科技大学电气工程学士学位；1988年获日本东北大学系统科学硕士学位；1991年获日本东北大学系统科学博士学位。1997年起任日本大阪产业大学副教授；2000年起任美国加州大学洛杉矶分校访问教授；2002年起任日本大阪产业大学终身教授；2006年起任日本科学振兴机构（JST）复杂生命系统研究组负责人；2009年4月起任日本东京大学兼职研究教授；2009年10月至今任中科院系统生物学重点实验室执行主任，研究员，并承担中科院上海生科院首席科学家等项目。2009年获中科院-诺和诺德长城教授奖。目前，在计算系统生物学领域的主要国际学术期刊中担任重要工作，如《BMC Systems Biology》 Section Editor，《IEEE/ACM Trans. On Computational Biology and Bioinformatics》Associate Editor，《Neural Processing Letters》Associate Editor，《Journal of Theoretical Biology》编委，《IET Systems Biology》编委，《Journal of Royal Socieity Interface》编委，《PLoS One》编委，《Mathematical Biosciences》编委，《Int. J. of Systems and Synthetic Biology 》编委，《Int. J. of Data Mining and Bioinformatics 》编委，《J. of Systems Science and Complexity》编委，Springer《系统生物学百科全书》编辑，IEEE-SMC《系统生物学委员会》主席，中国运筹学会《计算系统生物学分会》理事长。网页为
http://www.sysbio.ac.cn/ , or,
http://www.sysbio.ac.cn/cb/chenlab/LuonanChen.htm, or,
http://www.sysbio.ac.cn/cb/chenlab, or, http://www.sysbio.ac.cn/cb

张焱：男，博士，研究员。1997年获浙江大学医学院临床医学系学士学位；2002年获中国医学科学院&北京协和医学院生物医学工程系博士学位。2002年-2009年在美国内布拉斯加大学林肯分校先后担任博士后和高级研究助理。2009年-2011年在美国布莱根妇女医院&哈佛医学院医学系担任讲师。2011年3月起任中科院上海生命科学研究院系统生物学重点实验室研究员，博士生导师。在国际权威杂志上发表论文 30多篇。多次应邀为“BMC Systems Biology”，“PLoS ONE”，“Gene”，“ IEEE Transactions on Computational Biology and Bioinformatics”和“ Metallomics”等国际知名刊物的投稿论文审稿。”个人主页：http://www.sysbio.ac.cn/cb/zhanglab/
 
 
  1. 计算系统生物学
  2. 非线性动力系统
  3. 生物信息学
  4. 计算比较基因组学
  5. 微量元素组与离子组学
 
 

刘治平： zpliu@sibs.ac.cn
Songyot Nakariyakul: nsongyot@engr.tu.ac.th
曾燕舞：zengyanwu@gmail.com
曾 涛：zengtao@sibs.ac.cn
孙少燕：renasun@gmail.com
温振庶：zhenshu.wen@mail.scut.edu.cn
朴冠英： gypiao@sibs.ac.cn
张万纬： woanway@gmail.com
李美仪： lmylsllwq@163.com
武　祎： ywu01@sibs.ac.cn
 
 
  1. Yan Zhang and Vadim N. Gladyshev (2011) Comparative genomics of trace element dependence in biology. J. Biol. Chem. In press.
  2. Yan Zhang, Steffen Rump, Vadim N. Gladyshev (2011) Comparative genomics and evolution of molybdenum utilization. Coord. Chem. Rev. In press.
  3. Christopher J. Gobler, Dianna L. Berry, Sonya T. Dyhrman, Steven W. Wilhelm, Asaf Salamov, Alexei V. Lobanov, Yan Zhang, Jackie L. Collier, Louie L. Wurch, Adam B. Kustka, Brian D. Dill, Manesh Shah, Nathan C. VerBerkmoes, Alan Kuo, Astrid Terry, Jasmyn Pangilinan, Erika A. Lindquist, Susan Lucas, Ian T. Paulsen, Theresa K. Hattenrath-Lehmann, Stephanie C. Talmage, Elyse A. Walker, Florian Koch, Amanda M. Burson, Maria Alejandra Marcoval, Ying-Zhong Tang, Gary R. LeCleir, Kathryn J. Coyne, Gry M. Berg, Erin M. Bertrand, Mak A. Saito, Vadim N. Gladyshev, and Igor V. Grigoriev (2011) Niche of harmful alga Aureococcus anophagefferens revealed through ecogenomics. Proc. Natl. Acad. Sci. U.S.A. 108, 4352-4357.
  4. Zhi-Ping Liu, Yong Wang, Xiang-Sun Zhang and Luonan Chen: Detecting and analyzing differentially activated pathways in brain regions of Alzheimer’s disease patients. Molecular BioSystems, DOI: 10.1039/C0MB00325E, 2011.
  5. Yong Wang, Xiang-Sun Zhang, Luonan Chen. Computational systems biology: integration of sequence, structure, network, and dynamics. BMC Systems Biology, accepted, 2011.
  6. D. Liu, X. Chang, Z.Liu, L.Chen, R.Wang. Bistability and oscillations in gene regulation mediated by small noncoding RNAs. PLoS ONE 6(3): e17029. doi:10.1371/journal.pone.0017029, 2011.
  7. X. Chang, D.Liu, Z.Liu, L.Chen, R.Wang. Adaptation of simple molecular networks to timedependent stimulus. Asian Journal of Control, 2011.
  8. Zhenping Li, Ruisheng Wang, Xiang-Sun Zhang, Luonan Chen. Drug target identification based on flux balance analysis in metabolic network. BMC Systems Biology, accepted, 2011.
  9. Hongbo Lei, Jifeng Zhang, Luonan Chen. Property of Multiple Equilibria for SSI Metabolic Module. BMC Systems Biology, accepted, 2011.
  10. Huarong Zhou, Zhiping Liu, Kazu Horimoto, Luonan Chen. Network Screening of Goto- Kakizaki Rat Liver Microarray Data during Diabetic Progression. BMC Systems Biology, accepted, 2011.
  11. Vasilescu Gabriel, Luonan Chen. Spice Simulation of Intracellular Transport: Free Diffusion. Asian Journal of Control, accepted, 2011.
  12. Hongbo Lei, Jifeng Zhang, Luonan Chen. Multi-equilibrium property of metabolic networks: Exclusion of multi-stability for SSN metabolic modules. International Journal of Robust and Nonlinear Control, accepted, 2011.
  13. Zhi-Ping Liu, Yong Wang, Xiang-Sun Zhang and Luonan Chen: Network-based analysis of complex diseases. IET Systems Biology, accepted, 2011.
  14. Yan Zhang and Vadim N. Gladyshev (2010) dbTEU: a protein database of trace element utilization. Bioinformatics 26, 700-702.
  15. Yan Zhang and Vadim N. Gladyshev (2010) General trends in trace element utilization revealed by comparative genomic analyses of Co, Cu, Mo, Ni and Se. J. Biol. Chem. 285, 3393-3405.
  16. Valentina A. Shchedrina, Yan Zhang, Vyacheslav M. Labunskyy, Dolph L. Hatfield and Vadim N. Gladyshev (2010) Structure-function relations, physiological roles, and evolution of mammalian ER-resident selenoproteins. Antioxid. Redox Signal. 12, 839-849.
  17. D.Liu, X.Chang, Z.Liu, L.Chen, R.Wang. The effect of coupled feedback on noise filtering in signal transduction networks. J. Syst. Sci. Complex, vol.23, 942C950, 2010.
  18. Xiaoping Liu, Wei-Hua Tang, Xingming Zhao, Luonan Chen. A Network Approach to Predict Pathogenic Genes for Fusarium graminearum. PLoS One, 5(10): e13021, 2010.
  19. Yong Wang, Xiang-Sun Zhang, and Luonan Chen. Optimization Meets Systems Biology. BMC Systems Biology, doi:10.1186/1752-0509-4-S2-S1, 2010.
  20. Zhi-Ping Liu, Ling-Yun Wu, Yong Wang, Xiang-Sun Zhang, Luonan Chen. Prediction of protein-RNA binding sites by a random forest method with combined features. Bioinformatics, Vol. 26, 1616C1622, 2010.
  21. Zikai Wu, Xing-Ming Zhao, Luonan Chen. A systems biology approach to identify effective cocktail drugs. BMC Systems Biology, doi:10.1186/1752-0509-4-S2-S7, 2010.
  22. Zhiping Liu, Weiming Xia, Xiang-Sun Zhang, Luonan Chen. Identifying dysfunctional crosstalk of pathways in various regions of Alzheimers’ disease brains. BMC Systems Biology, doi:10.1186/1752-0509-4-S2-S11, 2010.
  23. Chenglei Sun, Xing-Ming Zhao, Weihua Tang, Luonan Chen. FGsub: Fusarium graminearum protein subcellular localization prediction from primary structures. BMC Systems Biology, doi:10.1186/1752-0509-4-S2-S12, 2010.
  24. Lin Wang, Ling-Yun Wu, Yong Wang, Xiang-Sun Zhang, Luonan Chen. SANA: an algorithm for sequential and non-sequential protein structure alignment. Amino Acids, 39(2):417-25, 2010.
  25. Yu-Qing Qiu, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen. Detecting disease associated modules and prioritizing active genes based on high throughput data. BMC Bioinformatics, 11:26, 2010.
  26. Yi Ding, Peng Wang, L. Goel1, Luonan Chen, Poh Chiang Loh. A Penalty Scheme for Reducing Electricity Price Volatility. IEEE Transactions on Power Systems, 25(1): 223-233, 2010.
  27. Zhao Song, Luonan Chen, Dong Xu, Bioinformatics Methods for Protein Identification Using Peptide Mass Fingerprinting. Proteome bioinformatics: Informatics for mass-spectrometry based protein science, Methods in Molecular Biology, 604:7-22, 2010.
  28. Micha l Bekaert, Andrew E. Firth, Yan Zhang, Vadim N. Gladyshev, John F. Atkins and Pavel V. Baranov (2009) Recode-2: new design, new search tools, and many more genes. Nucleic Acids Res. 38, D69-74.
  29. Yan Zhang and Vadim N. Gladyshev (2009) Comparative genomics of trace elements: emerging dynamic view of trace element utilization and function. Chem. Rev. 109, 4828-4861.
  30. Yan Zhang, Dmitry A. Rodionov, Mikhail S. Gelfand and Vadim N. Gladyshev (2009) Comparative genomic analyses of nickel, cobalt and vitamin B12 utilization. BMC Genomics 10, 78.
  31. Dung Tien Le, Byung Cheon Lee, Stefano M. Marino, Yan Zhang, Dmitri E. Fomenko, Alaattin Kaya, Elise Hacioglu, Geun-Hee Kwak, Ahmet Koc, Hwa-Young Kim and Vadim N. Gladyshev (2009) Functional analysis of free methionine-R-sulfoxide reductase from Saccharomyces cerevisiae. J. Biol. Chem. 284, 4354-4364.
  32. Mitsuko Hirosawa-Takamori, Dmitri Ossipov, Sergey V. Novoselov, Anton A. Turanov, Yan Zhang, Vadim N. Gladyshev, Alain Krol, Gerd Vorbr üggen and Herbert J ckle (2009) A novel stem loop control element-dependent UGA read-through system without translational selenocysteine incorporation in Drosophila. FASEB J. 23, 107-113.
  33. Hwa-Young Kim, Yan Zhang, Byung Cheon Lee, Jae-Ryong Kim, Vadim N. Gladyshev (2009) The selenoproteome of Clostridium sp. OhILAs: characterization of anaerobic bacterial selenoprotein methionine sulfoxide reductase A. Proteins 74, 1008-1017.
  34. Xingming Zhao, Kazuyuki Aihara, Luonan Chen. A discriminative approach to identifying domain-domain interactions from protein-protein interactions. PROTEINS: Structure, Function, and Bioinformatics, 78(5), 1243-1253, 2009.
  35. Xingming Zhao, Xiao-Wei Zhang, Weihua Tang, Luonan Chen. FPPI: Fusarium graminearum protein-protein interaction database. Journal of Proteome Research, DOI: 10.1021/pr900415b, 2009.
  36. Jiguang Wang, Shihua Zhang, Yong Wang, Luonan Chen, Xiang-Sun Zhang. Disease-aging network reveals significant roles of aging genes in connecting genetic diseases. PLoS Computational Biology, PLoS Comput Biol 5(9): e1000521. doi:10.1371journal.pcbi.1000521, 2009.
  37. Zhao Song, Luonan Chen, Dong Xu. Confidence Assessment for Protein Identification by Using Peptide-Mass Fingerprinting Data. Proteomics, 9(11), 3090-3099, 2009.
  38. Y. Li, Z. Liu, J. Zhang, R. Wang, L. Chen. Synchronisation mechanisms of circadian rhythms in the suprachiasmatic nucleus. IET Systems Biology, 3(2), 100-112, 2009.
  39. X. S. Zhang, R. S. Wang, Y. Wang, J. Wang, Y. Qiu, L. Wang and L. Chen. Modularity optimization in community detection of complex networks. Europhysics Letters, 87:38002, 2009.
  40. R.Wang, G.Jin, X-S. Zhang, L.Chen. Modelling post-transcriptional regulation of microRNAs in E.coli. BMC Bioinformatics, 10(Suppl 4):S6, 2009.
  41. Y.Wang, X-S.Zhang, L.Chen. A network biology study on circadian rhythm by integrating various omics data. OMICS, 13(4):313-24, 2009.
  42. Y.Wang, J.Shen, B.Niu, Z.Liu, L.Chen. Robustness of interval gene networks with multiple time-varying delays and noise. Neurocomputing, doi:10.1016/j.neucom.2009.02.012, 2009.
  43. Y.Wang, Z.Ma, J.Shen, Z.Liu, L.Chen. Periodic oscillation in delayed gene networks with SUM regulatory logic and small perturbations. Mathematical Biosciences, doi:10.1016/j.mbs.2009.03.010, 2009.
  44. Y.Qiu, S.Zhang, X-S.Zhang, L.Chen. Identifying differentially expressed pathways via a mixed integer linear programming model. IET Systems Biology, 3, 475-486, 2009.
  45. Jianwei Shen, Zengrong Liu, Weixing Zheng, Fengdan Xu, Luonan Chen. Oscillatory dynamics in a simple gene regulatory network mediated by small RNAs. Physica A: Statistical Mechanics and its Applications. 388(14), 2995-3000, 2009.
  46. Guangxu Jin, Xiaobo Zhou, Kemin Cui, Xiang-Sun Zhang, Luonan Chen, and Steve T.C. Wong. Cross-platform method for identifying candidate network biomarkers for prostate cancer. IET Systems Biology, 3(6), 505-512, 2009.
  47. B.Wang, L.Chen, K.Aihara. Limited ability driven phase transitions in the coevolution process in Axelrod’s model. Physics Letters A, 373(17), 1519-1523, 2009.
  48. L-Y.Wu, Z.Li, R.Wang, X-S.Zhang, L.Chen. Self-organizing map approaches for the haplotype assembly problem Mathematics and Computers in Simulation. Mathematics and Computers in Simulation,79(10), 3026-3037, 2009.
  49. Z.Li, R.Wang, X-S.Zhang, L.Chen. Detecting drug targets in metabolic networks by integer linear programming. IET Systems Biology, Vol. 3, No.6, pp. 523-533, 2009.
  50. H. Fan, Z. Wang, L. Chen, K. Aihara. Feedback mechanism in network dynamics with preferential flow. Physical Review E, 79:026107, 2009.
  51. Xing-Ming Zhao, Rui-Sheng Wang, Luonan Chen, Kazuyuki Aihara. Automatic modeling of signaling pathways by network flow model. Journal of Bioinformatics and Computational Biology, 7(2):309-22, 2009.
  52. Z.Wu, X.Zhao, L.Chen. Detecting signal transduction pathways from high-throughput data. Mol. Cells, 27, 271-277, 2009.
  53. S.Fan, L.Chen, W. J. Lee. Short-term Load Forecasting Using Comprehensive Combination based on Multi- Meteorological Information. IEEE Trans. on Industry Application. Vol. 45, No. 4, pp. 1460-1466, 2009.
  54. S.Fan, Y.Yokoyama, L.Chen. Forecasting the Wind Generation Using A Two-stage Network Based on Meteorological Information. IEEE Transactions on Energy Conversion. Vol. 24, No. 2, pp. 474-482, 2009.
  55. Laura V. Papp, Junning Wang, Derek Kennedy, Didier Boucher, Yan Zhang, Vadim N. Gladyshev, Ravindra N. Singh and Kum Kum Khanna (2008) Functional characterization of alternatively spliced human SECISBP2 transcript variants. Nucleic Acids Res. 36, 7192-7206.
  56. Yan Zhang and Vadim N. Gladyshev (2008) Trends in Selenium Utilization in Marine Microbial World Revealed through the Analysis of the Global Ocean Sampling (GOS) Project. PloS Genet. 13, e1000095.
  57. Yan Zhang, Anton A. Turanov, Dolph L. Hatfield and Vadim N. Gladyshev (2008) In silico identification of genes involved in selenium metabolism: evidence for a third selenium utilization trait. BMC Genomics 9, 251.
  58. Yan Zhang and Vadim N. Gladyshev (2008) Molybdoproteomes and evolution of molybdenum utilization. J. Mol. Biol. 379, 881-899.
  59. Richard S. Glass; Marla J. Berry; Eric Block; Harriet T. Boakye; Bradley A. Carlson; Jürgen Gailer; Graham N. George; Vadim N. Gladyshev; Dolph L. Hatfield; Neil E. Jacobsen; Sherida Johnson; Chethaka Kahakachchi; Rafal Kamiński; Shawn A. Manley; Heiko Mix; Ingrid J. Pickering; Elmar J. Prenner; Kazima Saira; Aleksandra Skowroń ska; Julian F. Tyson; Peter C. Uden; Qiao Wu; Xue-Ming Xu; Raghav Yamdagni; and Yan Zhang (2008) Insights into the chemical biology of selenium. Phosphorus Sulfur Silicon Relat. Elem. 183, 924-930.
  60. Perry G. Ridge, Yan Zhang and Vadim N. Gladyshev (2008) Comparative genomic analyses of copper transporters and cuproproteomes reveal evolutionary dynamics of copper utilization and its link to oxygen. PLoS ONE 3, e1378.
  61. Yan Zhang, You Zhou, Ulrich Schweizer, Nicolai E. Savaskan, Deame Hua, Jonathan Kipnis, Dolph L. Hatfield and Vadim N. Gladyshev (2008) Comparative analysis of selenocysteine machinery and selenoproteome gene expression in mouse brain identifies neurons as key functional sites of selenium in mammals. J. Biol. Chem. 283, 2427-2438.
  62. G. Jin, X.Zhou, H.Wang, H.Zhao, K.Cui, X. Zhang, L. Chen, S. Hazen, K. Li, S. Wong. The knowledge-integrated network biomarkers discovery for Major Adverse Cardiac Events. Journal of Proteome Research, 7 (9), 4013-4021, 10.1021/pr8002886, 2008.
  63. S.Zhang, X-S.Zhang, L.Chen. Biomolecular network querying: a promising approach in systems biology. BMC Systems Biology, 2:5, doi:10.1186/1752-0509-2-5, 2008.
  64. X. Zhao, R.Wang, L. Chen, K.Aihara. Uncovering signal transduction networks from highthroughput data by integer linear programming. Nucleic Acids Research, Vol.36, No.9, e48, doi:10.1093/nar/gkn145, 2008.
  65. Z.Liu, L.Wu, Y.Wang, X-S. Zhang, L.Chen. Bridging protein local structures and protein functions. Amino Acids, DOI 10.1007/s00726-008-0088-8, 2008.
  66. X.Zhao, K.Aihara, L.Chen. Protein function prediction with high-throughput data. Amino Acids, Vol.35, pp.517-530, DOI 10.1007/s00726-008-0077-y, 2008.
  67. Y.Xie, L.Chen, Y.Kang, K. Aihara. Controlling the onset of Hopf bifurcation in the Hodgkin- Huxley model. Physical Review E. 77, 061921, 2008.
  68. B. Wang, K. Aihara and L. Chen. Jamming in weighted scale-free gradient networks. Europhysics Letters. 83, 28006, 2008.
  69. C. Li, L. Chen, K.Aihara. Impulsive control of stochastic systems with applications in chaos control, chaos synchronization, and neural networks. Chaos. Vol.18, 023132, 2008.
  70. T.Zhou, J. Zhang, Z. Yuan, L. Chen. Synchronization of Genetic Oscillators. Chaos. Vol.18, No.3, 037126, 2008.
  71. Z. Li, S.Zhang, R. Wang, X.S.Zhang, L.Chen. Novel quantitative function for community detection. Physical Review E, 77, 036109, 2008.
  72. X.Zhao, Y.Wang, L.Chen, K.Aihara. Gene function prediction using labeled and unlabeled data. BMC Bioinformatics, 9:57, doi:10.1186/1471-2105-9-57, 2008.
  73. X.Zhao, Y.Wang, L.Chen, K.Aihara. Protein domain annotation with integration of heterogeneous information sources. Proteins: Structure, Function, and Bioinformatics, Vol.72, no.1, 461 - 473, 2008.
  74. G.He, L.Chen, K.Aihara. Associative Memory with a Controlled Chaotic Neural Network. Neurocomputing, 71, 2794-2805, 2008.
  75. Y.Wang, L-Y.Wu, J.Zhang, Z.Zhan, X-S.Zhang, L.Chen. Evaluating Protein Similarity From Coarse Structures. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 10.1109/TCBB.2007.70250, 2008.
  76. R.Wang, C.Li, L.Chen, K.Aihara. Modeling and Analyzing Biological Oscillations in Molecular Networks. Proceedings of The IEEE, Vol.96, 1361-1385, 2008.
  77. R.-S. Wang, S. Zhang, Y. Wang, X.-S. Zhang, L. Chen. Clustering complex networks and biological networks by Nonnegative Matrix Factorization with various similarity measures. Neurocomputing, 72, 134-141, 2008.
  78. X.-M. Zhao, Y. Wang, L. Chen, and K. Aihara. Protein domain annotation with predicted domain-domain interaction networks. Protein & Peptide Letters, 15, 456-462, 2008.
  79. X.-M. Zhao, L. Chen, and K. Aihara. Protein function prediction with the shortest path in functional linkage graph and boosting. International Journal of Bioinformatics Research and Applications, 4, 375 - 384, 2008.
  80. Z.-P. Liu, L.-Y. Wu, Y. Wang, X.-S. Zhang, L. Chen. Protein cavity clustering based on community structure of pocket similarity network. International Journal of Bioinformatics Research and Applications, 4, 445-460, 2008.
  81. Z.Liu, L-Y.Wu, X-S.Zhang, L.Chen. Analysis of protein surface patterns by pocket similarity network in a systems biology framework. Protein & Peptide Letter, 15, 448-455, 2008.
  82. S. Fan, L. Chen, W. J. Lee. Machine Learning Based Switching Model for Electricity Load Forecasting. Energy Conversion and Management, Vol. 49, No. 6, pp. 1331-1344, 2008.
  83. Yan Zhang and Vadim N. Gladyshev (2007) High content of proteins containing 21st and 22nd amino acids, selenocysteine and pyrrolysine, in a symbiotic deltaproteobacterium of gutless worm Olavius algarvensis. Nucleic Acids Res. 35, 4952-4963. (Highlighted in Nature 448: 1004-1005, 2007)
  84. Xue-Ming Xu, Bradley A. Carlson, Yan Zhang, Heiko Mix, Gregory V. Kryukov, Richard S. Glass, Marla J. Berry, Vadim N. Gladyshev and Dolph L. Hatfield (2007) New developments in selenium biochemistry: selenocysteine biosynthesis in eukaryotes and archaea. Biol. Trace Elem. Res. 119, 234-241.
  85. Alexey V. Lobanov, Dmitri E. Fomenko, Yan Zhang, Aniruddha Sengupta, Dolph L. Hatfield and Vadim N. Gladyshev (2007) Evolutionary dynamics of eukaryotic selenoproteomes: large selenoproteomes may associate with aquatic and small with terrestrial life. Genome Biol. 8, R198.
  86. Xue-Ming Xu, Bradley A. Carlson, Heiko Mix, Yan Zhang, Kazima Saira, Richard S. Glass, Marla J. Berry, Vadim N. Gladyshev and Dolph L. Hatfield (2007) Biosynthesis of Selenocysteine on its tRNA in Eukaryotes. PLoS Biol. 5, e4. (Highlighted in Nature Struct. Mol. Biol. 14: 100-101, 2007; Chem. Engineer. News: Science and Tech. 85: 22, 2007; and ACS Chem. Biol. 2: 87, 2007).
  87. Zhi-Ping Liu, Ling-Yun Wu, Yong Wang, Luonan Chen and Xiang-Sun Zhang. Predicting Gene Ontology Functions from Protein’s Regional Surface Structures. BMC Bioinformatics, 8:475, doi:10.1186/1471-2105-8-475, 2007.
  88. Guangxu Jin, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen. Hubs with network motifs organize modularity dynamically in the protein-protein interaction network of yeast. PLoS ONE, 2(11): e1207, doi: 10.1371/journal.pone.0001207, 2007.
  89. Rui-Sheng Wang, Xiang-Sun Zhang, Luonan Chen. Inferring transcriptional interactions and regulator activities from experimental data. Molecules and Cells, vol.24, 307-315, 2007.
  90. R.Wang, Y.Wang, L-Y.Wu, X-S.Zhang, L.Chen. Analysis on Multi-domain Cooperation for Predicting Protein-Protein Interactions. BMC Bioinformatics, 8:391, doi:10.1186/1471-2105- 8-391, 2007.
  91. R. Wang, Y.Wang, X-S. Zhang, L.Chen. Inferring Transcriptional Regulatory Networks from High-throughput Data. Bioinformatics, 23(22):3056-3064, 2007.
  92. X.Zhao, L.Chen, K.Aihara. Protein classification with imbalanced data. Proteins: Structure, Function, and Bioinformatics, Vol.70, 1125 - 1132, 2007.
  93. L.Chen, Y.Wang, M.Fei, Z.Liu. Systems Biology from Theoretical and Engineering Perspective. SCIENCE & TECHNOLOGY REVIEW, Vol.25, No.10, 5-10, 2007.
  94. C. Li, L. Chen, K. Aihara. Stochastic Stability of Genetic Networks with Disturbance Attenuation. IEEE TCAS-II, Vol.54, No.10, 892-896, 2007.
  95. Z.Li, S. Zhang, Y.Wang, X-S.Zhang, L.Chen. Alignment of molecular networks by integer quadratic programming. Bioinformatics, 23, 1631-1639, 2007.
  96. S. Zhang, G. Jin, X-S. Zhang, L.Chen. Discovering functions and revealing mechanisms at molecular level from biological networks, Proteomics, Vol.7, 2856-2869, 2007.
  97. R.Wang, L.Chen, K.Aihara. Detection of Cellular Rhythms and Global Stability within Interlocked Feedback Systems, Mathematical Biosciences, Vol.209, 171-189, 2007.
  98. C.Li, L.Chen, K.Aihara. Stochastic Synchronization of Genetic Oscillator Networks. BMC Systems Biology, doi:10.1186/1752-0509-1-6, 2007.
  99. Z.Wu, Y.Wang, E.Feng, L.Chen. A new geometric-topological method to measure protein fold similarity. Chemical Physics Letters, Vol.433,432-438, 2007.
  100. Z.Wu, E.Feng, Y.Wang, L.Chen. Discrimination of Outer Membrane Proteins by a New Measure of Information Discrepancy. Protein & Peptide Letters, 14, 37-44, 2007.
  101. C.Li, L.Chen, K.Aihara. A systems biology perspective on signal processing in genetic network motifs. IEEE Signal Processing Magazine, Vol.24, No.2, 136-147, 2007.
  102. Zhao Song, Luonan Chen, Ashwin Ganapathy, Xiu-FengWan, Laurent Brechenmacher, Nengbing Tao, David Emerich, Gary Stacey, Dong Xu. Development and Assessment of Scoring Functions for Protein Identification Using Peptide Mass Fingerprinting Data. ELECTROPHORESIS, 28, 864-870, 2007.
  103. S,Fukutome, H. Azuma, N. Honjou, L. Chen, Development of Generation-Transmission Expansion Planning Method Based on A Hierarchical Model, Transactions IEE of Japan, Vol.127-B, No.1, 130-136, 2007.
  104. S.Fan, C.Mao, L.Chen, Next-Day Electricity Price Forecasting Using a Hybrid Network. IET Generation, Transmission & Distribution, Vol.1, No.1, 176-182, 2007.
  105. Yan Zhang, Hector Romero, Gustavo Salinas and Vadim N. Gladyshev (2006) Dynamic Evolution of Selenocysteine Utilization in Bacteria: a Balance between Selenoprotein Loss and Evolution of Selenocysteine from Redox-active Cysteine Residues. Genome Biol. 7, R94.
  106. R-S. Wang, L-Y.Wu, X-S.Zhang, L.Chen. A Markov Chain Model for Haplotype Assembly from SNP Fragments. Genome Informatics, Vol.17,No.2. 2006.
  107. Y.Wang, L-Y.Wu, X-S.Zhang and L.Chen. Exploring the classification of protein structures on geometric patterns by neural networks. International Journal of Computational Intelligence Research, Vol. 2, No. 1, pp. 105-109, 2006.
  108. Y.Wang, X-S.Zhang, L.Chen. Supervised Classification of Protein Structures, International Journal of Bioinformatics Research and Applications, Vol.3, No.2, 2006.
  109. L.Chen, L-Y.Wu, Y.Wang, S.Zhang, X-S.Zhang, Revealing Divergent Evolution, Identifying Circular Permutations and Detecting Active-Sites by Protein Structure Comparison, BMC Structural Biology, doi:10.1186/1472-6807-6-18, 2006.
  110. Y.Wang, T.Joshi, D.Xu, X-S.Zhang, L.Chen, Inferring Gene Regulatory Networks from Multiple Microarray Datasets, Bioinformatics, 22, 2413 - 2420, 2006.
  111. S.Fan, C.Mao, L.Chen, Electricity Peak Load Forecasting with Self-Organizing Map and Support Vector Regression, Transactions IEE of Japan, Vol.1, 330-336, 2006.
  112. C.Li, L.Chen, K.Aihara, Transient Resetting: a novel mechanism for biological synchrony, PLoS Computational Biology, DOI:10.1371/journal.pcbi.0020103.eor, 2006.
  113. Y.Wang, L-Y.Wu, X-S.Zhang, L.Chen, Automatic Classification of Protein Structures Based on Convex Hull Representation by Integrated Neural Network. Lecture Notes in Computer Science, Springer Berlin Heidelberg, Vol.3959, 505-514,2006.
  114. R.Wang, L.Chen,K.Aihara, Synchronizing a Multicellular System by External Input: An Artificial Control Strategy,Bioinformatics, 22, 1775 - 1781, 2006.
  115. R.Wang, L.Chen, K.Aihara, ”Construction of Genetic Oscillators with Interlocked Feedback Networks”, Journal of Theoretical Biology, Vol.242, 454-463, 2006.
  116. C.Li, L.Chen, K.Aihara, ”Synchronization of Coupled Nonidentical Genetic Oscillators”, Physical Biology, 3, 37-44, 2006.
  117. R.Li, L.Chen, R.Yokoyama, ”A Pricing Method for Transmission Loss Based on Sensitivity Analysis”, IEEE Trans. on Power Systems, Vo.21, No.3, pp.1201 - 1208, 2006.
  118. X-S.Zhang, R-S. Wang, L-Y. Wu, L. Chen, ”Models and Algorithms for Haplotyping Problem,” Current Bioinformatics, 1, 105-114, 2006.
  119. L.Chen, L-Y. Wu, Y.Wang, X-S. Zhang, ”Inferring Protein Interactions from Experimental Data by Association Probabilistic Method,” Proteins, 62, 833-837, 2006.
  120. T.Wachi, S.Fukutome, L.Chen, Y.Makino, ”Decomposition of Market Clearing Price in Electricity Markets,” Transactions IEE of Japan, Vol. 126-B, No.3, pp.297-307, 2006.
  121. L.Chen, R.Wang, ”Designing Gene Regulatory Networks with Specified Functions,” IEEE Trans. on Circuits and Systems - I: Fundamental Theory and Applications, Vol.53, No.11, 2444-2450, 2006.
  122. C.Li, L.Chen, K.Aihara, ”Stability of Genetic Networks with SUM Regulatory Logic,” IEEE Trans. on Circuits and Systems - I: Fundamental Theory and Applications, Vol.53, No.11, 2451-2458, 2006.
  123. Z. Jing, R. Wang, L.Chen, J.Deng, ”Attractive Regions in Power Systems by Singular Perturbation Analysis,” DOI 10.1007/3-7643-7429-28, Differential Equations with Symbolic Computation, 2006.
  124. S.Fan, L.Chen, ”Short-Term Load Forecasting Based on an Adaptive Hybrid Method,” IEEE Trans. on Power Systems, 21, 392- 401, 2006.
  125. S.Fan, C.Mao, L.Chen, ”Optimal coordinated PET and generator excitation control for power systems,” International Journal of Electrical Power & Energy Systems, 28, No.3, 158- 165, 2006.

专著：

  1. L. Chen, R-S.Wang, X-S.Zhang, Biomolecular Networks: Methods and Applications in Systems Biology, John Wiley & Sons, 2009.
  2. L. Chen, R-Q.Wang, C. Li, K. Aihara, Modelling Biomolecular Networks in Cells: Structures and Dynamics, Springer-Verlag, London, 2010.

书籍的执笔章节：

  1. Zhao Song, Luonan Chen, Dong Xu, Bioinformatics Methods for Protein Identification Using Peptide Mass Fingerprinting. Proteome bioinformatics: Informatics for mass-spectrometry based protein science, the Human Press, 604:7-22, 2010.
  2. Yong Wang, Ruisheng Wang, Trupti Joshi, Xiang-Sun Zhang, Dong Xu, Luonan Chen. Inferring Gene Regulatory Networks from Genetical Genomics data. In Handbook of Research on Computational Methodologies in Gene Regulatory Networks, IGI Global, October, 2009.
  3. Xingming Zhao, Luonan Chen. Protein Function Prediction with Data Mining Techniques. In Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications, John Wiley & Sons, June, 2010.
  4. Yu-Qing Qiu, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen. Computational Models for Condition Specific Gene and Pathway Inference. In Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications, John Wiley & Sons, 2010.

编辑书籍：

  1. Optimization and Systems Biology, Lecture Notes in Operations Research 7. Edited by X-S.Zhang, L.Chen, L-Y.Wu, Y.Wang. World Publishing Corporation, Beijing, 2007.
  2. Optimization and Systems Biology, Lecture Notes in Operations Research 8. Edited by X-S.Zhang, L.Chen, L-Y.Wu, Y.Wang. World Publishing Corporation, Beijing, 2008.
  3. Optimization and Systems Biology, Lecture Notes in Operations Research 9. Edited by L.Chen, L-Y.Wu, Y.Wang, X-S.Zhang. World Publishing Corporation, Beijing, 2009.
  4. Computational Systems Biology, Lecture Notes in Operations Research 13. Edited by L.Chen, X-S.Zhang, Bairong Shen, L-Y.Wu, Y.Wang. World Publishing Corporation, Beijing, 2010.
  5. Life System Modeling and Simulation, Supplementary volume to DCDIS series B: Applications and Algorithms. Edited by M.Fei, S.Ma, X.Li, L.Chen, Y.Ding. Watam Press, Waterloo, 2007.
  6. Combinatorial Optimization by Modern Heuristic Techniques, 1997, Nikan Publish, L.Chen (coauthor).
  7. Operation and Planning in Deregulated Power Systems, 2002, Tokyo DenKiDai Publish, L.Chen (coauthor).
  8. An Introduction to Environmental Systems, 2007, Denkishoin, L.Chen (coauthor).
 
 

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