Profile
ZHU, Jun
[PRESENT POSITION]
Director and Professor, Institute of Bioinformatics at Zhejiang University (2001-Current).
[FORMER POSITION]
Vice President of Zhejiang University (2005-2009).
Dean, College of Agricultural and Biotechnology at Zhejiang University (1999-2005).
Vice President of Zhejiang Agricultural University (1994-1998).
[DEGREES]
Ph.D. in Statistics and Genetics, NC State, USA      (1989).
M.S. in Agronomy, Zhejiang Agricultural University (1982).
[FIELD OF RESEARCH ACTIVITIES]
Developing genetic models and analysis methods for complex traits.
Developing search tools in Bioinformatics.
There are 119 papers published in SCI journals with 1820 citations (1430 cited by others).
[SELECTED PUBLICATIONS] 
E1.    Lisa A. Levin, J. Zhu, and Elizabeth L. Creed (1991). The genetic basis of life-history characters in a polychaete exhibiting planktotrophy and lecithothrophy. Evolution, 45(2): 380-397. 
E2.    Shi C. H., and J. Zhu. (1993). Analysis of seed and maternal genetic effects on milling quality characters in indica hybrid rice. Rice Genetics Newsletter, 10: 110-111.
E3.    Zhu J. and B. S. Weir. (1994). Analysis of cytoplasmic and maternal effects: I. a genetic model for diploid plant seeds and animals. Theor. Appl. Genet, 89:153-159.
E4.    Zhu J. and B. S. Weir. (1994). Analysis of cytoplasmic and maternal effects: II. genetic models for triplod endosperms. Theor. Appl. Genet, 89:160-166.
E5.    Zhu J. (1995). Analysis of conditional effects and variance components in developmental genetics. Genetics, 141(4):1633-1639. 
E6.    Shi C. H., and J. Zhu. (1995). Analysis of seed and maternal genetic effects for nutritive quality traits of grain in indica rice. (Chinese Journal of Genetics, 20(3): 173-180.
E7.    Liu S. S., G.-M. Zhang, and J. Zhu. (1995). The influence of temperature variations upon rate of development in insects: an analysis of case studies from the entomological literature. Annals of the Entomological Society of America, 88(2): 107-119 
E8.    Shi C. H., and Zhu Jun (1995). Analysis of seed, cytoplasmic, and maternal genetic effects on rice quality traits. International Rice Research Notes, 20(2): 4.
E9.    Zhu, J. (1996). Analytic Methods for seed models with genotype ´ environment interaction. Chinese Journal of Genetics 23(1): 11-22.
E10.   Zhu J. and B. S. Weir. (1996). Diallel analysis for sex-linked and maternal effects. Theor. Appl. Genet, 92(1):1-9. 
E11.   Zhu J. and B. S. Weir. (1996) Mixed model approaches for diallel analysis based on a bio-model. Genetical Research, 68:233-240.
E12.   Shi C. H., J. M. Xue, Y. G. Yu, X. E. Yang, and J. Zhu (1996). Analysis of genetic effects for nutrient quality traits in indica rice. Theor. Appl. Genet., 92(8):1099-1102. 
E13.   Yan J. Q., Q. Z. Xue and J. Zhu, (1996). Genetic studies of anther culture ability in rice (Oryza sativa L.). Plant Cell, Tissue and Organ Cultural, 45(3): 253-258Fu.
E14.   Shi C. H and J. Zhu. (1996). Study on endomsperm, cytoplasmic and maternal plant genetic effects for nutritive quality traits in indica rice. Rice Genetics Newsletter, 12: 224-225.
E15.   Atchley W. R. and J. Zhu. (1997). Developmental quantitative genetics, conditional epigenetic variability and growth in mice. Genetics 147:765-776.
E16.   Shi C. H., J. Zhu, R. C. Zang and G. L. Chen. (1997). Genetic and heterosis analysis for cooking quality traits of indica rice in different environments. Theor. Appl. Genet., 95:294-300. 
E17.   Shi C. H., J. Zhu (1997). Analysis of genetic and genotype environment interaction effects on heterosis of nutrient quality traits in in indica hybrid rice. International Rice Research Notes, 22(3): 7.
E18.   Yan X. F., S. Y. Xu . Y. H. Xu . J. Zhu (1998). Genetic investigation of contributions of embryo and endosperm genes to malt kolbach index, alpha-amylase activity and wort nitrogen content in barley. Theor. Appl. Genet., 96:(5):709-715.
E19.   Yan, J. Q., J. Zhu, C. X. He, M. Benmoussa, and P. Wu (1998). Quantitative trait loci analysis for developmental behavior of tiller number in rice (Oryza sativa L.) Theor. Appl. Genet., 97:267-274.
E20.   Yan, J. Q., J. Zhu, C. X. He, M. Benmoussa, and P. Wu (1998) Molecular dissection of developmental behavior of plant height in rice (Oryza sativa L.). Genetics 150:1257-1265. 
E21.   Shappley, Z. W., Johnie N. Jenkins, J. Zhu, and Jack C. McCarty, Jr. 1998. Quantitative trait loci associated with agronomic and fiber traits of Upland cotton. J. Cotton Science 2(4): 153-163.
E22.   McCarty, Jr., J. C., J. N. Jenkins and J. Zhu. 1998. Introgression of day-neutral genes in primitive cotton accessions: I. genetic variances and correlations. Crop Sci. 38:1425-1428.
E23.   McCarty, Jr., J. C., J. N. Jenkins and J. Zhu. 1998. Introgression of day-neutral genes in primitive cotton accessions: II. predicted genetic effects. Crop Sci. 38: 1428-1431.
E24.   Shi C. H., and J. Zhu. (1998). Analysis of seed and maternal genetic effects for nutritive quality traits of grain in indica rice. Seed Science and Technique, 26(2): 481-488. 
E25.   Zhu J. and B.S. Weir (1998). Mixed model approaches for genetic analysis of quantitative traits. In Advanced Topics in Biomathematics: Procceedings of International Conference on Mathematical Biology. pp:321 ~330. Edited by L. S. Chen, S. G. Ruan, and J. Zhu, World Scientific Publishing Co., Singapore.
E26.   Benmoussa, M., J. Zhu, J. Q. Yan, C. X. He, and P. Wu (1998). QTL mapping for yield components across environments in rice (Oryza sativa L.). In Advanced Topics in Biomathematics: Procceedings of International Conference on Mathematical Biology. pp:15-20. Edited by L. S. Chen, S. G. Ruan, and J. Zhu, World Scientific Publishing Co., Singapore.
E27.   Yan, J. Q., J. Zhu, C. X. He, M. Benmoussa, and P. Wu (1998). QTL analysis for developmental behavior of plant height in rice (Oryza sativa L.). In Advanced Topics in Biomathematics: Procceedings of International Conference on Mathematical Biology. pp:285-290. Edited by L. S. Chen, S. G. Ruan, and J. Zhu, World Scientific Publishing Co., Singapore. 
E28.   Wu, J. X., H. M. Xu, J. Zhu (1998). An approach to eliminating systematic errors in genetic analysis. In Advanced Topics in Biomathematics: Procceedings of International Conference on Mathematical Biology. PP:265-270. Edited by L. S. Chen, S. G. Ruan, and J. Zhu, World Scientific Publishing Co., Singapore. 
E29.   Lou, X. Y., J. Zhu, Q. D. Zhang, R. C. Zang and Y. Cheng. (1998). A genetic study on the effects of Opaque-2 and polygenes on kernel quality traits in maize. In Advanced Topics in Biomathematics: Procceedings of International Conference on Mathematical Biology. pp:143-148. Edited by L. S. Chen, S. G. Ruan, and J. Zhu, World Scientific Publishing Co., Singapore. 
E30.   Yan, X. F., J. Zhu, S. Y. Xu and Y. H. Xu. (1999). Genetic effects of embryo and endosperm for four malting quality traits of barley. Euphytica, 106: 27-34 
E31.   Shi, C. H., J. Zhu, X. Yang, Y. G. Yu and J. G. Wu. (1999). Genetic analysis for protein content in indica rice. Euphytica , 107: 135-140 
E32.   Chen, J. G. and J. Zhu. (1999). Genetic effects and genotype ´ environment interactions for cooking quality traits in indica-japonica crosses of rice (Oryza sativa L.). Euphytica, 109: 9-15  
E33.   Xu, Z.C., J. Zhu. (1999). An approach for predicting heterosis based on an additive, dominance and additive ´ additive model with environment interaction. Heredity, 82(5):510-517.
E34.   Yan, J. Q., J. Zhu, C. X. He, M. Benmoussa, P. Wu. (1999). Molecular marker-assisted dissection of genotype by environment interaction for plant type traits in rice (Oryza sativa L.). Crop Sci. 39(2): 538-544. 
E35.   Wang, D. L., J. Zhu, Z. K. Li, and A. H. Paterson. (1999).Mapping QTLs with epistatic effects and QTL ´ environment interactions by mixed linear model approaches. Theor. Appl. Genet., 99:1255-1264.
E36.   Shi, C. W., J. Zhu, J.G. Wu, X. E. Yang and Y. G. Yu. (1999). Analysis of embryo, endosperm, cytoplasmic and maternal effects for heterosis of protein and lysine content in indica hybrid rice. Plant Breeding, 1999, 118(6) 574-576
E37.   Shi, C. H., J. Zhu, and Y. G. Yu, (2000). Genotype × environment interaction effects and genotypic correlations for nutrient quality traits of Indica rice (Oryza sativa L.). Indian Journal of Agricultural Science, 70(2): 85-89.
E38.   Hu, J., J. Zhu, and H. M. Xu. (2000). Methods of constructing core collections by stepwise cluster with three sampling strategies based on genotypic values of crops. Theor. Appl. Genet., 101:264-268.
E39.   Shi, C. H., J. Zhu, J. G. Wu and F. L Fan. (2000). Genetic and genotype × environment interaction effects from embryo, endosperm and maternal plant for rice grain shape traits of Indica rice. Field Crop Research 68:191-198.
E40.   Wu J., J. N., Jenkins, J. C. McCarty, Jr., and J. Zhu. (2000). Comparison of QTL mapping properties for two methods of RI development. P. Dugger and D. Richter P565. Proc. Beltwide Cotton Conf. Jan. 4-8. San Antonio, TX.
E41.   Wu J., J. Jenkins J., P. Tan, J. McCarty Jr., J. Zhu, and S. Saha. (2001). Genetic mapping of QTL and DNA markers in Upland cotton (Gossypium hirsutum) using recombinant inbred lines. P218. The International Conference on Plant and Animal Genome IX January 13-17, San Diego, CA.
E42.   Cao, G. Q, J. Zhu , C. X. He, Y. M. Gao, J. Q. Yan, and P. Wu. (2001). Impacts of Epistasis and QTL´Environment Interaction for Developmental Behavior of Plant Height in Rice (Oryza sativa L.). Theor. Appl. Genet.,103:153-160.
E43.   Shi C.H., J.G.Wu, L.J.Fan, J.Zhu, and P.Wu. (2001). Developmental genetic analysis of brown rice weight under different environmental conditions in indica rice. Acta Botanica Sinica,43(6):603-609. 
E44.   Wu, R. L., C. X. Ma, J. Zhu, and G. Casella. (2002). Mapping epigenetic quantitative trait loci (QTL) altering a developmental trajectory. Genome 45:28-33.
E45.   Lou, X. Y., J. Zhu. (2002). Analysis of genetic effects of major genes and polygenes on quantitative traits: I. Genetic model for diploid plants and animals. Theor. Appl. Genet., 104 (2-3):414-421.
E46.   Lou, X. Y., J. Zhu. (2002). Analysis of genetic effects of major genes and polygenes on quantitative traits: II. Genetic model for seed traits of crops. Theor. Appl. Genet., 105: 964-971.
E47.   Shi, C. H., J.G. Wu, X. B. Lou, J. Zhu and P. Wu. (2002). Genetic analysis of transparency and chalkiness area at different filling stages of rice (Oryza sativa L.). Field Crop Research, 76:1-9.
E48.   Ye, Z. H., Z. Z. Lu and J. Zhu. (2003). Genetic analysis for developmental behavior of some seed quality traits in upland cotton (Gossypum hirsutum L.). Euphytica, 129(2):183-191.
E49.   Liu, P. Y., J. Zhu, X. Y. Lou and Y. Lu. (2003). A method for marker-assisted selection based on QTLs with epistatic effects. Genetica, 119: 75-86. 
E50.   Wu, J., J. N. Jenkins, J. Zhu, J. C. McCarty Jr., and C. E. Watson. (2003). Comparisons of quantitative trait locus mapping properties between two methods of recombinant inbred line development. Euphytica, 132: 159-166. 
E51.   Wu, J., J. N. Jenkins, J. Zhu, J. C. McCarty Jr., and C. E. Watson. (2003). Monte Carlo simulations on marker grouping and ordering. Theoretical and Applied Genetics, 107: 568-573. 
E52.   Liu, P., J. Zhu, and L. Yan, (2004). Marker-assisted selection in segregating generations of self-fertilizing crops. Theoretical and Applied Genetics, 109(2): 370-376.
E53.   Zhao, W., J. Zhu, G. M. Maria and R. Wu. (2004). A unified statistical model for functional mapping of environment-dependent genetic expression and genotype × environment interactions for ontogenetic development. Genetics, 168 (3): 1751-1762.
E54.   Wu, J., J. N. Jenkins, J. C. McCarty Jr., and J. Zhu. (2004). Genetic association of yield with its component traits in a recombinant inbred line population of cotton. Euphytica, 140: 171-179. 
E55.   Lu, Y. J. Zhu, and P. Liu. (2005). A two-step strategy for detecting differential gene expression of cDNA microarray data. Current Genetics. 47: 121-131. 
E56.   Yang, J., and J. Zhu. (2005). Methods for predicting superior genotypes under multiple environments based on QTL effects. THeoretical and Applied Genetics, 110: 1268-1274. 
E57.   Wang X. S., W. R. Wu, G. L. Jin, and J. Zhu. (2005). Genome-wide identification of R genes and exploitation of candidate RGA markers in rice. Chinese Science Bulletin, 50 (11): 1120-1125. 
E58.   Lou X. Y,, J. Zhu, Q. D. Zhang, R. C. Zang, Y. B. Chen, Z. L. Yu, and Y. J. Zhao, (2005). Genetic control of the opaque-2 gene and background polygenes over some kernel traits in maize (Zea mays L.). Genetica 124 (2): 291-300. 
E59. Wang X. S., X. Q. Zhao, J. Zhu, and W. R W- (2005). Genome-wide Investigation of Intron Length Polymorphisms and Their Potential as Molecular Markers in Rice (Oryza sativa L.). DNA Research 12, 417-427.
E60. Xu H. M., Y. J. Mei, J. Hu, J. Zhu,  and P. Gong. (2006). Sampling a core collection of island cotton (Gossypium barbadense L.) based on the genotypic values of fiber traits. Genetic Resources and Crop Evolution 53 (3): 515-521. 
E61. Lou, X. Y., J. Z. Ma, M. C. K. Yang, J. Zhu, P. Y. Liu, H. W. Deng, R. C. Elston, and M. D. Li. (2006). Improvement of mapping accuracy by unifying linkage and association analysis. Genetics 172: 647-661. 
E62. Pan G., X. Y. Zhang, K. D. Liu, J. W. Zhang, X. Z. Wu, J. Zhu, J. M. Tu. (2006). Map-based cloning of a novel rice cytochrome P450 gene CYP81A6 that confers resistance to two different classes of herbicides. Plant Mol Biol 61:933-943. 
E63. Cui Y. H., J. Zhu, and R. L. Wu. (2006). Functional mapping for genetic control of programmed cell death. Physiol Genomics 25: 458-469. 
E64. Cui Y. H., D. Y. Kim, and J. Zhu. (2006). On the generalized Poisson regression mixture model for mapping quantitative trait loci with count data. Genetics 174 (4): 2159-2172. 
E65. Xiao, B.G.,J. Zhu, X.P. Lu, Y.F. Bai, Y.P. Li. (2007). Analysis on genetic contribution of agronomic traits to total sugar in flue-cured tobacco (Nicotiana tabacum L.). Field Crops Research. 102(2): 98-103. 
E66. Wang X. S., H. B. Zhu, G. L. Jin, H. L. Liu, W. R. Wu, and J. Zhu. (2007). Genome-scale identification and analysis of LEA genes in rice (Oryza sativa L.). Plant Science 172 (2): 414-420. 
E67. Lou, X. Y., G. B. Chen, L. Yan, J. Z. Ma, J. Zhu, R. C. Elston, and M. D. L. (2007). A generalized combinatorial approach for detecting gene-by-gene and gene-by-environment interactions with application to nicotine dependence. The American Journal of Human Genetics, 80:1125-1137. 
E68. Yang, J., J. Zhu, and R. W. Williams. (2007). Mapping the genetic architecture of complex traits in experimental populations. Bioinformatics, 23: 1527-1536. 
E69. Gao,M., and J. Zhu, (2007). Mapping QTLs with digenic epistasis under multiple environments and predicting heterosis based on QTL effects. Theoretical and Applied Genetics, 115 (3): 325-333. 
E70. Wu, J. S., B. Zhang, Cui YH, et al., (2007). Genetic mapping of developmental instability: Design, model and algorithm. Genetics, 176 (2): 1187-1196. 
E71. Wu, J. S., Y. R. Zeng, J. Q. Huang, et al., (2007). Functional mapping of reaction norms to multiple environmental signals. Genetical Research, 89 (1): 27-38. 
E72. Cui, Y. H., R. L. Wu, G. Casella, and J. Zhu, (2008). Nonparametric functional mapping of quantitative trait loci underlying programmed cell death. Statistical Applications in Genetics and Molecular Biology, 7(1):1-30. 
E73. Liu, G. F., J. Yang, H. M. Xu, Y. Hayat, and J. Zhu, (2008). Genetic analysis of grain yield conditioned on its component traits in rice (Oryza sativa L.). Australian Journal of Agricultural Research, 59: 189–195. 
E74. Yang, J., C. C. Hu, H. Hu, R. D. Yu, Z. Xia, X. Z. Ye, and J. Zhu, (2008). QTLNetwork: mapping and visualizing genetic architecture of complex traits in experimental populations. Bioinformatics  24(5):721-723. 
E75. Yang, J., W. R. Wu, and J. Zhu, (2008). Mapping interspecific genetic architecture in a host–parasite interaction system. Genetics, 178: 1737-1743. 
E76. Han, L, D., H. M. Xu, J. Zhu, and X, Y, Lou, (2008). Analysis of genetic effects of nuclear-cytoplasmic interaction on quantitative traits: Genetic models for seed traits of plants. Theoretical and Applied Genetics, 116(6): 769-776. 
E77. Wang, X., M. Zhang, J. Zhu, S. Geng. (2008). Spectral prediction of Phytophthora infestans infection on tomatoes using artificial neural network (ANN). International Journal of Remote Sensing, 29(6):1693-1706. 
E78. Han, L. D., J. Zhu. (2008). Using matrix of thresholding partial correlation coefficients to infer regulatory network. Biosystems, 91(1): 158-165. 
E79. Cui, Y. H., R. L. Wu, G. Casella, and J. Zhu. (2008). Nonparametric functional mapping of quantitative trait loci underlying programmed cell death. Statistical Applications in Genetics and Molecular Biology, 7(1): Article 4. 
E80. Lou, X. Y., G. B. Chen, L. Yan, J. Z. Ma, J. Zhu, R. C. Elston, and M. D. Li, (2008). A combinatorial approach to detecting gene-gene and gene-environment interactions in family studies. The American Journal of Human Genetics, 83: 457-467. 
E81. Chen, G. B., T. J. Payne, X. Y. Lou, J. Z. Ma, J Zhu, and M. D. Li. (2008). Association of amyloid precursor protein-binding protein, family B, member 1 with nicotine dependence in African and European American smokers. Hum Genet, 124:393–39. 
E82. Hayat, Y., J. Yang, H. M. Xu, and J. Zhu. (2008). Influence of outliers on QTL mapping for complex traits. Journal of Zhejiang University (SCIENCE) B, 9(12): 931-937. 
E83. Wu, J. X., O. A. Gutierrez, J. N. Jenkins, J. C. McCarty, and J. Zhu. (2009). Quantitative analysis and QTL mapping for agronomic and fiber traits in an RI population of upland cotton. EUPHYTICA, 165(2): 231-245. 
E84. Yang, J., Y. Y. Zou, and J. Zhu. (2009). Identifying differentially expressed genes in human acute leukemia and mouse brain microarray datasets utilizing QTModel. Functional & Integrative Genomics, 9(1):59-66. 
E85. Zhang, W. Y., H. M. Xu, and J. Zhu. (2009). Index selection on seed traits under direct, cytoplasmic and maternal effects in multiple environments. Journal of Genetics and Genomics, 36(1):41-4. 
E86. Xia, Z., Z. H. Zhu, J. Zhu, and R. H. Zhou. (2009). Recognition mechanism of siRNA by Viral p19 suppressor of RNA silencing: A molecular dynamics study. Biophysical Journal, 96:1761-1769.
E87. Weir, B. S, W. G. Hill, J. Zhu, and Z. B. Zeng. (2009). The third international conference of quantitative genetics. Genetica, 136(2): 211-212.
E88. Gong, Y. G., C. N. Wue, Q. H. Xing, X. Z. Zhao, J. Zhu, and L. He. (2009). A two-method meta-analysis of Neuregulin 1(NRG1) association and heterogeneity in schizophrenia. Schizophrenia Research, 111(1-3): 109-114.
E89. Xia, Z., G. L. Jin, J. Zhu, and R. H. Zhou. (2009). Using a mutual information based site transition network to map the genetic evolution of influenza A/H3N2 virus. Bioinformatics, 25 (18): 2309–2317.
E90. Shen, Y. F. and J. Zhu. (2009). Power analysis of principal components regression in genetic association studies. Journal of Zhejiang University-Science B, 10(10): 721-730.
E91. Gong Y.G.,C.N.Wue,Q.H.Xing,X.Z.Zhao,J.Zhua,and L. He. (2009). A two-method meta-analysis of Neuregulin 1(NRG1) association and heterogeneity in schizophrenia. Schizophrenia Research,111(1-3): 109-114.
E92. Zhao, M., H. G. Yu, and J. Zhu. (2009). Effects of a population floor on the persistence of chaos in a mutual interference host-parasitoid model. Chaos Solitons & Fractals, 42: 1245-1250. 
E93. Zheng, W. J., J. Yang, and J. Zhu. (2010). QTLNetworkR: an interactive R package for QTL visualization. Journal of Zhejiang University-Science B, 11(7): 512-515. 
E94. Liu, H. L., J. Zhu. (2010).Analysis of the 3' ends of tRNA as the cause of insertion sites of foreign DNA in Prochlorococcus. Journal of Zhejiang University-Science B,11(9):708-718. 
E95. Zhao, M., L. M. Zhang, and J. Zhu. (2010). Dynamics of a host-parasitoid model with prolonged diapause for parasitoid. Communications in Nonlinear Science and Numerical Simulation, 16(1): 455-462. 
E96. Shen, Y. F., Z. Y. Lin, and J. Zhu. (2011). Shrinkage-based regularization tests for high-dimensional data with application to gene set analysis. Computational Statistics & Data Analysis, 55(7): 2221-2233. 
E97. Chen G. P., Y. Xu, H. M. Xu, M. D. Li, J. Zhu, and X. Y. Lou. (2011). Practical and Theoretical Considerations in Study Design for Detecting Gene-Gene Interactions Using MDR and GMDR Approaches. PLoS ONE, 6(2): e16981.
E98. Liu Y, H. Xu, S. Chen, X. Chen, Z. Zhang, Z. H. Zhu, X. Y. Qin, L. Hu, J. Zhu, G.P. Zhao, and X. Y. Kong. (2011). Genome-wide interaction-based association analysis identified multiple new susceptibility loci for common diseases. PLoS Genet, 7(3): e1001338.  
E99. Ye C. Y., Y. H. Cui, C. S. Wei, R. C. Elston, J. Zhu, and Q. Lu. (2011). A non-parametric method for building predictive genetic tests on high-dimensional data. Human Heredity, 71:161-170. 
E100. Shen Y. F., Z. Y. Lin, and J. Zhu (2011) Penalized independence rule for testing high-dimensional hypotheses. Communications in Statistics - Theory and Methods, 40:13, 2424-2435   
E101. Wu, C., Li, G. X. Zhu, J. and Cui, Y. H. (2011). Functional mapping of dynamic traits with robust t-distribution. PLoS ONE, 6(9): e24902.
E102. Chen G.P., J. Zhu, and X.Y. Lou. (2011). A faster pedigree-based generalized multifactor dimensionality reduction method for detecting gene-gene interactions. (2011). Stat Interface. 1; 4(3): 295-304
E103. Xu L., M. Henke, J. Zhu, W. Kurth, and G. Buck-Sorlin. (2011). A functional-structural model of rice linking quantitative genetic information with morphological development and physiological processes. (2011). Annals of Botany, 107 (5), 817-828
E104. Zhao M., X. Wang, H. Yu, and J. Zhu. (2011). Dynamics of an ecological model with impulsive control strategy and distributed time delay. Mathematics and Computers in Simulation, 82(8):1432-1444
E105. Cao P., K. H. Jung, D. Choi, D. Hwang, J. Zhu, and PC Ronald. (2012). The rice oligonucleotide array database: an atlas of rice gene expression. Rice, doi:10.1186/1939-8433-5-17 
E106. Zhu Z. H., C. H. Zhang, X. S. Wang, M. N. Cook, R. Williams, L. Lu, and J. Zhu. (2012). Dissecting anxiety-related QTLs in mice by univariate and multivariate mapping. Chinese Science Bulletin, 57 (21), 2727-2732
E107. Yang D. G., C. Y. Ye, X. F. Ma, Z. H. Zhu, X. J. Zhou, H. F. Wang, Q. Q. Meng, X. Y. Pei, S. X. Yu, and J. Zhu. (2012). A new approach to dissecting complex traits by combining quantitative trait transcript (QTT) mapping and diallel cross analysis. Chinese Science Bulletin, 57 (21), 2695-2700.
E108. Chen G. B., Z. X. Zhu, F. T. Zhang, and J. Zhu. (2012). Quantitative genetic analysis station for the genetic analysis of complex traits. Chinese Science Bulletin, 57 (21), 27212726
E109. Xu H. M. and J. Zhu. (2012). Statistical approaches in QTL mapping and molecular breeding for complex traits. 57 (21), Chinese Science Bulletin, 57 (21), 2637-2644
E110. L. F. Xu, W. L. Ding, M. Henke, W. Kurth,J. Zhu,and G. B. Sorlin. (2012). Simulating Superior Genotypes for Plant Height based on QTLs: Towards Virtual Breeding of Rice. IEEE 4th International Symposium on Plant Growth Modeling, Simulation, Visualization and Applications. 
E111. Zhu Z. X., X. R. Tong, Z. H. Zhu, M. M. Liang, W. Y. Cui, K. K. Su, M. D. Li, J. Zhu. (2013).  Development of GMDR-GPU for gene-gene interaction analysis and its application to WTCCC GWAS data for type 2 diabetes. PLoS ONE, 8(4) e61943
E112. Wei H. L., Li W., Sun X.W., Zhu S.J., J. Zhu. (2013). Systematic analysis and comparison of nucleotide-binding site disease resistance genes in a diploid cotton Gossypium raimondii. PLoS ONE, 8(8):e68435
E113. Zhou L.Y., Li R.Y., Fan L.J., Shi Y.W., Wang Z.H., Xie S.D., Gui Y.J., Ren X.L., J. Zhua. (2013). Mapping epistasis and environment × QTX interaction based on four-omics genotypes for the detected QTX loci controlling complex traits in tobacco. The Crop Journal, http://dx.doi.org/10.1016/j.cj.2013.09.001
E114. Jia Y. H., Sun X. W., Sun J. L., Pan Z. E., Wang X. W. 1, He S. P., Xiao S. H., Shi W. J., Zhou Z. L., Ping B. Y., Wang L. R., Liu J. G., Ma J., Du X. M., J. Zhu. (2014). Association mapping for epistasis and environmental interaction of yield traits in 323 cotton cultivars under 9 different environments. PLoS ONE, 9(5):e95882
E115. Zhang F. T., Zhu Z. H., Tong X. R., Zhu Z. X., Qi T., Zhu J. (2015). Mixed Linear Model Approaches of Association Mapping for Complex Traits Based on Omics Variants. Scientific Reports, 5:10298
E116. Liang M. M., Zhang F. T., Jin G. L., J Zhu. (2015). FastGCN: A GPU accelerated tool for fast gene co-expression networks. PLoS ONE,  DOI:10.1371
E117. Gang Chen, Futao Zhang, Wenda Xue, Ruyan Wu, Haiming Xu, Kesheng Wang. Jun Zhu. (2016). An association study revealed substantial effects of dominance, epistasis and substance dependence co-morbidity on alcohol dependence symptom count. Addiction Biologydoi:10.1111/adb.12402
E118. Mei Y, Yu J, Xue A, Fan S, Song M, Pang, C, et al. (2017). Dissecting genetic network of fruit branch traits in Upland cotton by association mapping using SSR markers. PLoS ONE, 12(1): e0162815
E119. Md. Mamun Monir & Jun Zhu. (2017). Comparing GWAS results of complex traits using full genetic model and additive models for revealing genetic architecture. Scientific Reports, 7:38600 | DOI: 10.1038/srep38600
E120. Xiang Luo, Yi Ding, Linzhong Zhang, Yao Yue, John H. Snyder, Chaozhi Ma, Jun Zhu. (2017)Genomic prediction of genotypic effects with epistasis and environment interactions for yield-related traits of rapeseed (Brassica napus L.). Frontiers in Genetics,  DOI: 10.3389/fgene.2017.00015
C1. 季道藩、曾广文、朱军. (1985). 四个栽培棉种的种仁油分和氨基酸成分的分析. 作物学报. 11(3): 257-262
C2. 朱军、季道藩. (1987). 陆地棉产量性状的双列分析. 生物数学学报. 13(3): 280-287
C3. 季道藩、朱军. (1988). 陆地棉品种间杂种的种仁油分和氨基酸成分的遗传分析. 作物学报. 14(1): 1-6
C4. 朱军. (1992). Mixed model approaches for estimating genetic variances and covariances. 植物学报. 7(1): 1-11
C5. 石春海、朱军. (1992). 籼型杂交稻碾磨品质的遗传分析. 遗传.  7(4):37-45
C6. 朱军. (1993). 作物杂种后代基因型值和杂种优势的预测方法. 浙江大学学报(农业与生命科学版). 8(1):32-44
C7. 朱军. (1993). Mixed model approaches for estimating covariances between two traits with unequal design matrices. 浙江大学学报(农业与生命科学版).  8(3):24-30
C8. 朱军、季道藩、许馥华. (1993). 作物品种间杂种优势遗传分析的新方法. 遗传学报. 20(3): 262-271
C9. 石春海、朱军. (1993). 籼型杂交稻外观品质的遗传分析. 遗传. 增刊 19(上): 69-74
C10. 吴吉祥、朱军、许馥华. (1993). 陆地棉F2产量性状杂种优势的遗传分析及其预测. 生物数学学报. 19(增刊):(下):95-99
C11. 朱军、许馥华、赖鸣冈. (1993). 作物品种区域试验非平衡资料的分析方法:单一性状的分析. 棉花学报. 19(1):7-13
C12. 朱军、赖鸣冈、许馥华. (1993). 作物品种区域试验非平衡资料的分析方法:综合性状的分析. 浙江大学学报(农业与生命科学版).  19(3):241-247
C13. 朱军、季道藩、许馥华. (1993). 棉株不同果枝节位开花和成铃的遗传分析. Journal of Zhejiang University (Science).   5(1): 25-32
C14. 朱军、许馥华. (1994). 胚乳性状的遗传模型及其分析方法. 生物数学学报. 20(3): 264-270
C15. 朱军和Weir. (1994). Clustering populations by mixed linear models. 作物学报.  9(3): 1-14
C16. 石春海、朱军. (1994). 籼稻稻米蒸煮品质的种子和母体遗传效应分析. 遗传学报.  8(3):129-134
C17. 朱军. (1994). 广义遗传模型与数量遗传分析新方法. 作物学报. 20(6):551-559
C18. 吴吉祥、朱军. (1994). 不同环境下作物基因型值和杂种优势的分析方法. 中国水稻科学.  20(6):587-592
C19. 石春海、朱军. (1994). 籼稻稻米外观品质与其它品质性状的相关性分析. 农业生物技术学报.  20(6):606-610
C20. 朱军、段家龙. (1994). Genetic models and analysis methods for sex-linked and maternal gene effects. 生物数学学报. 9(4):1-9
C21. 段家龙、朱军. (1994). 家蚕茧质性状的基因效应分析. 生物数学学报. 9(4): 10-17
C22. 徐绍英、陈文华、张伟梅、朱军、蔡仁祥. (1994). 二棱大麦籽粒外观品质性状的遗传研究. 浙江大学学报(农业与生命科学版).  20(6):593-598
C23. 吴吉祥、朱军、郑寨生、刘新华、于海富、陈晓阳. (1995). 籼型杂交晚稻农艺性状及综合性状的分析. 河南农业大学学报.  9(4):199-204
C24. 石春海、朱军. (1995). Analysis of seed and maternal genetic effects on milling quality characters in indica hybrid rice. 遗传学报.  10(3):15-20
C25. 石春海、朱军. (1995). 稻米营养品质种子效应和母体效应的遗传分析. Journal of Zhejiang University (SCIENCE).   22(5): 372-379
C26. 吴吉祥、王国建、朱军、季道藩、许馥华. (1995). 陆地棉种子性状的直接效应和母体效应的遗传分析. Genomics, Proteomics & Bioinformatics.   21(6):659-664
C27. 吴吉祥、朱军、季道藩、许馥华. (1995). 陆地棉产量性状的遗传及其与环境互作的分析. 生命科学.  17(5): 1-4
C28. 吴吉祥、朱军、许馥华、季道藩. (1995). 陆地棉F2纤维品质性状杂种优势的遗传分析. 作物学报.  7(4):217-222
C29. 朱军. (1996). 包括基因型×环境互作效应的种子遗传模型及其分析方法. 生物信息学.  23(1):56-68
C30. 石春海、朱军. (1996). 籼稻稻米外观品质的细胞质、母体和胚乳遗传效应分析. 浙江大学学报(农业与生命科学版).  1996 11 (1)73-81
C31. 石春海和朱军. (1996). 籼稻稻米品质的遗传效应和相关分析. 浙江大学学报(农业与生命科学版).  主编:朱军、吴平、陈昆松 
C32. 石春海、杨肖娥、薛建明、余永贵和朱军. (1996). 种子、细胞质和母体遗传效应对籼型稻杂交稻稻米营养品质杂种优势的影响. 浙江大学学报(农业与生命科学版).  1996(1): 23-27
C33. 石春海和朱军. (1996). 稻米营养品质性状的间接选择和遗传改良. 遗传学报.  11(2): 89-96
C34. 王国建、朱军、臧荣春、许馥华、季道藩. (1996). 陆地棉种子品质性状与棉花产量性状的遗传相关性分析. Journal of Zhejiang University (SCIENCE). 8(6):295-300
C35. 王国建、朱军、臧荣春、许馥华、季道藩. (1996). 陆地棉棉仁营养品质及种子物理性状的遗传相关分析. Genomics, Proteomics & Bioinformatics (GPB).  22(6):585-590
C36. 徐绍英、闫新甫、许梓荣、朱军. (1996). 二棱大麦籽粒非必需氨基酸含量的遗传分析. 遗传学报.  22(6):567-573
C37. 石春海、余永贵、薛建明、杨肖娥和朱军. (1996). Genetic correlation analysis of seed  cytoplasm and maternal plant for nutrient quality in indica rice. 遗传学报. 10(3): 143-146
C38. 闫新甫、徐绍英、李卫芬、陈浩军、朱军. (1997). 二棱大麦七种必需氨基酸含量的种子和母体遗传效应分析. 遗传学报.  30(2):34-41
C39. 朱军、王国建、臧荣春. (1997). Genetic analysis on gene effects and GE interaction effects for kernel nutrient quality traits of Upland cotton. 中国水稻科学.  12(2):111-120
C40. 沈圣泉、朱军. (1997). 籼粳杂种主要性状的遗传及其与环境互作效应. 作物学报.  23(2):217-222
C41. 石春海和朱军. (1997). 水稻植株农艺性状与稻米碾磨品质的遗传相关性分析. 生物数学学报.  23(3):331-337
C42. 陈建国、朱军. (1997). 籼梗杂交稻米品质性状与农艺性状之间的遗传协方差分析. 遗传学报. 19(2): 278-282
C43. 闫新甫、徐绍英、朱军、徐新宇. (1998). 麦芽品质性状的遗传模型及其分析方法. 遗传.  13(4): 531-536
C44. 陈建国、朱军. (1998). 籼梗杂交稻米外观品质性状的遗传及基因型x环境互作效应的研究. 中国农业科学.  31(4):1-7
C45. 陈建国、朱军、臧荣春. (1998). 籼梗亚种间杂交稻米脂肪含量的遗传分析. J Zhejiang Univ SCIENCE B.  6(4): 347-351 
C46. 石春海、何慈信、朱军. (1998). 稻米碾磨品质性状遗传主效应及其与环境互作的遗传分析. 浙江大学学报(农业与生命科学版).   25(1):46-53
C47. 徐绍英、闫新甫、陈庆良、李碧秋、朱军. (1998). 二棱大麦熟期性状的遗传研究. 中国烟草学报.  13 (1):75-79
C48. 朱军. (1998). 数量性状基因定位的混合线性模型分析方法. J Zhejiang Univ SCIENCE A.  20(增刊):137-138
C49. 朱军. (1998). 复杂数量性状基因定位的混合模型方法. 遗传学报.  PP19-20
C50. 许自成、朱军. (1998). 三交设计种子数量性状的遗传模型. 遗传学报. 13(6):1015-1021
C51. 石春海、朱军、余永贵、杨肖娥、薛建明. (1998).  基因型与环境互作效应对籼型杂交稻稻米营养品质杂种优势的影响. 中国水稻科学.  13(6):1035-1041
C52. 王学德、朱军. (1998). 排除酚类物质干扰提取棉苗线粒体DNA的简易方法. 作物学报. 10(4): 205-209
C53. 吴吉祥、朱军. (1998). 陆地棉F2产量性状杂种优势及与环境互作的预测. 作物学报. 14(5): 343-347  
C54. 徐绍英、闫新甫、朱军、许永汉、徐新宇. (1999). 啤酒大麦糖化力及其有关酿造品质性状的胚和胚乳遗传效应分析. 浙江大学学报(农业与生命科学版). 25(1): 25-31
C55. 陈青、朱军、吴吉祥. (1999). 陆地棉(Gossypium hirsutum L.)不同铃期单株成铃数和籽棉产量的遗传动态分析. 浙江大学学报(农业与生命科学版. 25(2):155-160
C56. 朱军. (1999). 运用混合线性模型定位复杂数量性状基因的方法. Journal of Zhejiang University (Agric畅& Life Sci畅). 33(3):327-335
C57. 陈建国、朱军. (1999). 籼梗交稻米蛋白质含量的基因型与环境互作效应的分析. Journal of Zhejiang University (Agric. & Life Sci.).  25(5):579-584
C58. Wang Daolong (王道龙):  Zhu Jun (朱军):  and Li Zhikang (黎志康):. (1999). Simulation studies on identification of interaction markers representing QTL epistasis by stepwise regression (用逐步回归鉴别上位性互做标记的模拟研究):. Journal of Zhejiang University (Agric. & Life Sci.) .  25(5):453-461 
C59. 石春海、何慈信、朱军、陈建国. (1999). Analysis of genetic effects and genotype × environment interaction effects for apparent quality traits of indica rice . Journal of Zhejiang University (Agric. & Life Sci.) . 13(3):179-182 
C60. 王洪刚、朱军. (1999). 中间偃麦草与小麦杂交后代的细胞遗传学及性状特点的研究. Journal of Zhejiang University (Agric. & Life Sci.) .  25(3):373-380
Research work

Genetics & Plant Breeding - Statistic Genetics - Bioinformatics - Complex Traits