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苏震
发布日期：2018-09-14 浏览次数：　　信息来源：生物学院

教师简介

姓名：苏震
性别：男
系别：植物科学
职称：教授
学位：博士











苏震 教授，美国亚利桑那大学环境科学博士，副修材料工程专业，主要从事计算机分子模拟和生物信息数据挖掘的研究。1990至2004年其间，先后就职于中国科学院生物物理所、Torrey Mesa Research Institute、ActivX Biosciences，Inc.、Syngenta Biotechnology, Inc.。自2004年起，建立中国农业大学生物信息平台，参与功能基因组中心建设, 开展农业生物信息学和植物分子系统生物学的研究。


课题组主要研究方向为：

（1）整合基因组学、转录组学、表观基因组学、蛋白质组学和代谢组学等综合信息，构建重要动植物功能基因组综合信息平台；

（2）通过对大规模表观基因组和转录组数据分析，研究基因表达调控机制；

（3）以系统生物学和分子生物学手段，在跨平台数据挖掘的基础上，展开与植物生长发育及应答逆境胁迫等相关的功能基因研究。


学习与工作经历

1990年毕业于北京农业大学应用物理专业，获理学士学位。1990至1997在中国科学院生物物理所细胞生物物理室工作，1994年起任助理研究员，从事光生物物理和辐射生物物理等领域的研究，其间发表论文20余篇。1997至2003就读于美国亚利桑那大学农业与生命科学学院，获得环境科学专业博士学位，副修材料工程专业，主要从事计算机分子模拟和生物信息数据挖掘的研究；其间自2001年起，先后就职于美国 TORREY MESA生物技术研究所（2001-2002，Bioinformatics Programmer）、ActivX生物医学公司（2002-2003，Bioinformatics Specialist）和Syngenta生物技术公司（2003-2004，Bioinformatics Scientist），从事功能基因组学和蛋白组学研究并负责基因芯片实验室信息管理系统的管理、维护和数据挖掘。

从2004年5月到中国农业大学至今，建立生物信息平台并在中国农业大学招收生物信息学专业的研究生；参与中国农业大学功能基因组中心建设，为转录组学和蛋白质组学平台提供实验管理和数据分析支撑。研发以植物基因功能注释为主的分析工具，构建一个数据整合与挖掘平台，并在此基础上展开植物分子系统生物学的研究。


研究方向

（1）整合基因组学、转录组学、表观基因组学、蛋白质组学和代谢组学等综合信息，构建重要动植物功能基因组综合信息平台

随着高通量技术的发展与应用，公共数据库中的组学数据比任何一个实验室能产生的数据都多，具有更丰富的知识含量，并将提供更开阔的生物学研究视角。然而，信息的海量积累和技术平台的多样性给数据处理带来了多重挑战，急需数据整合的方法和思路。本课题组针对农业生物学研究的需求，已公开发布20余个数据库和网络服务。

（2）通过对大规模表观基因组和转录组数据分析，研究基因表达调控机制

构建了识别节律性基因表达的算法ARSER/LSPR，并应用于拟南芥和水稻高通量时序基因表达谱分析； 利用ChIP-seq手段绘制了水稻callus和seedling组织的H2A.Z组蛋白变体的表观基因组学图谱 ，较为系统地分析了其在不同组织和不同时间下的分布特征，以及对基因表达的调控作用；通过对表观基因组学数据整合分析，挖掘水稻 、棉花等基因组中新的转录本；利用DNase-Seq手段研究了拟南芥在长时间黑暗处理下染色质结构的变化特征；等等。

（3）以系统生物学手段，在跨平台数据挖掘的基础上，展开与植物生长发育及应答逆境胁迫等相关的功能基因研究

系统研究水稻和拟南芥SPX基因影响生长发育和环境应答的分子机制；探索拟南芥和棉花JAZ家族基因在 叶片衰老和水分胁迫适应性的分子机制；对植物时序（如昼夜节律变化，叶片衰老等）的动态基因表达调控和表观遗传变化的规律进行探索，以期发现时序转录调控的关键因子，并尝试跨物种表观基因组比较分析（包括拟南芥、水稻 、棉花和玉米等）。


主讲课程

《生物信息学》（本科生）

《生物信息学算法》（研究生）

《现代生命科学研究技术》（研究生）


联系方式

电话：62731380/62734385
邮件：zhensu at cau.edu.cn
通讯地址：生命科学大楼2059/2063


发表文章

  1. Tian Tian, Qi You, Hengyu Yan, Wenying Xu, Zhen Su. (2018). MCENet: A database for maize conditional co-expression network and network characterization collaborated with multi-dimensional omics levels. Journal of Genetics and Genomics. Accepted. doi:10.1016/j.jgg.2018.05.007.

  2. Zhaobin Dong, Juan Yu, Hui Li, Wei Huang, Ling Xu, Yue Zhao, Tao Zhang, Wenying Xu, Jiming Jiang, Zhen Su, Weiwei Jin. (2018). Transcriptional and epigenetic adaptation of maize chromosomes in Oat-Maize addition lines. Nucleic Acids Research. 46: 5012–5028. doi:10.1093/nar/gky209.

  3. Yue Liu, Tian Tian, Kang Zhang, Qi You, Hengyu Yan, Nannan Zhao, Xin Yi, Wenying Xu, Zhen Su. (2017). PCSD: A plant chromatin state database. Nucleic Acids Research. 46: D1157-D1167. doi:10.1093/nar/gkx919.

  4. Hansheng Zhao, Shancen Zhao, International Network for Bamboo and Rattan, Benhua Fei, Huan Liu, Huanming Yang, Honghai Dai, DanWang, Wei Jin, Feng Tang, Qiang Gao, Hang Xun, Yuwei Wang, Lianghua Qi, Xianghua Yue, Shuyan Lin, Lianfeng Gu, Lubin Li, Tiansheng Zhu, Qiang Wei, Zhen Su, Tarmeze Bin Wanoup Ariffin Wan, Daniel A. Ofori, George Mbeva Muthike, Yigardu Mulatu Mengesha, Roberto Magno de Castro e Silva, Antonio Ludovico Beraldo, Zhimin Gao, Xin Liu, Zehui Jiang. (2017). Announcing the Genome Atlas of Bamboo and Rattan (GABR) project: promoting research in evolution and in economically and ecologically beneficial plants. GigaScience. 6: 1–7. doi:10.1093/gigascience/gix046.

  5. Qi You, Xin Yi, Kang Zhang, Chunchao Wang, Xuelian Ma, Xueyan Zhang, Wenying Xu, Fuguang Li, Zhen Su. (2017). Genome-wide comparative analysis of H3K4me3 profiles between diploid and allotetraploid cotton to refine genome annotation. Scientific Reports. doi:10.1038/s41598-017-09680-6.

  6. Yue Liu, Wenli Zhang, Kang Zhang, Qi You, Hengyu Yan, Yuannian Jiao, Jiming Jiang, Wenying Xu, Zhen Su. (2017). Genome-wide mapping of DNase I hypersensitive sites reveals chromatin accessibility changes in Arabidopsis euchromatin and heterochromatin regions under extended darkness. Scientific Reports. doi:10.1038/s41598-017-04524-9.

  7. Tian Tian, Yue Liu, Hengyu Yan, Qi You, Xin Yi, Zhou Du, Wenying Xu, Zhen Su. (2017). agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update. Nucleic Acids Research. 45: W122-W129. doi:10.1093/nar/gkx382.

  8. Kang Zhang, Wenying Xu, Chunchao Wang, Xin Yi, Zhen Su. (2017). Differential deposition of H2A.Z in rice seedling tissue during the day-night cycle. Plant Signaling & Behavior.  doi:10.1080/15592324.2017.1286438.

  9. Qi You, Hengyu Yan, Yue Liu, Xin Yi, Kang Zhang, Wenying Xu and Zhen Su. (2016). A systemic identification approach for primary transcription start site of Arabidopsis miRNAs from multidimensional omics data. Functional & Integrative Genomics. doi:10.1007/s10142-016-0541-9.

  10. Qi You, Wenying Xu, Kang Zhang, Liwei Zhang, Xin Yi, Dongxia Yao, Chunchao Wang, Xueyan Zhang, Xinhua Zhao, Nicholas Provart, Fuguang Li, Zhen Su. (2016). ccNET: Database of co-expression networks with functional modules for diploid and polyploid Gossypium. Nucleic Acids Research. 46: D1157-D1167. doi:10.1093/nar/gkw910.

  11. Qi You, Liwei Zhang, Xin Yi, Kang Zhang, Dongxia Yao, Xueyan Zhang, Qianhua Wang, Xinhua Zhao, Yi Ling, Wenying Xu, Fuguang Li, Zhen Su. (2016). Co-expression network analyses identify functional modules associated with development and stress response in Gossypium arboreum. Scientific Reports. 6, 38436; doi:10.1038/srep38436.

  12. Zhang, K., Xu, W., Wang, C., Yi, X., Zhang, W. and Su, Z. (2016). Differential deposition of H2A.Z in combination with histone modifications within related genes in rice callus and seedling. Plant J.  doi:10.1111/tpj.13381.

  13. Yuan Fang, Lei Wang, Ximeng Wang, Qi You, Xiucai Pan, Jin Xiao, Xiu-e Wang, Yufeng Wu, Zhen Su, Wenli Zhang (2016). Histone modifications facilitate the coexpression of bidirectional promoters in rice. BMC Genomics. 17:768 doi: 10.1186/s12864-016-3125-0.

  14. Tian Tian, Qi You, Liwei Zhang, Xin Yi, Hengyu Yan, Wenying Xu, Zhen Su (2016). SorghumFDB: Sorghum Functional Genomics Database with multidimensional network analysis. Database doi:10.1093/database/baw099.

  15. Xin Ma, Yongcai Fu, Xinhui Zhao, Liyun Jiang, Zuofeng Zhu, Ping Gu, Wenying Xu, Zhen Su, Chuanqing Sun & Lubin Tan (2016). Genomic structure analysis of a set of Oryza nivara introgression lines and identification of yield associated QTLs using whole genome resequencing. Scientific Reports   doi: 10.1038/srep27425.

  16. Kang Zhang, Qian Song, Qiang Wei, Chunchao Wang, Liwei Zhang, Wenying Xu, Zhen Su (2016). Down-regulation of OsSPX1 caused semi-male sterility, resulting in reduction of grain yield in rice. Plant Biotechnology Journal   doi: 10.1111/pbi.12527.

  17. Juan Yu, Yixiang Zhang, Chao Di, Qunlian Zhang, Kang Zhang, Chunchao Wang, Qi You, Hong Yan, Susie Dai, Joshua Yuan, Wenying Xu, and Zhen Su (2015). JAZ7 negatively regulates dark-induced leaf senescence in Arabidopsis. Journal of Experimental Botany doi:10.1093/jxb/erv487.

  18. Zhenyan Miao; Wei Xu; Daofeng Li; Xiaona Hu; Jiaxing Liu; Rongxue Zhang; Zongyong Tong; Jiangli Dong; Zhen Su; Liwei Zhang; Min Sun; Wenjie Li; Zhenglin Du; Songnian Hu; Tao Wang (2015). De novo transcriptome analysis of Medicago falcata reveals novel insights about the mechanisms underlying abiotic stress-responsive pathway. BMC Genomics 16:818. doi:10.1186/s12864-015-2019-x.

  19. Xu W, Di C, Zhou S, Liu J, Li L, Liu F, Yang X, Ling Y and Su Z (2015). Rice Transcriptome Analysis to Identify Possible Herbicide Quinclorac Detoxification Genes. Front. Genet. 6:306. doi: 10.3389/fgene.2015.00306.

  20. Jinyan Guo, Gongyao Shi, Liwei Zhang, Wenying Xu, Yumei Wang, Zhen Su, Jinping Hua. (2015) Transcriptome analysis reveals that distinct metabolic pathways operate in salt-tolerant and salt-sensitive upland cotton varieties subjected to salinity stress. Plant Science. doi:10.1016/j.plantsci.2015.05.013.

  21. Liwei Zhang, Jinyan Guo, Qi You, Xin Yi, Yi Ling, WenyingXu, Jinping Hua, Zhen Su. (2015) GraP: Platform for Functional Genomics Analysis of Gossypium raimondii. Database. doi:10.1093/database/bav047.

  22. Qi You, Liwei Zhang, Xin Yi, Zhenghai Zhang, Wengying Xu, and Zhen Su. (2015) SIFGD: Setaria italica Functional Genomics Database. Molecular Plant. doi:10.1016/j.molp.2015.02.001.

  23. Xin Yi, Zhenhai Zhang, Yi Ling, Wenying Xu, Zhen Su. (2015) PNRD: A plant non-coding RNA database. Nucleic Acids Research. 43: D982-D989.

  24. Yonglu Meng, Nan Ma, Qian Zhang, Qi You, Na Li, Muhammad Ali Khan, Xiaojing Liu, Lin Wu, Zhen Su and Junping Gao. (2014) Precise Spatio-Temporal modulation of ACC Synthase by MPK6 Cascade Mediates the Response of Rose Flower to Rehydration. The Plant Journal.  doi:10.1111/tpj.12594.

  25. Juan Yu, Zhenhai Zhang, Jiangang Wei, Yi Ling, Wenying Xu and Zhen Su. (2014) SFGD: a comprehensive platform for mining functional information from soybean transcriptome data and its use in identifying acyl-lipid metabolism pathways. BMC Genomics.  15:271.

  26. Chunchao Wang, Qiang Wei, Kang Zhang, Ling Wang, Fengxia Liu, Linna Zhao, Yuanjun Tan, Chao Di, Hong Yan, Jingjuan Yu, Chuanqing Sun, Wenqiong J Chen, Wenying Xu, Zhen Su. (2013) Down-regulation of OsSPX1 causes high sensitivity to cold and oxidative stresses in rice seedlings. PLoS ONE.  doi:10.1371/journal.pone.0081849.

  27. Du Z, Fei T, Verhaak RGW, Su Z, Zhang Y, Brown M, Chen C, Liu XS. (2013) An integrated approach to identify clinically relevant long non-coding RNAs (IncRNAs) in cancer. Nat Struct Mol Biol.  doi:10.1038/nsmb.2591.

  28. Xin Yi, Zhou Du, Zhen Su. (2013) PlantGSEA: a Gene Set Enrichment Analysis toolkit for plant community. Nucleic Acids Research.  41: W98-W103.

  29. Zhou Du, Hui Li, Qiang Wei, Xin Zhao, Chunchao Wang, Qilin Zhu, Xin Yi, Wenying Xu, X. Shirley Liu, Weiwei Jin, Zhen Su. (2013) Genome-wide analysis of histone modifications: H3K4me2, H3K4me3, H3K9ac and H3K27ac, in Oryza sativa L. japonica. Molecular Plant. doi:10.1093/mp/sst018.

  30. Xueyan Zhang, Dongxia Yao, Qianhua Wang, Wenying Xu, Qiang Wei, Chunchao Wang, Chuanliang Liu, Chaojun Zhang, Hong Yan, Yi Ling, Zhen Su, Fuguang Li. (2013) mRNA-seq analysis of the Gossypium arboreum transcriptome reveals tissue selective signaling in response to water stress during seedling stage. PLoS ONE. doi:10.1371/journal.pone.0054762.

  31. Fengxia Liu, Wenying Xu, Qian Song, Lubin Tan, Jiayong Liu, Zuofeng Zhu, Yongcai Fu, Zhen Su, and Chuanqing Sun. (2013) Microarray Assisted Fine-mapping of Quantitative Trait Loci for Cold Tolerance in Rice. Molecular Plant. doi:10.1093/mp/sss161.

  32. Gaihua Zhang, Yijing Zhang and Zhen Su. (2012) CYPSI: a structure-based interface for cytochrome P450s and ligands in Arabidopsis thaliana. BMC Bioinformatics. 13:332.

  33. Gaihua Zhang and Zhen Su. (2012) Inferences from structural comparison: flexibility, secondary structure wobble and sequence alignment optimization. BMC Bioinformatics. 13(Suppl 15):S12.

  34. Dongxia Yao, Qiang Wei, Wenying Xu, Ryan D Syrenne, Joshua S. Yuan, and Zhen Su. (2012) Comparative genomic analysis of NAC transcriptional factors to dissect the regulatory mechanisms for cell wall biosynthesis. BMC Bioinformatics. 13(Suppl 15):S10.

  35. Zhenyan Miao, Daofeng Li, Zhenhai Zhang, Jiangli Dong, Zhen Su and Tao Wang. (2012) Medicago truncatula transporter database: a comprehensive database resource for M. truncatula transporters. BMC Genomics. 13:60.

  36. Daofeng Li, Yunqin Zhang, Xiaona Hu, Xiaoye Shen, Lei Ma, Zhen Su, Tao Wang and Jiangli Dong. (2011) Transcriptional profiling of Medicago truncatula under salt stress identified a novel CBF transcription factor MtCBF4 that plays an important role in abiotic stress responses. BMC Plant Biology. 11:109.

  37. Dongxia Yao, Xueyan Zhang, Xinhua Zhao, Chuanliang Liu, Chunchao Wang, Zhenghai Zhang, Chaojun Zhang, Qiang Wei, Qianhua Wang, Hong Yan, Fuguang Li, Zhen Su. (2011) Transcriptome analysis reveals salt-stress-regulated biological processes and key pathways in roots of cotton (Gossypium hirsutum L.). Genomics. 98: 47–55.

  38. Wenying Xu, Rendong Yang, Meina Li, Zhuo Xing, Wenqiang Yang, Guang Chen, Han Guo, Xiaojie Gong, Zhou Du, Zhenhai Zhang, Xingming Hu, Dong Wang, Qian Qian, Tai Wang, Zhen Su, Yongbiao Xue. (2011) Transcriptome Phase Distribution Analysis Reveals Diurnal Regulated Biological Processes and Key Pathways in Rice Flag Leaves and Seedling Leaves. PLoS ONE 6(3): e176133.

  39. Rendong Yang, Chen Zhang, Zhen Su. (2011) LSPR: an integrated periodicity detection algorithm for unevenly sampled temporal microarray data. Bioinformatics. 27: 1023-1025.

  40. Yi Ling, Zhou Du, Zhenhai Zhang and Zhen Su. (2010) ProFITS of maize: a database of protein families involved in the transduction of signalling in the maize genome. BMC Genomics. 11:580.

  41. Chao Di, Wenying Xu, Zhen Su and Joshua S Yuan. (2010) Comparative genome analysis of PHB gene family reveals deep evolutionary origins and diverse gene function. BMC Bioinformatics. 11 (Suppl 6):S22.

  42. Li Q Wei, Wen Y Xu, Zhu Y Deng, Zhen Su, Yongbiao Xue and Tai Wang. (2010) Genome-scale Analysis and Comparison of Gene Expression Profiles in Developing and Germinated Pollen in Oryza sativa. BMC Genomics. 11:338.

  43. Rendong Yang and Zhen Su. (2010) Analyzing circadian expression data by harmonic regression based on autoregressive spectral estimation. BIOINFORMATICS. 26: i168-i174.

  44. Zhou Du , Xin Zhou , Yi Ling , Zhenhai Zhang , and Zhen Su. (2010) agriGO: a GO analysis toolkit for the agricultural community. Nucleic Acids Research  38: W64-W70.

  45. Jie Zhang, Haibin Lu, Xinyan Li, Yan Li, Haitao Cui, Chi-Kuang Wen, Xiaoyan Tang, Zhen Su, and Jian-Min Zhou (2010) Effector-Triggered and Pathogen-Associated Molecular Pattern–Triggered Immunity Differentially Contribute to Basal Resistance to Pseudomonas syringae. Molecular Plant-Microbe Interactions. 23: 940–948.

  46. Liu F, Xu W, Wei Q, Zhang Z, Xing Z, Tan L, Di C, Yao D, Wang C, Tan Y, Yan H, Ling Y, Sun C, Xue Y, Su Z. (2010) Gene Expression Profiles Deciphering Rice Phenotypic Variation between Nipponbare (Japonica) and 93-11 (Indica) during Oxidative Stress. PLoS ONE 5(1): e8632.

  47. Zhenhai Zhang, Jingyin Yu, Daofeng Li, Zuyong Zhang, Fengxia Liu, Xin Zhou, Tao Wang, Yi Ling, and Zhen Su. (2010) PMRD: plant microRNA database. Nucleic Acids Research 38: D806-D813.

  48. Daofeng Li, Zhen Su, Jiangli Dong and Tao Wang. (2009) An expression database for roots of the model legume Medicago truncatula under salt stress. BMC Genomics 10:517.

  49. Xin Zhou, Zhen Su, R Douglas Sammons, Yanhui Peng, Patrick J Tranel, C Neal Stewart Jr, and Joshua S Yuan. (2009) Novel software package for cross-platform transcriptome analysis (CPTRA). BMC Bioinformatics 10 (Suppl 11):S16.

  50. Fu-Qing Wu, Qi Xin, Zheng Cao, Zhi-Qiang Liu, Shu-Yuan Du, Chao Mei, Chen-Xi Zhao, Xiao-Fang Wang, Yi Shang, Tao Jiang, Xiao-Feng Zhang, Lu Yan, Rui Zhao, Zi-Ning Cui, Rui Liu, Hai-Li Sun, Xin-Ling Yang, Zhen Su, and Da-Peng Zhang. (2009) The Mg-Chelatase H Subunit Binds Abscisic Acid and Functions in Abscisic Acid Signaling: New Evidence in Arabidopsis. Plant Physiol. 150(4):1940-54.

  51. Zhou Du, Xin Zhou, Li Li, Zhen Su. (2009) plantsUPS: a database of plants' Ubiquitin Proteasome System. BMC Genomics. 10:227.

  52. 郭华军, 焦远年, 邸超, 姚冬霞, 张盖华, 郑雪, 刘岚, 张群莲, 郭蔼光, 苏震 (2009). 拟南芥转录因子GRAS 家族基因群响应渗透和干旱胁迫的初步探索. 植物学报 44, 290-299. 

  53. Linna Zhao, Fengxia Liu, Wenying Xu, Chao Di, Shaoxia Zhou, Yongbiao Xue, Jingjuan Yu, Zhen Su. (2009) Increased expression of OsSPX1 enhances cold/subfreezing tolerance in tobacco and Arabidopsis thaliana. Plant Biotechnology Journal. 7: 550-561.

  54. Hao Lin, Renxiao Wang, Qian Qian, Meixian Yan, Xiangbing Meng, Zhiming Fu, Cunyu Yan, Biao Jiang, Zhen Su, Jiayang Li, Yonghong Wang. (2009) DWARF27, an Iron-Containing Protein Required for the Biosynthesis of Strigolactones, Regulates Rice Tiller Bud Outgrowth through the MAX/RMS/D Pathway. Plant Cell. 21:1512-1525.

  55. Zhi-yu Peng, Xin Zhou, Linchuan Li, Xiangchun Yu, Hongjiang Li, Zhiqiang Jiang, Guangyu Cao, Mingyi Bai, Xingchun Wang, Caifu Jiang, Haibin Lu, Xianhui Hou, Lijia Qu, Zhiyong Wang, Jianru Zuo, Xiangdong Fu, Zhen Su, Songgang Li, and Hongwei Guo. (2009) Arabidopsis Hormone Database: a comprehensive genetic and phenotypic information database for plant hormone research in Arabidopsis. Nucleic Acids Research. 37: D975-D982.

  56. Xin Zhou, Zhen Su. (2008) tCal: transcriptional probability calculator using thermodynamic model. Bioinformatics. 24: 2639 - 2640.

  57. He Fei, Kang Juqing, Zhou Xin, Su Zhen, Qu Li-Jia, Gu Hongya. (2008) Variation at the transcriptional level among Chinese natural populations of Arabidopsis thaliana in response to cold stress. Chinese Science Bulletin. Vol.53  No. 19  pp.2989-2999.

  58. Yi Wang, Wen-Zheng Zhang, Lian-Fen Song, Jun-Jie Zou, Zhen Su, and Wei-Hua Wu. (2008) Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis. Plant Physiol.  148:1201-1211.

  59. Liu, F., Xu, W., Tan, L., Xue, Y., Sun, C., Su, Z. (2008) Case study for identification of indel-caused alternative expression isoforms in rice subspecies japonica and indica by integrative genome analysis. Genomics 91: 186–194.

  60. Xin Zhou, Zhen Su, (2007) EasyGO: Gene Ontology-based annotation and functional enrichment analysis tool for agronomical species, BMC Genomics 8:246.

  61. Hou ZC, Xu GY, Su Z, Yang N. (2007)Purifying selection and positive selection on the myxovirus resistance gene in mammals and chickens. Gene. 396(1):188-95.

  62. Xin Zhou, Fei He, Fengxia Liu, Xue Zheng, Chao Di, Shaoxia Zhou, Hongya Gu, Wenying Xu, and Zhen Su. (2006) Integration of Cold Signal Transduction Pathway Related to ABA 8’-hydroxylase in Arabidopsis. Biotechnology and Sustainable Agriculture 2006 and Beyond, 471-474, Z. Xu et al. (eds.), 2007 Springer

  63. Jia J, Fu J, Zheng J, Zhou X, Huai J, Wang J, Wang M, Zhang Y, Chen X, Zhang J, Zhao J, Su Z, Lv Y, Wang G. (2006) Annotation and expression profile analysis of 2073 full-length cDNAs from stress-induced maize (Zea mays L.) seedlings. Plant J. 48(5):710-27.

  64. Zhang X, Zhou S, Fu Y, Su Z, Wang X, Sun C. (2006) Identification of a drought tolerant introgression line derived from Dongxiang common wild rice (O. rufipogon Griff.). Plant Mol Biol. 62(1-2):247-59.

  65. 丁必为，田英杰，邓乃扬，苏震，蔡春. (2006) 基于支持向量机的拟南芥基因表达数据分析. 《运筹学学报》10(2):51-58.

  66. 刘云岩，苏震，董江丽，申小叶，李道丰，王涛 (2006) 截形苜蓿生物数据分析平台的构建与应用 《草地学报》 14(3): 231-235.

刘胜毅, 毛晗, 苏震, 董彩华, 徐文英, 冀瑞琴, 郭学兰. (2005)  油菜对菌核病和黑胫病的抗病机制分析. 《西北农林科技大学学报（自然科学版）》   2005年z1期. 


承担项目及课题

基于表观基因组与转录组数据的整合挖掘以及基因调控网络的动态解析构建棉花基因组结构与功能注释体系:国家自然科学基金资助项目

多维组学数据集成分析以探索叶片衰老的转录和表观遗传调控机制: 国家自然科学基金资助项目

优质性状的分子机制与设计：国家重点基础研究发展计划（973计划）项目〈水稻优良品种的分子设计研究〉子课题 ，已结题

植物应答高盐、低温胁迫的分子调控网络机制研究:国家重点基础研究发展计划（973计划）项目〈作物适应高盐、低温胁迫的分子调控机理〉子课题，已结题

能源高粱等能源植物选择性培育及遗传学规律国家重点基础研究发展计划（973计划）项目〈草本能源植物培育及化学催化制备先进液体燃料的基础研究〉子课题 ，已结题

降解农药残留的水稻细胞色素P450的功能基因组研究: 国家自然科学基金资助项目，已结题

小RNA网络数据资源整合体系: 国家高技术研究发展计划(863计划)项目《网络海量RNA数据搜索、二次挖掘与应用集成软件开发》子课题，已结题

拟南芥JAZ家族基因在茉莉酸和脱落酸间交互作用及协调水分胁迫适应性的分子机制研究: 国家自然科学基金资助项目，已结题

水稻籼粳亚种间细胞凋亡差异反应的分子机制研究:国家自然科学基金资助项目，已结题

棉花和拟南芥应答水分胁迫的转录组数据比较分析及基因表达调控网络的构建: 国家自然科学基金资助项目，已结题

植物表观基因组和转录组数据整合及其时序动态变化规律探索: 国家自然科学基金资助项目，已结题


专利情况

  1. 杨仁东，苏震，徐文英     ARSER表达谱波形分析软件    计算机软件著作权    登记号：2010SRBJ3476；证书号：BJ28859

  2. 杨仁东，张臣，苏震，徐文英     基于Lomb-Scargle周期图回归算法软件   计算机软件著作权    登记号：2010SRBJ6734；证书号：BJ32117

  3. 张盖华，苏震     基于BMCD细胞色素P450同源结构建模流程软件   计算机软件著作权     登记号：2013SRBJ0529；证书号：BJ39206

  4. 苏震，易欣      PlantGSEA植物GeneSet富集分析软件      计算机软件著作权     登记号 ：2013SRBJ0679；证书号：BJ39356

  5. 苏震，徐文英，张振海，尤琪，于娟      顺式作用元件motif显著性分析软件      计算机软件著作权      登记号 ：2015SRBJ008777；证书号：BJ40645

  6. 苏震，尤琪，徐文英      同源基因共表达网络比较分析软件V1.0      计算机软件著作权      登记号 ：2017SRBJ0778；证书号：BJ43322

  7. 苏震，尤琪，徐文英，刘悦，田甜，马雪莲      共表达网络表达谱动态分析软件V1.0      计算机软件著作权      登记号 ：2017SRBJ0683；证书号：BJ43227

  8. 苏震，田甜，徐文英，刘悦，闫恒宇，尤琪      富集分析P值分布计算软件      计算机软件著作权      登记号 ：2017SRBJ0838；证书号：BJ43382

  9. 苏震，张康，徐文英      染色质状态聚类及可视化查询分析软件V1.0      计算机软件著作权      登记号 ：2017SRBJ1093；证书号：BJ43637

  10. 苏震，徐文英，易欣，尤琪，闫恒宇，佘加杰，赵楠楠      基于多维组学数据的植物新转录本预测软件V1.0      计算机软件著作权      登记号 ：2017SRBJ0881；证书号：BJ43425

  11. 孙传清，刘凤霞，谭禄宾，苏震，朱作峰，付永彩     “一种辅助筛选耐冷水稻的方法与其专用引物”，专利号ZL200610089799.1

  12. 孙传清，刘凤霞，谭禄宾，苏震，朱作峰，付永彩     “辅助筛选耐冷水稻的方法和它的专用引物”  专利号200610088805.1

  13. 孙传清，刘凤霞，谭禄宾，苏震，朱作峰，付永彩    “辅助筛选耐冷水稻的方法与其专用引物”       专利号200610088803.2

  14. 孙传清，刘凤霞，谭禄宾，苏震，朱作峰，付永彩    “一种辅助筛选耐冷水稻的方法及其专用引物”   专利号200610088801.3

  15. 孙传清，刘凤霞，谭禄宾，苏震，朱作峰，付永彩     “辅助筛选耐冷水稻的方法及其专用引物”     专利号200610089798.7

  16. 孙传清，刘凤霞，苏震，谭禄宾，刘家勇，付永彩，朱作峰 “一种与植物耐冷性相关的蛋白及其编码基因与应用” 专利号200810181172.8

  17. 孙传清;刘凤霞;苏震;谭禄宾;刘家勇;付永彩;朱作峰 “一种与植物耐冷性相关的蛋白及其编码基因与应用” 专利号200810113015

  18. 苏震，刘凤霞，徐文英，谭禄宾，邸超，张振海，孙传清，薛勇彪    “一种辅助筛选籼稻和粳稻的方法以及专用引物”    专利号200810056529.X

  19. 苏震，刘凤霞，徐文英，谭禄宾，邸超，张振海，孙传清，薛勇彪    “一种辅助筛选籼稻和粳稻的方法”  专利号200810056530.2 

  20. 苏震，徐文英，于静娟，赵琳娜，刘凤霞，周少霞    “一种植物耐低温蛋白及其编码基因与应用”    专利号200810115174.7

  21. 苏震，徐文英，于静娟，赵琳娜，刘凤霞，周少霞    “植物耐低温蛋白及其编码基因与应用”    专利号200810115175.1

  22. 苏震，徐文英，邸超，周少霞，张盖华      “水稻细胞色素P450基因专用引物辅助鉴别植物培养基质中除草剂的残留”      专利号200810118016.7

  23. 苏震，徐文英，邸超，周少霞，张盖华      “水稻细胞色素P450基因专用引物辅助鉴别植物培养基质中除草剂的残留”      专利号200810118017.1

  24. 苏震，徐文英，邸超，周少霞，张盖华      “水稻细胞色素P450基因专用引物辅助鉴别植物培养基质中除草剂的残留”      专利号200810118021.8

  25. 苏震，徐文英，邸超，周少霞，张盖华      “水稻细胞色素P450基因专用引物辅助鉴别植物培养基质中除草剂的残留”      专利号200810118019.0

  26. 苏震，徐文英，邸超，周少霞，张盖华      “水稻细胞色素P450基因专用引物辅助鉴别植物培养基质中除草剂的残留”      专利号200810118020.3

  27. 孙传清，刘凤霞，谭禄宾，付永彩，朱作峰，谢道昕，苏震 “水稻冷诱导启动子p-LTT7 及其应用” 专利号 201010122399.2

  28. 孙传清，刘加勇，刘凤霞，谭禄宾，付永彩，朱作峰，苏震 “植物耐冷相关蛋白LTT9及其编码基因和应用” 专利号 201210072826.X

  29. 孙传清，张侠，刘凤霞，王娜，苏震，谭禄宾，朱作峰，付永彩，谢道昕 “耐旱相关蛋白DT1及其编码基因和应用” 专利号 201110296327.4

  30. 苏震，徐文英，魏强，王玲，刘凤霞，于静娟，赵琳娜，张群莲，王春超 “水稻OsSPX1蛋白及其编码基因在调控植物种子结实率中的应用” 专利号 201210101772.5

  31. 苏震，徐文英，魏强，王玲，刘凤霞，于静娟，赵琳娜，谭远军 “水稻OsSPX1蛋白及其编码基因在调控植物抗氧化性中的应用” 专利号201210166813.9

  32. 苏震，徐文英，魏强，王玲，刘凤霞，于静娟，赵琳娜，张力圩 “OsSPX1蛋白及其编码基因在调节植物花粉育性中的应用” 专利号201210253451.7

  33. 李付广，王倩华，张雪妍，刘传亮，张朝军，武芝霞，王晔，孔德培，秦文强，苏震，徐文英，姚冬霞，张群莲，郑雪 “与植物抗逆性相关蛋白Gh01399 及其编码基因与应用” 专利号201210261882.8
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