华中农业大学信息学院生物信息系研究生导师：马彬广

导师信息来源：华中农业大学信息学院 2019-05-15　相关院校： 华中农业大学

华中农业大学信息学院生物信息系研究生导师马彬广介绍如下：

马彬广，男，博士，华中农业大学信息学院, 教授博士生导师

电话：027-87280877

邮箱：mbg@mail.hzau.edu.cn

工作单位

华中农业大学信息学院

研究方向

生物物理学；计算生物学；系统与合成生物学

教育经历

2004.9-2007.6, 苏州大学, 高分子化学与物理（化学生物学方向）, 博士

2001.9-2004.6, 天津大学, 生物物理学, 硕士

1997.9-2001.7, 河北工业大学, 应用物理学, 本科

主要职历

2016.12至今, 华中农业大学信息学院, 教授博士生导师

2014.7-2016.12, 华中农业大学信息学院, 副教授

2009.11-2014.7, 华中农业大学生命科学技术学院, 副教授

2007.11-2009.11, Bergen Center for Computational Sciences, Norway（挪威）, 博士后

学术兼职：

Nature旗下国际刊物Scientific Reports编委

iGEM国际遗传工程机器设计竞赛2013亚洲赛区评委

第八届国际生物信息研讨会(IBW2010-武汉)组委会程序委员

科研成果

近几年来主要在计算生物学领域从事基因组分析、蛋白质折叠及蛋白质相互作用、微生物热适应的分子机理等方向的研究工作，在Nucleic Acid Res., Structure, PLoS Comput Biol., Sci. Rep., J. Mol. Biol.,Proteins, Genome Biol., BMC Genomics, PLoS One, FEBS J., FEBS Lett., Gene, Biochem. Biophys. Res. Commun.等国际重要期刊发表SCI论文20多篇，其中，关于蛋白质折叠类型预测的JMB论文入选Faculty of 1000 Biology。本人曾受邀担任国内外重要期刊审稿人，例如：Journal of Chemical Information and Modeling, The Open Structural Biology Journal, Journal of Molecular Biology, Journal of Theoretical Biology, Molecular BioSystems, Gene, Genomics, Journal of Biomolecular Structure & Dynamics、生物物理学报等。

发表论文：（上标1表示并列第一作者，星号* 表示通讯作者）

1. Yi Yang, Xiao-Pan Hu,Bin-Guang Ma*, Construction and simulation of the Bradyrhizobium diazoefficiens USDA110 metabolic network: a comparison between free-living and symbiotic states. Mol. BioSyst., 2017, (First published online 31 Jan 2017). http://pubs.rsc.org/en/content/articlelanding/2017/mb/c6mb00553e

2. Hong-Rui Xu, Jun-Feng Cheng, Xiao-Pan Hu, Ying-Ying Chu,Bin-Guang Ma*, Are protein hubs faster folders? Exploration based on Escherichia coli proteome. Amino Acids 2016, 48(12): 2747–2753. http://link.springer.com/article/10.1007/s00726-016-2309-x

3.马彬广，蛋白折叠预测，科学通报 61(24), 2670-2680 (2016); doi: 10.1360/N972016-00658；（约稿综述，Science125个科学前沿问题系列解读，第58问：Can we predict how proteins will fold?）http://engine.scichina.com/doi/10.1360/N972016-00658

4. Yi-Ming He,Bin-Guang Ma*, Abundance and Temperature Dependency of Protein-Protein Interaction Revealed by Interface Structure Analysis and Stability Evolution. Sci Rep. 2016 May 25; 6:26737. doi:10.1038/srep26737.

5. Xiao-Pan Hu, Yi Yang,Bin-Guang Ma*, Amino Acid Flux from Metabolic Network Benefits Protein Translation: the Role of Resource Availability. Sci Rep. 2015 Jun 9; 5:11113. doi: 10.1038/srep11113.

6. Ting Xie1, Liang-Yu Fu1, Qing-Yong Yang1, Heng Xiong1, Hong-Rui Xu,Bin-Guang Ma*, Hong-Yu Zhang*, Spatial features for Escherichia coli genome organization, BMC Genomics. 2015 Feb 5;16:37. doi: 10.1186/s12864-015-1258-1.

7. Heng Xiong, Yi Yang, Xiao-Pan Hu, Yi-Ming He,Bin-Guang Ma*, Sequence determinants of prokaryotic gene expression level under heat stress. Gene 2014, 551: 92-102.

8. Shanming Wang, Baohai Hao, Jiarui Li, Huilin Gu, Jieli Peng, Fuli Xie, Xinyin Zhao, Christian Frech, Nansheng Chen*,Binguang Ma*, Youguo Li*, Whole-genome sequencing of Mesorhizobium huakuii 7653R provides molecular insights into host specificity and symbiosis island dynamics. BMC Genomics 2014, 15:440 (6 June 2014)

9. Jieli Peng, Baohai Hao, Liu Liu, Shanming Wang,Binguang Ma, Yi Yang, Fuli Xie, Youguo Li RNA-Seq and Micros Analyses Reveal Global Differential Transcriptomes of Mesorhizobium huakuii 7653R between Bacteroids and Free-Living Cells. PLoS ONE (2014) 9(4): e93626. doi:10.1371/journal.pone.0093626.

10. Alexander Goncearenco,Bin-Guang Ma, and Igor N. Berezovsky, Molecular mechanisms of adaptation emerging from the physics and evolution of nucleic acids and proteins Nucl. Acids Res. (2014) 42 (5): 2879-2892.

11. Qiang Zhu1, Tao Qin1, Ying-Ying Jiang1, Cong Ji1, De-Xin Kong1,Bin-Guang Ma1, Hong-Yu Zhang* Chemical basis of metabolic network organization. PLoS Comput Biol. 2011 (10): e1002214.

12. Liang-Yu Fu, Guang-Zhong Wang,Bin-Guang Ma, Hong-Yu Zhang* Exploring the common molecular basis for the universal DNA mutation bias: revival of L?wdin mutation model. Biochem Biophys Res Commun. (2011) 409: 367-371.

13.Bin-Guang Ma*, Hong-Yu Zhang* Stoichiometry and Preferential Interaction: Two Components of the Principle for Protein Structure Organization. Journal of Biomolecular Structure & Dynamics. (2011) 28: 619-20; discussion 669-674.

14.Bin-Guang Ma, Igor N. Berezovsky* The MBLOSUM: a server for deriving mutation targets and position-specific substitution rates. Journal of Biomolecular Structure & Dynamics (2010), 28, 415-419.

15. Bin-Guang Ma1, Alexander Goncearenco1, Igor N. Berezovsky* Thermophilic adaptation of protein complexes inferred from proteomic homology modeling. Structure (2010) 18, 819-828.

16.Bin-Guang Ma*, Ling-Ling Chen, Hong-Yu Zhang. FDserver: A web service for protein folding research. NaturePrecedings (2008)

17.Bin-Guang Ma* Building Block and Building Rule: Dual Descriptor Method for Biological Sequence Analysis. Nature Precedings (2008) .

18. Ji Wang,Bin-Guang Ma*, Hong-Yu Zhang, Ling-Ling Chen, Shi-Cui Zhang*. How does gene expression level contribute to thermophilic adaptation of prokaryotes? An exploration based on predictors. Gene (2008) 421, 32-36.

19.Bin-Guang Ma1, Lei Chen1, Hong-Fang Ji, Zhong-Hua Chen, Fu-Rong Yang, Ling Wang, Ge Qu, Ying-Ying Jiang, Cong Ji, Hong-Yu Zhang*. Characters of very ancient proteins. Biochemical & Biophysical Research Communications (2008) 366, 607-611.

20.Bin-Guang Ma*, Ling-Ling Chen, Hong-Yu Zhang*. What determines protein folding type? An investigation of intrinsic structural properties and its implications for understanding folding mechanisms. Journal of Molecular Biology (2007) 370, 439-448. 该论文入选Faculty of 1000 Biology

21. Yan Zhou1,Bin-Guang Ma1, Hong-Yu Zhang*. Human oncogene tissue-specific expression level significantly correlates with sequence compositional features. FEBS Letters (2007) 581, 4361-4365.

22. Ke Xu andBin-Guang Ma*. Comparative analysis of predicted gene expression among deep-sea genomes. Gene (2007) 397, 136-142.

23.Bin-Guang Ma*. How to describe genes: enlightenment from the quaternary number system. BioSystems (2007) 90, 20-27.

24.Bin-Guang Ma*, Jian-Xiu Guo, Hong-Yu Zhang*. Direct correlation between proteins' folding rates and their amino acid compositions: an ab initio folding rate prediction. Proteins: Structure, Function, and Bioinformatics (2006) 65, 362-372.

25.Bin-Guang Ma, Qin Song, Hong-Yu Zhang*. CvP-bias as an index to predict the life style of last common ancestor. Journal of Biomolecular Structure & Dynamics, 23 (2006) 555-558.

26.Bin-Guang Ma, Ling-Ling Chen*. The Most Deviated Condon Position in AT-rich genomes: a function related analysis. Journal of Biomolecular Structure & Dynamics (2005), 23, 143-149.

27. Guang-Zhong Wang1,Bin-Guang Ma1, Yan Yang, Hong-Yu Zhang*. Unexpected amino acid composition of modern Reptilia and its implications in molecular mechanisms of dinosaur extinction. Biochemical & Biophysical Research Communications (2005) 333, 1047-1049.

28. Ling-Ling Chen,Bin-Guang Ma, Na Gao. Reannotation of hypothetical ORFs in plant pathogen Erwinia carotovora subsp. atroseptica SCRI1043. FEBS Journal (2008) 275, 198-206.

29. Hong-Fang Ji, De-Xin Kong, Liang Shen, Ling-Ling Chen,Bin-Guang Ma, Hong-Yu Zhang*. Distribution patterns of small-molecule ligands in the protein universe and implications for origin of life and drug discovery. Genome Biology (2007) 8:R176.

30. Hao Wu,Bin-Guang Ma, Ji-Tao Zhao and Hong-Yu Zhang*. How similar are amino acid mutations in human genetic diseases and evolution. Biochemical & Biophysical Research Communications (2007) 362, 233-237.

31. Hao Wu, Yan Yang, Sheng-Juan Jiang, Ling-Ling Chen, Hai-Xia Gao, Qing-Shan Fu, Feng Li,Bin-Guang Ma, Hong-Yu Zhang. DCCP and DICP: construction and analyses of databases for copper- and iron-chelating proteins. Genomics Proteomics Bioinformatics (2005) 3, 52-57.

32. 徐宏睿,马彬广* 蛋白质折叠速率决定因素与预测方法的研究进展生物物理学报（2013）Vol. 29 (3): 192-202.

33. 郭建秀,马彬广,张红雨* 蛋白质折叠速率预测研究进展生物物理学报 2006 Vol. 22 (2): 89-95.

34.马彬广原核基因识别中的一种负样本生成算法《天津理工学院学报》 2004年01期

专著章节：

马彬广、郝保海、胡晓攀、王双寅，中国微生物基因组研究（章节“原核微生物的温度适应机制：组学视角” pp: 400-413），科学出版社，2012.

李友国、王善明、彭杰丽、马彬广，中国微生物基因组研究（章节“根瘤菌功能基因组学研究概述”pp: 166-180），科学出版社，2012.

学术会议（论文/摘要/展报/报告）：

The 16th International Conference on Systems Biology (ICSB 2015), November 23-26, 2015, Biopolis, Singapore, Abstract&Poster: "Amino Acid Flux from Metabolic Network Benefits Protein Translation: the Role of Resource Availability".

Genomics Frontiers Symposium, July 16-19, 2015, Beijing, Abstract: "Spatial Organization of E. coli Transcriptional Regulatory Network".

The Twelfth International Bioinformatics Workshop (IBW2015), July 9-10, 2015, Harbin, China, Abstract: "Metabolic Channeling: Integrated Analysis of Human Cancer Protein-protein Interaction and Metabolic Networks".

The 2nd International SystemsX.ch Conference on Systems Biology, Oct, 2014, Lausanne, Switzerland, Abstract&Poster: "Spatial Features for Escherichia coli Genome Organization".

The 15th International Systems Biology Conference, Sep, 2014, Melbourne, Australia, Abstract&Poster: "Construction and Simulation of Bradyrhizobium japonicum USDA110 Metabolic Network: New Insights for Symbiotic Nitrogen Fixation Metabolism".

第三届中国微生物基因组学术研讨会，2010年11月，深圳，摘要/报告："Thermophilic Adaptation of Prokaryotic Genomes".

中国科学院智能计算与生物信息学学术研讨会，2006年11月，合肥，论文/报告：“蛋白质折叠速率计算”。

科研项目：

细菌三维基因组热适应调控机理的系统生物学研究，国家自然科学基金（31570844），主持，2016.1-2019.12

原核基因表达水平热适应调控机理的系统生物学研究，国家自然科学基金（31100602），主持，2012.1-2014.12

蛋白复合物的热稳定性与其亚基表达水平和折叠速率关系的研究，教育部留学回国人员科研启动基金（122064），主持，2012.1-2014.12

生物与非生物因子诱发果实采后衰老的生物学基础，973项目（2013CB127103），学术骨干，参与，2013.1-2017.9

基于振荡器的虚实混合生物回路的构建，校自主标志性成果培育项目（2662016PY094），主持，2016.1-2018.12

微生物代谢途径流平衡分析平台建设及应用，校自主创新基金交叉项目（2013JC009），主持，2013.1-2014.12

原核基因热适应表达水平预测，校自主创新基金培育项目（2011PY070），主持，2011.5-2012.12

根瘤菌蛋白相互作用组的建模与验证，校自主创新基金青年教师项目（2010QC016），主持，2011.1-2012.12

红曲菌中PKS基因的比较基因组学分析及重要基因功能验证，校自主创新基金交叉项目（2011JC009），共同申请人，2011.5-2012.12