郑何平
教授，博士生导师。
E-mail: hz5p@hnu.edu.cn






基本信息
郑何平，男，1979年生，广东汕头。2001年本科毕业于中国科技大学，获得生物科学理学学士学位和计算机技术科学工学学士学位。同年考入弗吉尼亚大学分子生理学与生物物理学系， 2009年获得哲学博士学位。同年于弗吉尼亚大学Wladek Minor教授实验室从事博士后研究，2013年在弗吉尼亚大学任研究科学家，2019年加入湖南大学生物学院，聘为教授。目前在国际学术刊物上发表SCI论文30多篇，包括Nature Protocols，Nucleic Acids Research等知名学术期刊，被引用次数超过1000次。目前担任 Science, Bioinformatics, Scientific Reports, BMC Bioinformatics, Protein Science, PLoS Computational Biology, Journal of Applied Crystallography等多家国际期刊审稿人。


教育背景
2001年8月－2009年8月，美国弗吉尼亚大学，哲学博士，导师：Wladek Minor教授；
1998年9月－2000年7月，中国科学技术大学计算机技术科学学院，工学学士；
1996年9月－2001年7月，中国科学技术大学生命科学学院，理学学士。




工作履历
2019年2月至今，湖南大学生物学院，教授，岳麓****，博士生导师；
2013年10月－2019年2月，美国弗吉尼亚大学，研究科学家，导师：Wladek Minor教授；
2009年8月－2013年10月，美国弗吉尼亚大学，博士后研究员，导师：Wladek Minor教授。




研究领域
主攻生物信息学中，信息学方法模型和算法开发。专业研究手段包括数据挖掘，建模算法，线性回归，机器学习。使用的技术主要包括：
1.数据分析软件R及其基本操作软件包，包括但不限于：用于数据操作的dplyr，作图的ggplot2等；
2.人工智能机器学习算法软件包，例如：caret，pandas/scikit-learn，H2O.ai等；
3.集群环境 Proxmox，云共享软件开发，软件容器 Singularity，Linux container 或者 Docker；
4.关系数据库 PostgreSQL，分布式数据库MongoDB；
5.MVC框架如Django，Ruby on Rails等；
6.网站服务器Nginx和服务器管理环境node.js；
7.基于bootstrap，web components，React JS或者Angular JS的网页开发；基于Objective-C或者Java的手机App应用开发。
实验室的研究方向还包括以X-射线晶体衍射和冷冻电镜技术为主要手段，结合分子生物学、生物化学、细胞生物学、免疫学、生物物理学等多个学科的方法手段，研究金属结合蛋白以及金属药物与蛋白复合物的结构，阐明其发挥功能的分子机制，并将其应用到诊断治疗、培育养殖上面去。例如：（a）锌依赖性金属蛋白酶SAS1B：该蛋白在卵细胞和癌细胞表面有特异表达，可以作为癌细胞的天然标记蛋白，所以SAS1B 抗体可作为抗癌药物的给药载体。（b）人体血清中转运小分子的白蛋白（Albumin）：该蛋白具有锌的特异结合位点，还有可能参与其他金属小分子的转运，在金属结合和转运中起到重要作用。（c）钙结合蛋白AVIL：该蛋白的表达与横纹肌肉瘤密切相关。（d）来自鲤鱼的43kD 锌结合蛋白ZBP：该蛋白作为细胞表面受体参与细胞粘连（cell adhesion），与鲤鱼的消化道组织中经常发现极高浓度的锌有关。


招聘信息：
本实验室长期招聘博士后研究人员和博士研究生、硕士研究生。有意向者请将送本人简历发至：hz5p@hnu.edu.cn。应聘要求如下：
1.硕士研究生以及本科实习生：对科研工作感兴趣，愿意学习某种关键生物信息学、数据科学、或者生物统计学技术，并用于解决生物医学、农学问题者；
2.博士研究生需具备以下至少一项专业背景：生物信息学，计算生物学，统计学，数据科学，计算化学，结构生物学，生物化学与分子生物学，细胞生物学，免疫学；
3.博士后需具备以下至少一项专业背景：生物信息学，计算生物学，统计学，数据科学，计算化学，结构生物学，生物化学与分子生物学，细胞生物学，免疫学，并至少发表一篇第一作者SCI论文；或者熟练掌握上述介绍所使用的1-7中的某项关键技术者。博士后有留校任职机会。课题组将按每人12-30万/年的标准提供优厚的待遇、完善的科研条件，期待您的加盟！


学术成果
1. Majorek KA, Zimmerman MD, Grabowski M, Shabalin I, Zheng H, Minor W (2020)
Assessment of Crystallographic Structure Quality and Protein–Ligand Complex Structure Validation
in Structural Biology in Drug Discovery: Methods, Techniques, and Practices: 253-275. [DOI:10.1002/21.ch11]
2. Han Y, Yu Y, Liang C, Shi Y, Zhu Y, Zheng H*, Wang J*, Zhang J* (2019)
Fluoride-induced unrestored arrest during haploid period of spermatogenesis via the regulation of DDX25 in rats.
Environ Pollution 253: 538-551. [Pub Med ID: **]
3. Lipowska J, Miks CD, Kwon K, Shuvalova L, Zheng H, Lewiński K, Cooper DR, Shabalin IG, Minor W (2019)
Pyrimidine biosynthesis in pathogens - Structures and analysis of dihydroorotases from Yersinia pestis and Vibrio cholerae.
Int. J. Biol. Macromol. 136: 1176-1187. [Pub Med ID: **]
4. Grabowski M, Shabalin I, Porebski PJ, Domagalski MJ, Zheng H, Cooper D, Venkataramany BS, Bourne PE, Minor W (2019)
Data Sharing in Structural Biology: Advances and Challenges
in Data Sharing: Recent Progress and Remaining Challenges - Computer Science, Technology and Applications, Nova Science Publishers, New York : 29-68.
5. Handing KB, Niedzialkowska E, Shabalin IG, Kuhn ML, Zheng H*, Minor W* (2018)
Characterizing metal-binding sites in proteins with X-ray crystallography.
Nat Protoc 13: 1062-1090 [Pub Med ID: **]
F1000 Recommended Publication
6. Hou J, Zheng H*, Tzou WS, Cooper DR, Chruszcz M, Chordia MD, Kwon K, Grabowski M, Minor W* (2018)
Differences in substrate specificity of V. cholerae FabH enzymes suggest new approaches for the development of novel antibiotics and biofuels.
FEBS J. 285: 2900-2921 [Pub Med ID: **]
7. Porebski PJ, Sroka P, Zheng H, Cooper DR, Minor W (2018)
Molstack-Interactive visualization tool for presentation, interpretation, and validation of macromolecules and electron density maps.
Protein Sci. 27: 86-94 [Pub Med ID: **]
8. Zhang J, Zhu Y, Shi Y, Han Y, Liang C, Feng Z, Zheng H, Eng M, Wang J (2017)
Fluoride-Induced Autophagy via the Regulation of Phosphorylation of Mammalian Targets of Rapamycin in Mice Leydig Cells.
J Agric. Food Chem. 65: 8966-8976 [Pub Med ID: **]
9. Zheng H, Cooper DR, Porebski PJ, Shabalin IG, Handing KB, Minor W (2017)
CheckMyMetal: a macromolecular metal-binding validation tool.
Acta Crystallogr D Struct Biol 73: 223-233 [Pub Med ID: **]
10. Zheng H, Langner KM, Shields GP, Hou J, Kowiel M, Allen FH, Murshudov G, Minor W (2017)
Data mining of iron(II) and iron(III) bond-valence parameters, and their relevance for macromolecular crystallography.
Acta Crystallogr D Struct Biol 73: 316-325 [Pub Med ID: **]
11. Zheng H, Porebski PJ, Grabowski M, Cooper DR, Minor W (2017)
Databases, Repositories, and Other Data Resources in Structural Biology.
Methods Mol. Biol. 1607: 643-665 [Pub Med ID: **]
12. Zhang J, Zhang Y, Liang C, Wang N, Zheng H, Wang J (2016)
Choline supplementation alleviates fluoride-induced testicular toxicity by restoring the NGF and MEK expression in mice.
Toxicol Appl Pharmacol. 310: 205-214 [Pub Med ID: **]
13. Grabowski M, Langner KM, Cymborowski M, Porebski PJ, Sroka P, Zheng H, Cooper DR, Zimmerman MD, Elsliger MA, Burley SK, Minor W (2016)
A public database of macromolecular diffraction experiments.
Acta Crystallogr D Struct Biol 72: 1181-1193 [Pub Med ID: **]
14. Hou J, Zheng H, Chruszcz M, Zimmerman MD, Shumilin IA, Osinski T, Demas M, Grimshaw S, Minor W (2015)
Dissecting the Structural Elements for the Activation of β-Ketoacyl-(Acyl Carrier Protein) Reductase from Vibrio cholerae.
J. Bacteriol. 198: 463-76 [Pub Med ID: **]
15. Zheng H, Mandal A, Shumilin IA, Chordia MD, Panneerdoss S, Herr JC, Minor W (2015)
Sperm Lysozyme-Like Protein 1 (SLLP1), an intra-acrosomal oolemmal-binding sperm protein, reveals filamentous organization in protein crystal form.
Andrology 3: 756-71 [Pub Med ID: **]
16. Zheng H, Shabalin IG, Handing KB, Bujnicki JM, Minor W (2015)
Magnesium-binding architectures in RNA crystal structures: validation, binding preferences, classification and motif detection.
Nucleic Acids Res. 43: 3789-801 [Pub Med ID: **]
17. Zheng H, Handing KB, Zimmerman MD, Shabalin IG, Almo SC, Minor W (2015)
X-ray crystallography over the past decade for novel drug discovery - where are we heading next?
Expert Opin Drug Discov 10: 975-89 [Pub Med ID: **]
18. Zheng H, Hou J, Zimmerman MD, Wlodawer A, Minor W (2014)
The future of crystallography in drug discovery.
Expert Opin Drug Discov 9: 125-37 [Pub Med ID: **]
19. Zheng H, Chordia MD, Cooper DR, Chruszcz M, Müller P, Sheldrick GM, Minor W (2014)
Validation of metal-binding sites in macromolecular structures with the CheckMyMetal web server.
Nat Protoc 9: 156-70 [Pub Med ID: **]
20. Domagalski MJ, Zheng H, Zimmerman MD, Dauter Z, Wlodawer A, Minor W (2014)
The quality and validation of structures from structural genomics.
Methods Mol. Biol. 1091: 297-314 [Pub Med ID: **]
21. Luo HB, Knapik AA, Petkowski JJ, Demas M, Shumilin IA, Zheng H, Chruszcz M, Minor W (2013)
Biophysical analysis of the putative acetyltransferase SACOL2570 from methicillin-resistant Staphylococcus aureus.
J. Struct. Funct. Genomics 14: 97-108 [Pub Med ID: **]
22. Hou J, Wojciechowska K, Zheng H, Chruszcz M, Cooper DR, Cymborowski M, Skarina T, Gordon E, Luo H, Savchenko A, Minor W (2012)
Structure of a short-chain dehydrogenase/reductase from Bacillus anthracis.
Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 68: 632-7 [Pub Med ID: **]
23. Zheng H, Filippova EV, Tkaczuk KL, Dworzynski P, Chruszcz M, Porebski PJ, Wawrzak Z, Onopriyenko O, Kudritska M, Grimshaw S, Savchenko A, Anderson WF, Minor W (2012)
Crystal structures of putative phosphoglycerate kinases from B. anthracis and C. jejuni.
J. Struct. Funct. Genomics 13: 15-26 [Pub Med ID: **]
24. Sledz P, Zheng H, Murzyn K, Chruszcz M, Zimmerman MD, Chordia MD, Joachimiak A, Minor W (2010)
New surface contacts formed upon reductive lysine methylation: improving the probability of protein crystallization.
Protein Sci. 19: 1395-404 [Pub Med ID: **]
25. Luo HB, Zheng H, Zimmerman MD, Chruszcz M, Skarina T, Egorova O, Savchenko A, Edwards AM, Minor W (2010)
Crystal structure and molecular modeling study of N-carbamoylsarcosine amidase Ta0454 from Thermoplasma acidophilum.
J. Struct. Biol. 169: 304-11 [Pub Med ID: **]
26. Chruszcz M, Zimmerman MD, Wang S, Koclega KD, Zheng H, Evdokimova E, Kudritska M, Cymborowski M, Savchenko A, Edwards A, Minor W (2008)
Function-biased choice of additives for optimization of protein crystallization - the case of the putative thioesterase PA5185 from Pseudomonas aeruginosa PAO1.
Cryst Growth Des 8: 4054-4061 [Pub Med ID: **]
27. Jha KN, Shumilin IA, Digilio LC, Chertihin O, Zheng H, Schmitz G, Visconti PE, Flickinger CJ, Minor W, Herr JC (2008)
Biochemical and structural characterization of apolipoprotein A-I binding protein, a novel phosphoprotein with a potential role in sperm capacitation.
Endocrinology 149: 2108-20 [Pub Med ID: **]
28. Chruszcz M, Potrzebowski W, Zimmerman MD, Grabowski M, Zheng H, Lasota P, Minor W (2008)
Analysis of solvent content and oligomeric states in protein crystals--does symmetry matter?
Protein Sci. 17: 623-32 [Pub Med ID: **]
29. Zheng H, Chruszcz M, Lasota P, Lebioda L, Minor W (2008)
Data mining of metal ion environments present in protein structures.
J. Inorg. Biochem. 102: 1765-76 [Pub Med ID: **]
30. Petkowski JJ, Chruszcz M, Zimmerman MD, Zheng H, Skarina T, Onopriyenko O, Cymborowski MT, Koclega KD, Savchenko A, Edwards A, Minor W (2007)
Crystal structures of TM0549 and NE1324--two orthologs of E. coli AHAS isozyme III small regulatory subunit.
Protein Sci. 16: 1360-7. [Pub Med ID: **]
31. Zuo Y, Zheng H, Wang Y, Chruszcz M, Cymborowski M, Skarina T, Savchenko A, Malhotra A, Minor W (2007)
Crystal structure of RNase T, an exoribonuclease involved in tRNA maturation and end turnover.
Structure 15: 417-28. [Pub Med ID: **]