1.   2014年01月—2014年12月，《癌症起始和发展过程中导致基因组不稳定的分子机制》，北京市优秀人才培养资助，2013D008013000002，3万元

2.   2015年01月—2017年12月，第五批国家青年千人计划，200万元

3.   2016年01月—2017年12月，《通过生物化学和遗传学手段阐明A-EJ通路中重要组分的分子生物学功能和机制》，北京市百千万人才工程，2015001，10万元

4.   2016年01月—2019年12月，《组蛋白去乙酰化酶6（HDAC6）在肿瘤发生和发展过程中的作用及机制研究》，国家自然科学基金面上项目，81572795，96万元

5.   2018年01月—2019年12月，《利用CRISPR／Cas9标记基因组特异位点进行活细胞和体内成像》，北京市百千万人才工程，2017A02，10.3万元

6.   2018年01月—2021年12月，《建立小鼠模型研究人纤维板层肝细胞癌（FLHCC）》，国家自然科学基金面上项目，81773304，100.8万元

2020年01月—2021年12月，《构建CRISPR敲入小鼠研究长非编码RNA功能》，北京市百千万人才工程，2019A39，7万元

Publications Pending

1.Hu Q*, Hong Y*, Qi P*, Lu G, Mai X, Xu S, He X, Guo Y, Gao L, Jing Z, Wang J, Cai T, Zhang Y#. The atlas of infiltrated B-lymphocytes in breast cancer revealed by paired single-cell RNA-sequencing and antigen receptor profiling. bioRxiv 2019 ( doi: https://doi.org/10.1101/695601) (*Contributed equally to this work) (#corresponding author) Revised for Nature Communications.

2.Chen K*, Saguner AM*, Hu Q*, Gao L, Rao, M, Chen X, Chen L, Brunckhorst C, Akdis D, Medeiros-Domingo A, Zhang N, Ni Y, Zhang Y#, Duru F#, Song J#, Hu S#. Genotype-Phenotype correlations in patients with arrhythmogenic cardiomyopathy: results from next generation sequencing in a large combined cohort. (*Contributed equally to this work) (#corresponding author) Submitted 

Peer-reviewed Publications 

3.Xie H, Ge X, Yang F, Wang B, Li S, Duan J, Lv X, Cheng C, Song Z, Liu C, Zhao J, Zhang Y, Wu J, Gao C, Zhang J, Gu F. High-fidelity SaCas9 identified by directional screening in human cells. PLOS Biology 2020. 18(7): e3000747.

4.Hua XM*, Hu G*, Hu QT*, Chang Y, Hu YQ, Gao LL, Chen X, Yang PC, Zhang Y#, Li MY#, Song JP#. Single-cell RNA-sequencing for dissecting the immunological network in autoimmune myocarditis. Circulation 2020 Online ahead of print. (*Contributed equally to this work) (#corresponding author)

5.Han D, Hong Y, Mai X, Hu Q, Lu G, Duan J, Xu J, Si X, Zhang Y #. Systematically study the mechanistic factors regulating genome dynamics in vivo by CRISPRsie. Journal of Molecular Cell Biology. 2019. 11(11):1080-1020 (#corresponding author)

6.Pan S*, Lin Y*, Liu Q*, Duan J*, Lin Z, Wang Y, Wang X, Shui G, Lam S, Zou Z, Zhang Y, Zhang Z#, Zhan X#. Convergent genomic signatures of flight loss in birds suggest a switch of main fuel. Nature Communications. 2019 10(1):2756 

7.Duan J*, Lu G*, Hong Y*, Hu Q*, Mai X, Guo J, Si X, Wang F, Zhang Y #.Live imaging and tracking of genome regions in CRISPR/dCas9 knock-in mice. Genome Biology. 2018.19(1):192(*Contributed equally to this work)  (#corresponding author) 

8.Hong Y, Lu G, Duan J, Liu W, Zhang Y #.Comparison and optimization of CRISPR/dCas9/gRNA genome-labeling systems for live cell imaging. Genome Biology. 2018.19(1):39  (#corresponding author) 

9.Li H, Gao S, Huang H,Liu W, Huang H,Liu X, Gao Y, Le R, Kou X, Zhao Y, Kou Z, Li J, Wang H, Zhang Y, Wang H, Cai T,Sun Q,Gao S, Han Z.High throughput sequencing identifies an imprinted gene, Grb10, associated with the pluripotency state in nuclear transfer embryonic stem cells. Oncotarget. 2017.8(29):47344-47355 

10.Wu W, Lu Z, Li F, Wang W, Qian N, Duan J, Zhang Y, Wang F, Chen T. Efficient in vivo gene editing using ribonucleoproteins in skin stem cells of recessive dystrophic epidermolysis bullosa mouse model. Proc Natl Acad Sci U S A. 2017.114(7):1660-1665

11.Yang H, Zhang W, Lu S, Lu G, Zhang H, Zhuang Y, Wang Y, Dong M, Zhang Y, Zhou X, Wang P, Yu L, Wang F, Chen L. Mup-knockout mice generated through CRISPR/Cas9-mediated deletion for use in urinary protein analysis. Acta Biochim Biophys Sin.2016.48(5):468-473 

12.Lu G*, Duan J*, Shu S, Wang X, Gao L, Guo J, Zhang Y #. Ligase I and ligase III mediate the DNA double strand break ligation in Alternative End-joining. Proc Natl Acad Sci U S A. 2016. 113(5):1256-1260(*Contributed equally to this work) (#corresponding author) 

13.Dong J*, Rohit A*, Zhang T*, Zhang Y, Hu J, Sabrina A, Robin M, Ho Y, Du Z, Davide F, Meng F, Monica G, Michel C, John P, Frederick W, Alt FW. Orientation-specific joining of AID-initiated DNA breaks promotes antibody class switching. Nature. 2015. 525:134–139 

14.Duan J*, Lu G*, Xie Z, Lou M, Luo J, Guo L, Zhang Y #. Genome-wide identification of CRISPR/Cas9 off-targets in human genome. Cell Res. 2014. Aug;24(8):1009-12. (*Contributed equally to this work) (#corresponding author) 

15.Subrahmanyam R, Du H, Ivanova I, Chakraborty T, Ji Y, Zhang Y, Alt FW, Schatz DG, Sen R. Localized epigenetic changes induced by D(H) recombination restricts recombinase to DJ(H) junctions. Nat Immunol. 2012. 13:1205-12 

16.Zhang Y*, McCord RP*, Ho YJ, Lajoie BR, Dominic HG, Simon AC, Becker MS, Alt FW# and Dekker J#. Spatial organization of the mouse genome and its role in recurrent chromosomal translocations. Cell. 2012. 148:908-21 (*Contributed equally to this work) (#corresponding author)

17.Boboila C, Oksenych V, Gostissa M, Wang JH, Zha S, Zhang Y, Chai H, Lee CS, Mila Jankovic, Albertorio Saez LM, Nussenzweig MC, McKinnon PJ, Alt FW, and Schwer B. Robust Chromosomal DSB Repair Via Alternative End-Joining in the Absence of XRCC1. Proc Natl Acad Sci U S A. 2012.  109:2455-60 

18.Chiarle R*, Zhang Y*#, Frock RL*, Lewis SM*, Molinie B, Ho YJ, Myers DR, Choi VW, Compagno M, Malkin DJ, Neuberg D, Monti S, Giallourakis CC#, Gostissa M#, Alt FW#. Genome-wide Translocation Sequencing Reveals Mechanisms of Chromosome Breaks and Rearrangements in B Cells. Cell. 2011. 147: 107-19 (*Contributed equally to this work) (#corresponding author) 

19.Zha S*, Guo C*, Boboila C, Oksenych V, Cheng HL, Zhang Y, Wesemann DR, Yuen G, Patel H, Goff PH, Dubois RL, Alt FW. ATM damage response and XLF repair factor are functionally redundant in joining DNA breaks. Nature. 2011. 469: 250-4 

20.Yamaguchi T*, Cubizolles F*, Zhang Y, Reichert N, Kohler H, Seiser C, Matthias P. Histone deacetylases 1 and 2 act in concert to promote the G1-to-S progression. Genes Dev. 2010. 24: 455-69 

21.Grausenburger R, Bilic I, Boucheron N, Zupkovitz G, El-Housseiny L, Tschismarov R, Zhang Y, Rembold M, Gaisberger M, Hartl A, Epstein MM, Matthias P, Seiser C, Ellmeier W. Conditional deletion of histone deacetylase 1 in T cells leads to enhanced airway inflammation and increased Th2 cytokine production. J Immunol. 2010. 185: 3489-97 

22.Brunmeir R, Lagger S, Simboeck E, Sawicka A, Egger G, Hagelkruys A, Zhang Y, Matthias P, Miller WJ, Seiser C. Epigenetic regulation of a murine retrotransposon by a dual histone modification mark. PLoS Genet. 2010. 6: e1000927 

23.Chakraborty T, Perlot T, Subrahmanyam R, Jani A, Goff PH, Zhang Y, Ivanova I, Alt FW, Sen R.  A 220-nucleotide deletion of the intronic enhancer reveals an epigenetic hierarchy in immunoglobulin heavy chain locus activation. J Exp Med. 2009. 206: 1019-27 

24.Zhang Y, Kwon S, Yamaguchi T, Cubizolles F, Rousseaux S, Kneissel M, Cao C, Li N, Cheng HL, Chua K, Lombard D, Mizeracki A, Matthias G, Alt FW, Khochbin S, Matthias P. Mice lacking histone deacetylase 6 have hyperacetylated tubulin but are viable and develop normally. Mol Cell Biol. 2008. 28: 1688-701 

25.Li G, Alt FW, Cheng HL, Brush JW, Goff PH, Murphy MM, Franco S, Zhang Y, Zha S. Lymphocyte-specific compensation for XLF/cernunnos end-joining functions in V(D)J recombination. Mol Cell. 2008. 31: 631-40 

26.Kwon S, Zhang Y, Matthias P. The deacetylase HDAC6 is a novel critical component of stress granules involved in the stress response. Genes Dev. 2007. 21: 3381-94 

27.Boyault C*, Zhang Y*, Fritah S*, Caron C, Gilquin B, Kwon SH, Garrido C, YaoTP, Vourc'h C, Matthias P, Khochbin S. HDAC6 controls major cell response pathways to cytotoxic accumulation of protein aggregates. Genes Dev. 2007. 21: 2172-81(*Contributed equally to this work) 

28.Zhang Y, Gilquin B, Khochbin S, Matthias P. Two catalytic domains are required for protein deacetylation. J Biol Chem. 2006. 281: 2401-4 

29.Yan CT, Kaushal D, Murphy M, Zhang Y, Datta A, Chen C, Monroe B, Mostoslavsky G, Coakley K, Gao Y, Mills KD, Fazeli AP, Tepsuporn S, Hall G, Mulligan R, Fox E, Bronson R, De Girolami U, Lee C, Alt FW. XRCC4 suppresses medulloblastomas with recurrent translocations in p53-deficient mice. Proc Natl Acad Sci U S A. 2006. 103: 7378-83 

30.Boyault C, Gilquin B, Zhang Y, Rybin V, Garman E, Meyer-Klaucke W, Matthias P, Muller CW, Khochbin S. HDAC6-p97/VCP controlled polyubiquitin chain turnover. EMBO J. 2006. 25: 3357-66 

31.Li N, Zhang Y, Naylor MJ, Schatzmann F, Maurer F, Wintermantel T, Schuetz G, Mueller U, Streuli CH, Hynes NE. Beta1 integrins regulate mammary gland proliferation and maintain the integrity of mammary alveoli. EMBO J. 2005. 24: 1942-53 

32.Zhang Y, Li N, Caron C, Matthias G, Hess D, Khochbin S, Matthias P. HDAC-6 interacts with and deacetylates tubulin and microtubules in vivo. EMBO J. 2003. 22: 1168-79 

33.He Z, Bai J, Zhang Y. Effect of DNA methylation on protein-DNA interaction of HL-60 cells. Sci China C Life Sci. 1999. 42: 501-5

Review Articles:

34. Zhang Y, Gostissa M, Hildebrand DG, Becker MS, Boboila C, Chiarle R, Lewis S, Alt FW. The role of mechanistic factors in promoting chromosomal translocations found in lymphoid and other cancers. Adv Immunol. 2010.  106: 93-133 

35. Alt FW#, Zhang Y, Meng F, Guo C, Schwer B. Mechanisms of programmed DNA lesions and genomic instability in the immune system. Cell. 2013. 152:417-29 (#corresponding author) 

Book:

Zhang Y. (Eds) Chromosome Translocation. Adv Exp Med Biol. 2018. Vol. 1044.

Google scholar link:

https://scholar.google.com.hk/citations?hl=en&user=FWuykE4AAAAJ&view_op=list_works&sortby=pubdate