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执行室

张昱 博士

发表文章

Publications (Now-2013)

1.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.

2.Hua X*, Hu G*, Hu Q*, Chang Y, Hu Y, Gao L, Chen X, Yang P, Zhang Y#, Li M#, Song J#. Single-cell RNA-sequencing for dissecting the immunological network in autoimmune myocarditis. Circulation. 2020. 142:384-400. (*Contributed equally to this work) (#corresponding author)

3.Han D, Hong Y, Mai X, Hu Q, Lu G, Duan J, Xu J, Si X, Zhang Y #. Systematical study of the mechanistic factors regulating genome dynamics in vivo by CRISPRsie. Journal of Molecular Cell Biology. 2019.074 (#corresponding author)

4.Pan S, Lin Y, Liu Q, Duan J, Lin Z, Wang Y, Wang X, Lam S, Zou Z, Shui G, Zhang Y, Zhang Z, Zhan X. Convergent genomic signatures of flight loss in birds suggest a switch of main fuel. Nature Communications. 2019.2756

5.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. 2018.19:192(*Contributed equally to this work) (#corresponding author)

6.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 (*Contributed equally to this work) (#corresponding author)

7.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

8.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

9.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

10.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)

11.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

12.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)

 

Publications (2012-1999)

13.Subrahmanyam R, , 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

14.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)

15.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

16.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)

17.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

18.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

19.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

20.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

21.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

22.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

23.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

24.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

25.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)

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

27.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

28.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

29.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

30.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

31.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

 

Book:

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

 

INVITED REVIEW ARTICLE

1. 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

2. 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)

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