Research

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Recent Zhang Lab Publications

2016

Loss of HDAC-mediated repression and gain of NF-kB-mediated activation underlie cytokine induction in ARID1A and PIK3CA mutations-driven ovarian cancer.
Kim, M., Lu, F., and Zhang, Y.
(2016).  Cell Reports.  In Press.  (PDF)

Base-resolution profiling of active DNA demethylation using MAB-seq and caMAB-seq.
Wu, H., Wu X., and Zhang, Y.
(2016). Nature Protocols. 11(6):1081-1100. (PDF)

Establishing Chromatin Regulatory Landscape during Mouse Preimplantation Development.
Lu, F., Liu Y., Inoue A., Suzuki T., Zhao K., and Zhang, Y.
(2016). Cell. 165:1375-1388. (PDF)


2015

Histone demethylase expression enhances human somatic cell nuclear efficiency and promotes derivation of pluripotent stem cells

Chung, Y.G., Matoba, S., Liu, Y., Eum, J.H., Lu, F., Jiang, W., Lee, J.E., Sepilian, V., Cha, K.Y., Lee, D.R., and Zhang, Y.
2015).  Cell Stem Cell.  Dec 3;17(6):758-66  (PDF)

Haploinsufficiency, but not defective paternal 5mC oxidation, accounts for the developmental defects of maternal Tet3 knockouts.
Inoue, A., Shen, L., Matoba, S., and Zhang, Y.
(2015). Cell Reports 10, 463-470. (PDF)


LncRNA DEANR1 facilitates human endoderm differentiation by activating FOXA2 expression.
Jiang, W., Liu, Y., Liu, R., Zhang, K., and Zhang, Y.
(2015). Cell Reports Apr 7;11(1):137-48 (PDF)


2014


Wang, Y., and Zhang, Y.
Cell Reports (2014), Volume: 6, Issue: 2, Pages: 278-284.

Wu, H., and Zhang, Y.
Cell (2014), Volume: 156, Issue: 1, Pages: 45-68.

Inoue A, Zhang Y.
Nat Struct Mol Biol (2014), Volume: 21, Issue: 7, Pages: 609-616.

Shen L, Song CX, He C, Zhang Y.
Annu Rev Biochem (2014), Volume: 83, Pages: 585-614.

Tuesta LM, Zhang Y.

EMBO J (2014), Volume: 33, Issue: 10, Pages: 1091-1103.

Role of Tet proteins in enhancer activity and telomere elongation.
Lu, F., Liu, Y., Jiang, L., Yamaguchi, S. and Zhang, Y.
(2014) Genes Dev. 28, 2103-2119.

Tet3 and DNA replication mediate demethylation of both the maternal and paternal genomes in mouse zygotes.
Shen, L., Inoue, A., He, J., Liu, Y., Lu, F., and Zhang, Y. 
(2014) Cell Stem Cell 15, 459-470.

Embryonic development following somatic cell nuclear transfer impeded by persisting histone methylation.
Matoba, S., Liu, Y., Lu, F., Iwabuchi, K.A., Shen, L., Inoue, A., and Zhang, Y.
(2014). Cell 159, 884-895.

Single-base resolution analysis of active DNA demethylation using methylase-assisted bisulfite sequencing.
Wu, H., Wu, X., Shen, L., and Zhang, Y. 
(2014). Nature Biotech. 32, 1231-40.

Neocortical Tet3-mediated accumulation of 5-hydroxymethylcytosine promotes rapid behavioral adaptation.
Li, X., Wei, W., Zhao, Q-Y., Widagdo, J., Baker-Andresen, D., Flavell, C.R., D’Alessio, A., Zhang, Y., and Bredy, T.W.
(2014). PNAS 111, 7120-25.


2013


Liang G, Zhang Y.
Cell Res. (2013), Volume: 23, Issue: 1, Pages: 49-69.

Jiang W, Wang J, Zhang Y.
Cell Res. (2013), Volume: 23, Issue: 1, Pages: 122-30.

Yamaguchi S, Hong K, Liu R, Inoue A, Shen L, Zhang K, Zhang Y.
Cell Res. (2013).

He, J., Shen, L., Wan, M., Taranova, O., Wu, H., and Zhang, Y.
Nat Cell Biol. (2013).

Shen, L., Zhang, Y.
Cell Biology (2013), Volume: 25, Pages: 373-384.

Shen, L.*, Wu, H.*†, Diep, D., Yamaguchi, S., D'Alessio, A., Fung, H., Zhang, K., and Zhang, Y.
Cell (2013), Volume: 153, Pages: 692-706.

Lin, F., Shen, L., Jang, C., Falnes, P., and Zhang, Y.
PLoS Genetics (2013), Volume: 9, Issue: e1003516.

Jiang, W., Zhang, D., Bursac, N., Zhang, Y.
Stem Cell Reports (2013), Volume: 1, Pages: 46-52.

Liang, G., Zhang, Y.
Cell Stem Cell (2013), Volume: 13, Pages: 149-59.

Ran, F.A., Hsu, P.D., Lin, C.Y., Gootenberg, J.S., Konermann, S., Trevino, A.E., Scott, D.A., Inoue, A., Matoba, S., Zhang, Y., Zhang, F.
Cell (2013), Volume: 154, Pages: 1380-1389.

Cheng, J., Guo, S., Chen, S., Mastriano, S. J., Liu, C., D’Alessio, A. C., et al.
Cell Reports (2013), Volume: 5, Pages: 471-481.

Kohli, R.M., Zhang, Y.
Nature (2013), Volume: 502, Pages: 472-479.

Yamaguchi, S., Shen, L., Liu, Y., Sendler, D., and Zhang, Y.
Nature (2013), Volume: 504, Pages: 460-464.



Publications from “2012”


Shen, L., Zhang, Y.
Methods Enzymol. (2012), Volume: 512, Pages: 93-105.

Liang, G., He, J., Zhang, Y.
Nat Cell Biol. (2012), Volume: 14, Issue: 5, Pages: 457-66.

Wu, H., and Zhang, Y.
Cell Stem Cell (2012), Volume: 10, Issue: 5, Pages: 487-489.

Nabel, C.S., Jia, H., Ye, Y., Shen, L., Goldschmidt, H.L., Stivers, J.T., Zhang, Y., and Kohli, R.M.
Nat Chem Biol. (2012), Volume: 8, Issue: 9, Pages: 751-758.

Yamaguchi, S.*, Hong, K.*, Liu, R.*, Shen, L., Inoue, A., Deip, D., Zhang, K., and Zhang, Y.
Nature (2012), Volume: 492, Issue: 7429, Pages: 443–447.

Inoue A, Matoba S, Zhang Y.
Cell Res. (2012), Volume: 22, Issue: 12, Pages: 1640-9. 
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