BBS Faculty Member - Yi Zhang

Yi Zhang

Department of Genetics

Boston Children's Hospital
Warren Alpert Building, Room 149G
200 Longwood Ave.
Boston, MA 02115
Tel: 617-713-8666
Fax: 617-713-8665
Visit my lab page here.

The Zhang lab is interested in how epigenetic modification-mediated dynamic changes in chromatin structure affects gene expression, stem cell reprogramming, germ cell development, beta-cell generation, and drug addiction. In the past decade, the lab has worked on a number of projects that span many aspects of epigenetic modifications that include: 1) ATP-dependent nucleosome-remodeling and deacetylase complex NuRD; 2) various histone methyltransferases, including PRC2 (EZH2) and DOT1L; 3) various histone demethylases such as JmjC family demethylases; 4) histone H2A ubiquitin E3 ligase PRC1; and 5) the Tet family of 5-methylsytosine dioxygenases. Build on the past 15 years of success, the lab has developed and adapted new technologies to meet the new challenges.

The lab is using cutting-edge technologies, such as live cell imaging, protein depletion in developing oocytes, single-cell RNA-seq and RRBS, to understand the role of dynamic changes
DNA methylation and histone modifications in regulating gene expression during early embryogenesis, germ cell development, stem cell reprogramming (iPS and SCNT), cancer drug resistance, beta-cell regeneration and neurogenesis. The available rotation projects include:

1) epigenetic mechanism of cancer drug resistance;
2) mechanism of pluripotency and totipotency conversion;
3) mechanism of iPSC generation and SCNT-mediated reprogramming;
4) CpG island chromatin formation;
5) Role of Tet and 5mC oxidation products in differentiation and brain function.

Last Update: 7/22/2015


For a complete listing of publications click here.



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

Jiang, W., Liu, Y., Liu, R., Zhang, K., and
Zhang, Y. (2015). LncRNA DEANR1 facilitates human endoderm differentiation by activating FOXA2 expression. Cell Reports 11, 137-148.

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

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

Wu, H., and
Zhang, Y. (2014). Reversing DNA methylation: mechanisms, genomics, and biological functions. Cell 156, 45-68.

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

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

Inoue, A., and
Zhang, Y. (2014). Nucleosome assembly is required for nuclear pore complex assembly in mouse zygotes. Nature SMB 21, 609-16.

Shen, L., Song, C-X., He, C., and
Zhang, Y. (2014). Mechanism and function of oxidative reversal of DNA and RNA methylation. Annu. Rev. Biochem. 83, 585-614.

Tuesta, L.M., and
Zhang, Y. (2014). Mechanisms of epigenetic memory and addiction. EMBO J. 33, 1091-1103.

Wang, Y., and
Zhang, Y. (2014). Regulation of TET protein stability by calpains. Cell Reports 6, 278-84.

© 2015 by the President and Fellows of Harvard College