Browsing by Author "Zhang, Yi"
Now showing items 1-20 of 29
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5mC and 5hmC dynamics during PGC reprogramming and role of Tet1 in female meiosis
Yamaguchi, Shinpei; Hong, Kwonho; Liu, Rui; Shen, Li; Inoue, Azusa; Diep, Dinh; Zhang, Kun; Zhang, Yi (BioMed Central, 2013) -
Cell cycle and p53 gate the direct conversion of human fibroblasts to dopaminergic neurons
Jiang, Houbo; Xu, Zhimin; Zhong, Ping; Ren, Yong; Liang, Gaoyang; Schilling, Haley A.; Hu, Zihua; Zhang, Yi; Wang, Xiaomin; Chen, Shengdi; Yan, Zhen; Feng, Jian (Nature Publishing Group, 2015)The direct conversion of fibroblasts to induced dopaminergic (iDA) neurons and other cell types demonstrates the plasticity of cell fate. The low efficiency of these relatively fast conversions suggests that kinetic barriers ... -
Charting oxidized methylcytosines at base resolution
Yardimci, Hasan; Zhang, Yi (Nature Publishing Group, 2015)DNA cytosine methylation is a key epigenetic mark that is required for normal mammalian development. Iterative oxidation of 5-methylcytosine (5mC) by the TET family of DNA dioxygenases generates three oxidized nucleotides: ... -
Dynamics of 5-methylcytosine and 5-hydroxymethylcytosine during germ cell reprogramming
Yamaguchi, Shinpei; Hong, Kwonho; Liu, Rui; Inoue, Azusa; Shen, Li; Zhang, Kun; Zhang, Yi (Nature Publishing Group, 2013)Previous studies have revealed that mouse primordial germ cells (PGCs) undergo genome-wide DNA methylation reprogramming to reset the epigenome for totipotency. However, the precise 5-methylcytosine (5mC) dynamics and its ... -
eccDNAs are apoptotic products with high innate immunostimulatory activity
Wang, Yuangao; Wang, Meng; Djekidel, Mohamed Nadhir; Chen, Huan; Liu, Di; Alt, Frederick; Zhang, Yi (Springer Science and Business Media LLC, 2021-10-20) -
Embryonic Development following Somatic Cell Nuclear Transfer Impeded by Persisting Histone Methylation
Matoba, Shogo; Liu, Yuting; Lu, Falong; Iwabuchi, Kumiko A; Inoue, Azusa; Zhang, Yi (Elsevier BV, 2014)Mammalian oocytes can reprogram somatic cells into a totipotent state enabling animal cloning through somatic cell nuclear transfer (SCNT). However, the majority of SCNT embryos fail to develop to term due to undefined ... -
Establishing Chromatin Regulatory Landscape during Mouse Preimplantation Development
Lu, Falong; Liu, Yuting; Inoue, Azusa; Suzuki, Tsukasa; Zhao, Keji; Zhang, Yi (Elsevier BV, 2016)How the chromatin regulatory landscape in the inner cell mass cells is established from differentially packaged sperm and egg genomes during preimplantation development is unknown. Here, we develop a low-input DNase I ... -
Genome-wide analysis reveals TET-and TDG-mediated 5-methylcytosine oxidation dynamics
Shen, Li; Wu, Hao; Diep, Dinh; D’Alessio, Ana C; Fung, Alan; Zhang, Kun; Zhang, Yi (BioMed Central, 2013) -
Genomic imprinting of Xist by maternal H3K27me3
Inoue, Azusa; Jiang, Lan; Lu, Falong; Zhang, Yi (Cold Spring Harbor Laboratory, 2017-10-01)Maternal imprinting at the Xist gene is essential to achieve paternal allele-specific imprinted X-chromosome inactivation (XCI) in female mammals. However, the mechanism underlying Xist imprinting is unclear. Here we show ... -
Haploinsufficiency, but Not Defective Paternal 5mC Oxidation, Accounts for the Developmental Defects of Maternal Tet3 Knockouts
Inoue, Azusa; Shen, Li; Matoba, Shogo; Zhang, Yi (Elsevier BV, 2015)Paternal DNA demethylation in mammalian zygotes is achieved through Tet3-mediated iterative oxidation of 5-methylcytosine (5mC) coupled with replication-dependent dilution. Tet3-mediated paternal DNA demethylation is ... -
HIRA-mediated H3.3 deposition is required for de novo paternal nuclear envelope formation in mouse zygotes
Inoue, Azusa; Zhang, Yi (BioMed Central, 2013) -
Histone Demethylase Expression Enhances Human Somatic Cell Nuclear Transfer Efficiency and Promotes Derivation of Pluripotent Stem Cells
Chung, Young Gie; Matoba, Shogo; Liu, Yuting; Eum, Jin Hee; Lu, Falong; Jiang, Wei; Lee, Jeoung Eun; Sepilian, Vicken; Cha, Kwang Yul; Lee, Dong Ryul; Zhang, Yi (Elsevier BV, 2015)The extremely low efficiency of human embryonic stem cell (hESC) derivation using somatic cell nuclear transfer (SCNT) limits its potential application. Blastocyst formation from human SCNT embryos occurs at a low rate and ... -
Ikbkap/Elp1 Deficiency Causes Male Infertility by Disrupting Meiotic Progression
Lin, Fu-Jung; Shen, Li; Jang, Chuan-Wei; Falnes, Pål Ø.; Zhang, Yi (Public Library of Science, 2013)Mouse Ikbkap gene encodes IKAP—one of the core subunits of Elongator—and is thought to be involved in transcription. However, the biological function of IKAP, particularly within the context of an animal model, remains ... -
The lncRNA DEANR1 Facilitates Human Endoderm Differentiation by Activating FOXA2 Expression
Jiang, Wei; Liu, Yuting; Liu, Rui; Zhang, Kun; Zhang, Yi (Elsevier BV, 2015)Long non-coding RNAs (lncRNAs) regulate diverse biological processes, including cell lineage specification. Here, we report transcriptome profiling of human endoderm and pancreatic cell lineages using purified cell ... -
Loss of HDAC-Mediated Repression and Gain of NF-?B Activation Underlie Cytokine Induction in ARID1A- and PIK3CA-Mutation-Driven Ovarian Cancer
Kim, Minchul; Lu, Falong; Zhang, Yi (Elsevier BV, 2016)ARID1A is frequently mutated in ovarian clear cell carcinoma (OCCC) and often co-exists with activating mutations of PIK3CA. Although induction of pro-inflammatory cytokines has been observed in this cancer, the mechanism ... -
Myc and Dnmt1 Impede the Pluripotent to Totipotent State Transition in Embryonic Stem Cells
Fu, Xudong; Wu, Xiaoji; Djekidel, Mohamed Nadhir; Zhang, Yi (Springer Science and Business Media LLC, 2019-06-17)Totipotency refers to the ability of a cell to generate all the cell types of an organism. Unlike pluripotency, the establishment of totipotency is poorly understood. In mouse embryonic stem cells (mESCs), Dux drives a ... -
Negative Allosteric Modulation of mGluR5 Partially Corrects Pathophysiology in a Mouse Model of Rett Syndrome
Tao, Jifang; Wu, Hao; Coronado, Amanda A.; de Laittre, Elizabeth; Osterweil, Emily K.; Zhang, Yi; Bear, Mark F. (Society for Neuroscience, 2016)Rett syndrome (RTT) is caused by mutations in the gene encoding methyl-CpG binding protein 2 (MECP2), an epigenetic regulator of mRNA transcription. Here, we report a test of the hypothesis of shared pathophysiology of RTT ... -
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.; Zhang, Yi; Bredy, T. W.; D'Alessio, Ana (Proceedings of the National Academy of Sciences, 2014)5-hydroxymethylcytosine (5-hmC) is a novel DNA modification that is highly enriched in the adult brain and dynamically regulated by neural activity. 5-hmC accumulates across the lifespan; however, the functional relevance ... -
Nucleosome Assembly Is Required for Nuclear Pore Complex Assembly in Mouse Zygotes
Inoue, Azusa; Zhang, Yi (Springer Nature, 2014)Packaging of DNA into nucleosomes not only helps to store genetic information but also creates diverse means for regulating DNA-templated processes. Attempts to reveal additional functions of the nucleosome have been ... -
Regulation of TET Protein Stability by Calpains
Wang, Yu; Zhang, Yi (Elsevier BV, 2014)DNA methylation at the fifth position of cytosine (5mC) is an important epigenetic modification that affects chromatin structure and gene expression. Recent studies have established a critical function of the Ten-eleven ...