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Showing papers by "Yun Huang published in 2013"

Journal Article•DOI•
Global Epigenomic Reconfiguration During Mammalian Brain Development

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Ryan Lister1, Ryan Lister2, Eran A. Mukamel1, Joseph R. Nery1, Mark A. Urich1, Clare A. Puddifoot1, Nicholas D. Johnson1, Jacinta Lucero1, Yun Huang3, Andrew J. Dwork4, Matthew D. Schultz1, Matthew D. Schultz5, Miao Yu6, Julian Tonti-Filippini2, Holger Heyn, Shijun Hu7, Joseph C. Wu7, Anjana Rao3, Manel Esteller8, Chuan He6, Fatemeh Haghighi4, Terrence J. Sejnowski5, Terrence J. Sejnowski1, M. Margarita Behrens1, Joseph R. Ecker1 •
Salk Institute for Biological Studies1, University of Western Australia2, La Jolla Institute for Allergy and Immunology3, Columbia University4, University of California, San Diego5, University of Chicago6, Stanford University7, Catalan Institution for Research and Advanced Studies8
09 Aug 2013-Science
TL;DR: The results extend the knowledge of the unique role of DNA methylation in brain development and function, and offer a new framework for testing the role of the epigenome in healthy function and in pathological disruptions of neural circuits.
Abstract: DNA methylation is implicated in mammalian brain development and plasticity underlying learning and memory. We report the genome-wide composition, patterning, cell specificity, and dynamics of DNA methylation at single-base resolution in human and mouse frontal cortex throughout their lifespan. Widespread methylome reconfiguration occurs during fetal to young adult development, coincident with synaptogenesis. During this period, highly conserved non-CG methylation (mCH) accumulates in neurons, but not glia, to become the dominant form of methylation in the human neuronal genome. Moreover, we found an mCH signature that identifies genes escaping X-chromosome inactivation. Last, whole-genome single-base resolution 5-hydroxymethylcytosine (hmC) maps revealed that hmC marks fetal brain cell genomes at putative regulatory regions that are CG-demethylated and activated in the adult brain and that CG demethylation at these hmC-poised loci depends on Tet2 activity.

1,629 citations

Journal Article•DOI•
Stage-Specific Roles for Tet1 and Tet2 in DNA Demethylation in Primordial Germ Cells

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John J. Vincent1, Yun Huang2, Pao-Yang Chen1, Pao-Yang Chen3, Suhua Feng1, Joseph Hargan Calvopina1, Kevin Nee1, Serena A. Lee1, Thuc Le1, Alexander J. Yoon1, Kym F. Faull1, Guoping Fan1, Anjana Rao2, Steven E. Jacobsen, Matteo Pellegrini1, Amander T. Clark1 •
University of California, Los Angeles1, La Jolla Institute for Allergy and Immunology2, Academia Sinica3
04 Apr 2013-Cell Stem Cell
TL;DR: A revised model of PGC DNA demethylation is supported in which the first phase of comprehensive 5mC loss does not involve 5hmC, and instead Tet1 and Tet2 have a locus-specific role in shaping the PGC epigenome during subsequent development.

157 citations