PAPERS PRESENTED IN EPIGENETICS JOURNAL CLUB
MTHFD1 Controls DNA methylation in Arabidopsis: http://www.nature.com/articles/ncomms11640.pdf
H. Strickfaden et al. Poly(ADP-ribosyl)ation-dependent Transient Chromatin Decondensation and Histone Displacement following Laser Microirradiation. J Biol. Chem. 291(4):1789-802; 2016.
M. Dieuleveult et al. Genome-wide nucleosome specificity and function of chromatin remodellers in ES cells. Nature 530(7588):113-6; 2016
M. Yu et al. RNA polymerase II–associated factor 1 regulates the release and phosphorylation of paused RNA polymerase II. Science 350(6266):1383-6; 2015
Y. Matsumura et al. H3K4/H3K9me3 Bivalent Chromatin Domains Targeted by Lineage-Specific DNA Methylation Pauses Adipocyte Differentiation. Molec Cell 60:584; 2015.
D. Zhao et al. SMN and symmetric arginine dimethylation of RNA polymerase II C-terminal domain control termination. Nature 529:48; 2016.
Q. Zhang et al. Tet2 is required to resolve inflammation by recruiting Hdac2 to specifically repress IL-6. Nature 525(7569):389-93; 2015.
Y. Wei et al. Enriched Environment-induced Maternal Weight Loss Reprograms Metabolic Gene Expression in Mouse Offspring. J Biol. Chem. 290:4604-19; 2015.
S. Duttke et al. Human promoters are intrinsically directional. Molec. Cell 57:674; 2015.
F. Lai et al. Integrator mediates the biogenesis of enhancer RNAs. Nature 525:399; 2015.
J. Zhu et al. Gain-of-function p53 mutants co-opt chromatin pathways to drive cancer growth. Nature 525(7568):206-11; 2015.
Rotem et al. Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state. Nature Biotech. 33:1165; 2015.
V. Mutskov et al. Early Life Physical Activity Reverses Metabolic and Foxo1 Epigenetic Misregulation Induced by Gestational Sleep Disturbance. Am J Physiol Regul Integr Comp Physiol 308(5):R419-30; 2015
V. Liyanage et al. Ethanol deregulates Mecp2/MeCP2 in differentiating neural stem cells via interplay between 5-methylcytosine and 5-hydroxymethylcytosine at the Mecp2 regulatory elements. Exp Neurol. 265:102; 2015.
F. Neri et al. Single-Base Resolution Analysis of 5-Formyl and 5-Carboxyl Cytosine Reveals Promoter DNA Methylation Dynamics. Cell Reps. 10:674; 2015.
Yearim et al. HP1 Is Involved in Regulating the Global Impact of DNA Methylation on Alternative Splicing. Cell Reps. 10:1122; 2015.
Moussaieff et al. Glycolysis-Mediated Changes in Acetyl-CoA and Histone Acetylation Control the Early Differentiation of Embryonic Stem Cells. Cell Metab. 21:392; 2015.
J. Guo et al. Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain. Nature Neurosci. 17:215; 2014.
LJ Core et al. Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers. Nat Genet. 46(12):1311-20; 2014.
L. Wen et al. Whole-genome analysis of 5-hydroxymethylcytosine and 5-methylcytosine at base resolution in the human brain. Genome Biol. 15:R49; 2014.
H. Wu et al. Tissue-Specific RNA Expression Marks Distant-Acting Developmental Enhancers. PLoS Genet 10(9):e1004610; 2014.
N.P. Blackledge et al. Variant PRC1 Complex-Dependent H2A Ubiquitylation Drives PRC2 Recruitment and Polycomb Domain Formation. Cell 157(6):1445-59; 2014.
H. Guo et al. The DNA methylation landscape of human early embryos. Nature 511:606; 2014.
Smith et al. DNA methylation dynamics of the human preimplantation embryo. Nature 511:611; 2014.
P. Batista et al. m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells. Cell Stem Cell 15(6):707-19; 2014.
K. Schaukowitch et al. Enhancer RNA Facilitates NELF Release from Immediate Early Genes. Molec Cell 56:29;2014.
V. Hovestadt et al. Decoding the regulatory landscape of medulloblastoma using DNA methylation sequencing. Nature 510:537; 2014.
L. Gaydos et al. H3K27me and PRC2 transmit a memory of repression across generations and during development. Science 345:1515; 2014.
S. Kaneko et al. Interactions between JARID2 and Noncoding RNAs Regulate PRC2 Recruitment to Chromatin. Molec Cell 53:290; 2014.
R. Massart et al. The genome-wide landscape of DNA methylation and hydroxymethylation in response to sleep deprivation impacts on synaptic plasticity genes. Transl. Psychiatry 4:3347; 2014.
G. Andrey et al. A Switch Between Topological Domains Underlies HoxD Genes Collinearity in Mouse Limbs. Science 340(6137): 1234167; 2013.
Di Ruscio et al. DNMT1-interacting RNAs block gene-specific DNA methylation. Nature 503:371; 2013.
R. Ostuni et al. Latent enhancers activated by stimulation in differentiated cells. Cell 152:157; 2013.
F. Neri et al. Dnmt3L antagonizes DNA methylation at bivalent promoters and favors DNA methylation at gene bodies in ESCs. Cell 155:121; 2013.
D. Colak et al. Promoter-Bound Trinucleotide Repeat mRNA Drives Epigenetic Silencing in Fragile X Syndrome. Science 343:1002; 2014.
J. Loven et al. Promoter-Bound Trinucleotide Repeat mRNA Drives Epigenetic Silencing in Fragile X Syndrome. Cell 153:320; 2013.
X. Wang et al. Promoter-Bound Trinucleotide Repeat mRNA Drives Epigenetic Silencing in Fragile X Syndrome. Nature 505:117; 2014.
S. Cortijo et al. Mapping the Epigenetic Basis of Complex Traits. Science 343:1145; 2014.
L. Wang et al. CARM1 Methylates Chromatin Remodeling Factor BAF155 to Enhance Tumor Progression and Metastasis. Cancer Cell 25:21; 2014.
S. Horvath. DNA methylation age of human tissues and cell types. Genome Biol. 14:R115; 2013.
R. Lister et al. Global Epigenomic Reconfiguration During Mammalian Brain Development. Science 341 (6146):1237905; 2013.
MJ Ziller et al. Charting a dynamic DNA methylation landscape of the human genome. Nature 500(7463):477-81; 2013.
W. Whyte et al. Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes. Cell 153:307; 2013.
J. Engreitz et al. The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome. Science 341(6147):1237973; 2013.
CS Park et al. Genome-wide analysis of H4K5 acetylation associated with fear memory in mice. BMC Genomics 14:539; 2013.
C. Lorthongpanich et al. Single-Cell DNA-Methylation Analysis Reveals Epigenetic Chimerism in Preimplantation Embryos. Science 341:1110; 2013.
FM Vassoler et al. Epigenetic inheritance of a cocaine-resistance phenotype. Nature Neurosci. (1):42-7; 2013.