Valproic acid targets IDH1 mutants through alteration of lipid metabolism by Lubayna S. Elahi, Michael C. Condro, Riki Kawaguchi, Yue Qin, Alvaro G. Alvarado, Brandon Gruender, Haocheng Qi, Tie Li, Albert Lai, Maria G. Castro, Pedro R. Lowenstein, Matthew C. Garrett, Harley I. Kornblum

“…Surprisingly, genes upregulated by VPA showed no enhanced chromatin accessibility at the promoter, but there was a correlation between VPA-downregulated genes and diminished promoter chromatin accessibility. …”
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Long non-coding RNAs direct the SWI/SNF complex to cell type-specific enhancers by James A. Oo, Timothy Warwick, Katalin Pálfi, Frederike Lam, Francois McNicoll, Cristian Prieto-Garcia, Stefan Günther, Can Cao, Yinuo Zhou, Alexey A. Gavrilov, Sergey V. Razin, Alfredo Cabrera-Orefice, Ilka Wittig, Soni Savai Pullamsetti, Leo Kurian, Ralf Gilsbach, Marcel H. Schulz, Ivan Dikic, Michaela Müller-McNicoll, Ralf P. Brandes, Matthias S. Leisegang

“…Abstract The coordination of chromatin remodeling is essential for DNA accessibility and gene expression control. …”
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Methods of massive parallel reporter assays for investigation of enhancers by S. E. Romanov, D. A. Kalashnikova, P. P. Laktionov

“…However, common experimental approaches used to study the local characteristics of chromatin have a number of technical limitations that may reduce the reliability of computational identification of genomic regulatory sequences. …”
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Surprising features of nuclear receptor interaction networks revealed by live-cell single-molecule imaging by Liza Dahal, Thomas GW Graham, Gina M Dailey, Alec Heckert, Robert Tjian, Xavier Darzacq

“…Type II nuclear receptors (T2NRs) require heterodimerization with a common partner, the retinoid X receptor (RXR), to bind cognate DNA recognition sites in chromatin. Based on previous biochemical and overexpression studies, binding of T2NRs to chromatin is proposed to be regulated by competition for a limiting pool of the core RXR subunit. …”
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Functional properties of the Su(Hw) complex are determined by its regulatory environment and multiple interactions on the Su(Hw) protein platform by L. S. Melnikova, M. V. Kostyuchenko, V. V. Molodina, P. G. Georgiev, A. K. Golovnin

“…Some insulator complexes contribute to the higher-order organization of chromatin in topologically associated domains that are fundamental elements of the eukaryotic genomic structure. …”
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Diagnosis and Prognosis of Neuroendocrine Tumours of the Lung by Means of High Resolution Image Analysis by Uta Jütting, Peter Gais, Karsten Rodenacker, Joachim Böhm, Susanne Koch, Heinz W. Präuer, Heinz Höfler

“…The WDNEC cases are more similar in chromatin structure to TC than to SCLC. For the survival analysis, only chromatin features were selected to differentiate patients with better and worse prognosis independent of staging and tumour type.…”
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Chemical catalyst manipulating cancer epigenome and transcription by Yuki Yamanashi, Shinpei Takamaru, Atsushi Okabe, Satoshi Kaito, Yuto Azumaya, Yugo R. Kamimura, Kenzo Yamatsugu, Tomoya Kujirai, Hitoshi Kurumizaka, Atsushi Iwama, Atsushi Kaneda, Shigehiro A. Kawashima, Motomu Kanai

“…This H2BK120 acetylation-mediated removal of NELFE from chromatin reshapes transcription, slows leukemia cell viability, and reduces their tumorigenic potential in mice. …”
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Epigenetic Dynamics: Role of Epimarks and Underlying Machinery in Plants Exposed to Abiotic Stress by Manoj Kumar Dhar, Parivartan Vishal, Rahul Sharma, Sanjana Kaul

“…We provide examples of gene expression changes that are brought about by conversion of active chromatin to silent heterochromatin and vice versa. …”
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Primary Cardiac Burkitt Lymphoma Presenting with Abdominal Pain by Dimitrios Tzachanis, Rajan Dewar, Katarina Luptakova, James D. Chang, Robin M. Joyce

“…The pericardial fluid contained a large number of highly atypical lymphocytes with moderate basophilic cytoplasm, rare punched-out vacuoles, a vesicular nuclear chromatin, large nucleolus, and marginated chromatin that by FISH were positive for the 8;14 translocation. …”
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Nutrigenomic regulation of sensory plasticity by Hayeon Sung, Anoumid Vaziri, Daniel Wilinski, Riley KR Woerner, Lydia Freddolino, Monica Dus

“…Here, we show that the metabolic enzyme O-GlcNAc Transferase (OGT) moonlights on the chromatin of the D. melanogaster gustatory neurons to instruct changes in chromatin accessibility and transcription that underlie sensory adaptations to a high-sugar diet. …”
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Epigenetics and Shared Molecular Processes in the Regeneration of Complex Structures by Labib Rouhana, Junichi Tasaki

“…This review provides an overview of known contributions to regenerative processes by noncoding RNAs and chromatin-modifying enzymes involved in epigenetic regulation.…”
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Epigenetic Modifications and Potential New Treatment Targets in Diabetic Retinopathy by Lorena Perrone, Carmela Matrone, Lalit P. Singh

“…Recent studies also underline the role of epigenetic chromatin modifications as mediators of the metabolic memory. …”
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Epigenetic Application of ATAC-Seq Based on Tn5 Transposase Purification Technology by Wangchun Li, U Tim Wu, Yu Cheng, Yanhao Huang, Lipeng Mao, Menghan Sun, Congling Qiu, Lin Zhou, Lijuan Gao

“…Assays of transposase accessible chromatin sequencing (ATAC-seq) is an efficient assay to investigate chromatin accessibility, which depends on the activity of a robust Tn5 transposase to fragment the genome while cutting in the sequencing adapters. …”
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SMC translocation is unaffected by an excess of nucleoid associated proteins in vivo by Zhongqing Ren, Lindsey E. Way, Xindan Wang

“…By fluorescence microscopy and chromatin immunoprecipitation, we observed that these proteins bound to the genome in characteristic manners. …”
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Oxidative Stress and DNA Methylation in Prostate Cancer by Krishna Vanaja Donkena, Charles Y. F. Young, Donald J. Tindall

“…DNA methylation is perhaps the most extensively studied epigenetic modification, which plays an important role in the regulation of gene expression and chromatin architecture, in association with histone modification and other chromatin-associated proteins. …”
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Promoter capture Hi-C identifies promoter-related loops and fountain structures in Arabidopsis by Dingyue Wang, Suxin Xiao, Jiayue Shu, Lingxiao Luo, Minqi Yang, Myriam Calonje, Hang He, Baoxing Song, Yue Zhou

“…We find that promoter-related loops mainly repress gene transcription and are associated with ordered chromatin structures, such as topologically associating domains and fountains-chromatin structures not previously identified in Arabidopsis. …”
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The role of highly dispersed silica nanoparticles in the realization of the effects of granulosa on the maturation and fertilization competence of <i>Sus scrofa domesticus</i> oocy... by T. I. Kuzmina, I. V. Chistyakova, A. O. Prituzhalova, D. N. Tatarskaya

“…Analysis of the oocyte chromatin status by the Tarkowsky method and assessment of the level of destructive changes in chromatin (apoptosis, pyknosis) revealed a significant percentage increase in matured oocytes and a decrease in the proportion of granulosa cells with degenerated chromatin when using the original culture system. …”
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Two Sides of the Same Coin: TFIIH Complexes in Transcription and DNA Repair by Alexander Zhovmer, Valentyn Oksenych, Frédéric Coin

“…Recently, a new technique combining chromatin immunoprecipitation and western blotting resolved the hidden nature of the TFIIH complex participating in DNA repair. …”
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Divalent Metal- and High Mobility Group N Protein-Dependent Nucleosome Stability and Conformation by Michelle S. Ong, Dileep Vasudevan, Curt A. Davey

“…High mobility group N proteins (HMGNs) bind specifically to the nucleosome core and act as chromatin unfolding and activating factors. Using an all-Xenopus system, we found that HMGN1 and HMGN2 binding to nucleosomes results in distinct ion-dependent conformation and stability. …”
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A Systemic Network Triggered by Human Cytomegalovirus Entry by Anyou Wang, Li Ren, Hong Li

“…The up-regulated network contains various functional modules, such as cell surface receptors, skeletal development, endocytosis, ion transport, and chromatin remodeling. Interestingly, macromolecule metabolism and chromatin remodeling module predominates this over-expressed system, suggesting that the fundamental nuclear process modulation is one of the most important events in HCMV entry. …”
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