Decreased SynMuv B gene activity in response to viral infection leads to activation of the antiviral RNAi pathway in C. elegans. by Ashwin Seetharaman, Himani Galagali, Elizabeth Linarte, Mona H X Liu, Jennifer D Cohen, Kashish Chetal, Ruslan Sadreyev, Alex J Tate, Taiowa A Montgomery, Gary Ruvkun

“…Many synMuv B genes encode dREAM complex chromatin-regulatory proteins found in nearly all animals and plants. …”
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Neurotoxic Effect of Myricitrin in Copper-Induced Oxidative Stress Is Mediated by Increased Intracellular Ca²⁺ Levels and ROS/p53/p38 Axis by Ignacija Vlašić, Antonio Krstačić-Galić, Anđela Horvat, Nada Oršolić, Anja Sadžak, Lucija Mandić, Suzana Šegota, Maja Jazvinšćak Jembrek

“…In combination with copper, myricitrin also activated caspase-3/7, promoted nuclear chromatin changes, and compromised membrane integrity. …”
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Overcoming the Silencing of Doxycycline-Inducible Promoters in hiPSC-derived Cardiomyocytes [version 1; peer review: 1 approved, 2 approved with reservations] by Michelle Guichardaz, Elisa Balmas, Alessandro Bertero, Sveva Bottini

“…We compared two promoters, TRE3VG and T11, for activity and stability, and investigated the addition of a Ubiquitous Chromatin Opening Element (UCOE) to reduce silencing. …”
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Disease-associated genetic variants in the regulatory regions of human genes: mechanisms of action on transcription and genomic resources for dissecting these mechanisms by E. V. Ignatieva, E. A. Matrosova

“…The review provides a brief description of a number of the most well-known public genomic information resources containing data obtained using omics technologies, including (1) resources that accumulate data on the chromatin states and the regions of transcription factor binding derived from ChIP-seq experiments; (2) resources containing data on genomic loci, for which allele-specific transcription factor binding was revealed based on ChIP-seq technology; (3) resources containing in silico predicted data on the potential impact of genetic variants on the transcription factor binding sites.…”
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Histone Arginine Methylation-Mediated Epigenetic Regulation of Discoidin Domain Receptor 2 Controls the Senescence of Human Bone Marrow Mesenchymal Stem Cells by Zhenyu Xu, Wenming Wu, Fang Shen, Yue Yu, Yue Wang, Charlie Xiang

“…Further, we found through knockdown and overexpression approaches that coactivator-associated arginine methyltransferase 1 (CARM1) regulated the expression level of DDR2 and the senescence of hBM-MSCs. Finally, chromatin immunoprecipitation analysis confirmed direct binding of CARM1 to the DDR2 promoter region with a high level of H3R17 methylation in early-passage hBM-MSCs, and inhibition of CARM1-mediated histone arginine methylation decreased DDR2 expression and led to cellular senescence. …”
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Topography of Genetic Loci in Tissue Samples: Towards New Diagnostic Tool Using Interphase FISH and High-Resolution Image Analysis Techniques by I. Koutná, S. Kozubek, J. Žaloudík, M. Kozubek, E. Lukášová, P. A. Matula, E. Bártová, M. Skalníková, A. Cafourková, P. Jirsová

“…In order to validate high‐resolution cytometry for oncology, further investigations should include more precise parameters reflecting the state of chromatin in the neighbourhood of critical oncogenes or tumour suppresser genes.…”
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Synergistic Activations of REG Iα and REG Iβ Promoters by IL-6 and Glucocorticoids through JAK/STAT Pathway in Human Pancreatic β Cells by Akiyo Yamauchi, Asako Itaya-Hironaka, Sumiyo Sakuramoto-Tsuchida, Maiko Takeda, Kiyomi Yoshimoto, Tomoko Miyaoka, Takanori Fujimura, Hiroki Tsujinaka, Chikatsugu Tsuchida, Hiroyo Ota, Shin Takasawa

“…Electrophoretic mobility shift assay and chromatin immunoprecipitation revealed that IL-6+Dx stimulation increased STAT3 binding to the REG Iα promoter. …”
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Assessing cell lines with inducible depletion of cohesin and condensins components through analysis of metaphase chromosome morphology by A. M. Yunusova, A. V. Smirnov, I. E. Pristyazhnuk, T. A. Shnaider, E. K. Maltseva, S. D.  Afonnikova, O. A. Gusev, N.  R. Battulin

“…To select clones induced by depletion of the architectural chromatin proteins RAD21 (a component of the cohesin complex) and SMC2 (a component of the condensin complex), we propose to use the morphology of metaphase chromosomes as a convenient functional test. …”
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LncRNA PVT1 links estrogen receptor alpha and the polycomb repressive complex 2 in suppression of pro-apoptotic genes in hormone-responsive breast cancer by Viola Melone, Domenico Palumbo, Luigi Palo, Noemi Brusco, Annamaria Salvati, Antonietta Tarallo, Giorgio Giurato, Francesca Rizzo, Giovanni Nassa, Alessandro Weisz, Roberta Tarallo

“…A set of lncRNAs was selected among ERα-associated RNAs in BC cell nuclei due to their roles in processes such as transcriptional regulation and epigenetic chromatin modifications. Native immunoprecipitation of nuclear ERα-interacting RNAs coupled to NGS (RIP-Seq) was performed in MCF-7 cells, leading to the identification of essential lncRNAs interacting with the receptor in multi-molecular regulatory complexes. …”
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p53-loss induced prostatic epithelial cell plasticity and invasion is driven by a crosstalk with the tumor microenvironment by Darya Yanushko, Beatriz German Falcon, Rana El Bizri, Despoina Pervizou, Robin Dolgos, Céline Keime, Tao Ye, Christelle Thibault-Carpentier, Clementine Le Magnen, Sandrine Henri, Gilles Laverny, Daniel Metzger

“…Importantly, our single-cell transcriptomic and chromatin accessibility analyses combined with histological examinations uncovered an epithelial cell population characterized by an induction of Jak/Stat3 signaling and displaying mesenchymal features. …”
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Aberrant heterochromatin silences immune response genes in chronic lymphocytic leukemia by Olivia M. Depies, Qianqian Guo, Yuan Gao, Sutapa Sinha, Zhenqing Ye, Weiguo Han, Kari G. Rabe, Mingma S. Hoel, Heather C. Darby, Chuanhe Yu, Esteban Braggio, Sameer A. Parikh, Susan L. Slager, Neil E. Kay, Zhiquan Wang

“…We further found that this aberrant chromatin signature also exists in the CLL precursor stage monoclonal B-cell lymphocytosis (MBL) cells, implicating the importance of epigenetic silencing in CLL evolution. …”
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Here and there: the double-side transgene localization by P. A. Salnikov, A. A. Khabarova, G. S. Koksharova, R. V. Mungalov, P. S. Belokopytova, I. E. Pristyazhnuk, A. R. Nurislamov, P. Somatich, M. M. Gridina, V. S. Fishman

“…These techniques have already been used for functional gene annotation by transposon-insertion sequencing, for identification of transcription factor binding sites and regulatory sequences, and for dissecting chromatin position effects. Precise localization of transgenes and accurate artifact filtration are essential for this type of method. …”
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Identification of selective SWI/SNF dependencies in enzalutamide-resistant prostate cancer by Bengul Gokbayrak, Umut Berkay Altintas, Shreyas Lingadahalli, Tunc Morova, Chia-Chi Flora Huang, Betul Ersoy Fazlioglu, Ivan Pak Lok Yu, Batuhan M. Kalkan, Paloma Cejas, Sonia H. Y. Kung, Ladan Fazli, Akane Kawamura, Henry W. Long, Ceyda Acilan, Tamer T. Onder, Tugba Bagci-Onder, James T. Lynch, Nathan A. Lack

“…From this, we identify and validate SMARCC2, a core component of the SWI/SNF complex, that is selectivity essential in enzalutamide-resistant models. We show that the chromatin occupancy of SMARCC2 and BRG1 is expanded in enzalutamide resistance at regions that overlap with CRPC-associated transcription factors that are accessible in CRPC clinical samples. …”
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High quality genome assembly and annotation (v1) of the eukaryotic terrestrial microalga Coccomyxa viridis SAG 216-4 by Kraege, Anton, Chavarro-Carrero, Edgar A., Guiglielmoni, Nadège, Schnell, Eva, Kirangwa, Joseph, Heilmann-Heimbach, Stefanie, Becker, Kerstin, Köhrer, Karl, Schiffer, Philipp, Thomma, Bart P. H. J., Rovenich, Hanna

“…Using long-read PacBio HiFi and Oxford Nanopore Technologies in combination with chromatin conformation capture (Hi-C) sequencing, we assembled the genome into 21 scaffolds with a total length of 50.9 Mb, an N50 of 2.7 Mb and a BUSCO score of 98.6%. …”
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NCAPD3‐mediated AKT activation regulates prostate cancer progression by Yi Zhang, Wanlin Xie, Xicui Zong, Yuanyuan Fang, Jia Ren, Zuolei Jing, Yong Wei, Shan Lu, Qingyi Zhu, Ping Liu

“…Clinical samples and cell lines were used to measure the expression of genes by quantitative real‐time RT‐PCR (qRT‐PCR), Western‐blot assay (WB), immunohistochemistry (IHC), and immunofluorescence (IF). Chromatin immunoprecipitation quantitative PCR (ChIP‐qPCR) and dual‐luciferase reporter assays were examined to explore the interplays between molecules. …”
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Genetic coupling of enhancer activity and connectivity in gene expression control by Helen Ray-Jones, Chak Kei Sung, Lai Ting Chan, Alexander Haglund, Pavel Artemov, Monica Della Rosa, Luminita Ruje, Frances Burden, Roman Kreuzhuber, Anna Litovskikh, Eline Weyenbergh, Zoï Brusselaers, Vanessa Xue Hui Tan, Mattia Frontini, Chris Wallace, Valeriya Malysheva, Leonardo Bottolo, Elena Vigorito, Mikhail Spivakov

“…Jointly, our findings suggest an inherent genetic coupling of enhancer activity and connectivity in gene expression control relevant to human disease and highlight the regulatory role of genetically determined chromatin boundaries.…”
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Semen Parameters Can be Used as a Credible Marker with Doppler Ultrasonography in the Diagnosis of Subclinical Varicocele Cases by Tulay Irez, Bahar Sarikaya, Mine Erguven, Emre Salabas

“…Sperm mitochondria potential at the TG was lower than the CG (p<0.001, p<0.05). Sperm chromatin condensation at the TG was higher than the CG (p<0.001, p<0.05). …”
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Cytopathological characteristics for provoked lesions of squamous epithelia of digestive system in animal models by V. G. Shestakova, L. I. Nigmatullina, I. B. Atadzhanov, S. A. Donskov, Yu. V. Kozlovskaya, I. S. Dolgopolov, M. Yu. Rykov

“…Parabasal cells of the squamous epithelium with atypical large (more than 3 times compared to the reference) nuclei, anisonucleosis, with variable contours of the nuclear membrane within one cell, coarse chromatin were recognized as diagnostically significant.Conclusion. …”
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The search for microRNAs potentially involved in the selfrenewal maintaining of laboratory rat pluripotent stem cells by V. V. Sherstyuk, S. P. Medvedev, M. T. Ri, Y. V. Vyatkin, O. V. Saik, D. N. Shtokalo, S. M. Zakian

“…Transcription factors, their target genes, chromatin modifiers, signaling pathways, and regulatory noncoding RNAs are involved in the maintaining of self-renewal. …”
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Cdk6’s functions are critically regulated by its unique C-terminus by Alessia Schirripa, Helge Schöppe, Sofie Nebenfuehr, Markus Zojer, Thorsten Klampfl, Valentina Kugler, Belinda S. Maw, Huriye Ceylan, Iris Z. Uras, Lisa Scheiblecker, Elisabeth Gamper, Ulrich Stelzl, Eduard Stefan, Teresa Kaserer, Veronika Sexl, Karoline Kollmann

“…C-terminally truncated Cdk6 (Cdk6 ΔC) shows reduced nuclear translocation and therefore chromatin interaction and fails to enhance proliferation and disease progression. …”
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