Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells by Szabolcs Éliás, Angelika Schmidt, David Gomez-Cabrero, Jesper Tegnér

“…As a result, we provide a rich resource of integrated chromatin accessibility (ATAC-seq) and transcriptome (RNA-seq) data from these primary human CD4 T cell subsets and we show that the identified signatures are associated with human autoimmune diseases, especially multiple sclerosis. …”
Get full text

HIF-3α-Induced miR-630 Expression Promotes Cancer Hallmarks in Cervical Cancer Cells by Forming a Positive Feedback Loop by Qiaohui Gao, Zhenghua Ren, Shengyuan Jiao, Juan Guo, Xia Miao, Jin Wang, Junye Liu

“…We conducted RNA sequencing (RNA-seq) and chromatin immunoprecipitation sequencing (ChIP-seq) experiments to investigate the targets of HIF-3α or miR-630. …”
Get full text

Potential mutagenicity of aflatoxin B1 in Egyptian spices by Basma El Geoshi, Gehan El-Akabawy, Mohammed El Metwally, Magda I. Soliman

“…Furthermore, an increase in AFB1 concentrationled to a decrease in B-cell lymphoma 2 (Bcl2) levels, an increase in chromatin condensation levels, and an increase in poly ADP‒ribose polymorphism (PARP) levels.…”
Get full text

Transcriptional Regulation of Fucosyltransferase 1 Gene Expression in Colon Cancer Cells by Fumiko Taniuchi, Koji Higai, Tomomi Tanaka, Yutaro Azuma, Kojiro Matsumoto

“…Furthermore, transfection of the dominant negative Elk-1 gene, and the chromatin immunoprecipitation (CHIp) assay, supported Elk-1-dependent transcriptional regulation of FUT1 gene expression in DLD-1 cells. …”
Get full text

Novel histone deacetylase-5 inhibitor T2943 exerts an anti-depressive effect in mice by enhancing GRID1 expression by Juan Du, Ruyun Liu, Lin Ma, Yue Liu, Wei Wei, Ning Liu, Qiuhua Cao, Jianqiang Yu

“…This modification loosens the chromatin structure, allowing transcription factors to bind to the Grid1 promoter region and enhance its transcription and expression. …”
Get full text

ULK1 methylation promotes TGF‐β1‐induced endometrial fibrosis via the FOXP1/DNMT1 axis by Yuhua Zeng, Qing Feng

“…Transcriptional regulation relationships were detected by dual luciferase reporter gene and chromatin immunoprecipitation (ChIP) assay. Methylation station of ULK1 was detected by methylmion specific PCR (MSP). …”
Get full text

Multiple Roles of the Y Chromosome in the Biology of Drosophila melanogaster by Roberto Piergentili

“…Nonetheless, a more accurate analysis reveals that this chromosome can influence several complex phenotypes: (1) it has a role in the fertility of both sexes and viability of males when over-represented; (2) it can unbalance the intracellular nucleotide pool; (3) it can interfere with the gene expression either by recruiting proteins involved in chromatin remodeling (PEV) or, to a higher extent, by influencing the expression of up to 1,000 different genes, probably by changing the availability of transcription factors; (4) it plays a major role (up to 50%) in the resistance to heat-induced male sterility; (5) it affects the behavior; and (6) it plays a role in genetic imprinting. …”
Get full text

Loss of H2A.Z Is Not Sufficient to Determine Transcriptional Activity of Snf2-Related CBP Activator Protein or p400 Complexes by Tamara A. Bowman, Madeline M. Wong, Linda K. Cox, Joseph J. Baldassare, John C. Chrivia

“…The p400 and SRCAP (Snf2-related CBP activator protein) complexes remodel chromatin by catalyzing deposition of histone H2A.Z into nucleosomes. …”
Get full text

The use of wheatgrass (<i>Thinopyrum intermedium</i>) in breeding by I. V. Pototskaya, V. P. Shamanin, A. N. Aydarov, A. I. Morgounov

“…The most important task is to transfer target genes of Th. intermedium to modern wheat varieties and decrease the level of chromatin carrying undesirable genes of the wild relative. …”
Get full text

Therapeutic potential of targeting the IRF2/POSTN/Notch1 axis in nucleus pulposus cells for intervertebral disc degeneration by Daxue Zhu, Zhaoheng Wang, Shijie Chen, Yanhu Li, Xuewen Kang

“…Western blotting, Immunofluorescence (IF), and immunohistochemistry (IHC) assessed the expression levels of relevant proteins. Chromatin immunoprecipitation (ChIP) and luciferase reporter assays verified the binding of IRF2 to the POSTN and GSDMD promoters and evaluated the activation levels of target genes. …”
Get full text

Epigenetic Regulation of Stromal and Immune Cells and Therapeutic Targets in the Tumor Microenvironment by Kang Liu, Yue Li, Minmin Shen, Wei Xu, Shanshan Wu, Xinxin Yang, Bo Zhang, Nengming Lin

“…This review synthesizes recent research that elucidates the impact of specific epigenetic regulations—ranging from DNA methylation to histone modifications and chromatin remodeling—on stromal and immune cells within the TME. …”
Get full text

Diversification and recurrent adaptation of the synaptonemal complex in Drosophila. by Rana Zakerzade, Ching-Ho Chang, Kamalakar Chatla, Ananya Krishnapura, Samuel P Appiah, Jacki Zhang, Robert L Unckless, Justin P Blumenstiel, Doris Bachtrog, Kevin H-C Wei

“…Acting like a zipper to paired homologous chromosomes during early prophase I, the complex is a symmetrical structure where central elements are connected on two sides by the transverse filaments to the chromatin-anchoring lateral elements. Despite being found in most major eukaryotic taxa implying a deeply conserved evolutionary origin, several components of the complex exhibit unusually high rates of sequence turnover. …”
Get full text

Primary Diffuse Large B-Cell Lymphoma of the Liver in a Patient with Sjogren Syndrome by Vadim Gorodetskiy, Wolfram Klapper, Natalya Probatova, Vladimir Vasilyev

“…Histologically, proliferation of medium sized lymphoma cells with round-oval and slightly irregular nuclei with fine chromatin was shown. Immunohistochemical and molecular features of the tumors allowed diagnosis of diffuse large B-cell lymphoma (DLBCL). …”
Get full text

Mitotic block and epigenetic repression underlie neurodevelopmental defects and neurobehavioral deficits in congenital heart disease by George C. Gabriel, Hisato Yagi, Tuantuan Tan, Abha Bais, Benjamin J. Glennon, Margaret C. Stapleton, Lihua Huang, William T. Reynolds, Marla G. Shaffer, Madhavi Ganapathiraju, Dennis Simon, Ashok Panigrahy, Yijen L. Wu, Cecilia W. Lo

“…Here we show that the Ohia HLHS mouse model, with mutations in Sap130, a chromatin modifier, and Pcdha9, a cell adhesion protein, also exhibits microcephaly associated with mitotic block and increased apoptosis leading to impaired cortical neurogenesis. …”
Get full text

Epigenetic Manipulation Facilitates the Generation of Skeletal Muscle Cells from Pluripotent Stem Cells by Tomohiko Akiyama, Shunichi Wakabayashi, Atsumi Soma, Saeko Sato, Yuhki Nakatake, Mayumi Oda, Miyako Murakami, Miki Sakota, Nana Chikazawa-Nohtomi, Shigeru B. H. Ko, Minoru S. H. Ko

“…However, the efficiency of direct differentiation was rather low, most likely due to chromatin features unique to hPSCs, which hinder the access of TFs to genes involved in muscle differentiation. …”
Get full text

The genomes of the most diverse AA genome rice species provide a resource for rice improvement and studies of rice evolution and domestication by Muhammad Abdullah, Agnelo Furtado, Ardashir Kharabian Masouleh, Pauline Okemo, Robert Henry

“…We utilized long read sequencing (PacBio HiFi) and chromatin mapping (Hi-C) to produce de novo chromosomal level genomes of Oryza meridionalis, the most divergent AA gnome species, and the unique Australian Oryza rufipogon like taxon that is a sister to the clade of domesticated and wild AA genome rice species of Asia and Africa. …”
Get full text

Genome-wide quantification of polycistronic transcription in Leishmania major by Janne Grünebast, Stephan Lorenzen, Joachim Clos

“…We map transcription initiation sites at divergent strand switch regions and head-tail regions within the chromosomes and correlate them with known sites of chromatin modifications. We confirm continuous, polycistronic RNA synthesis in all RNA polymerase II-dependent gene arrays but find small varying RNA polymerase activities in polycistronic transcription units (PTUs), excluding gene-specific transcription regulation, but not PTU-specific variations. …”
Get full text

Increased local DNA methylation disorder in AMLs with DNMT3A-destabilizing variants and its clinical implication by Dohoon Lee, Bonil Koo, Seokhyeon Kim, Jamin Byun, Junshik Hong, Dong-Yeop Shin, Choong-Hyun Sun, Jaesung Kim, Ji-Joon Song, Siddhartha Jaiswal, Sung-Soo Yoon, Sun Kim, Youngil Koh

“…We present that methylomes of DNMT3A INS AMLs are considerably different from those of DNMT3A R882 AMLs in that they exhibit increased intratumor DNA methylation heterogeneity in bivalent chromatin domains. This epigenetic heterogeneity was associated with the transcriptional variability of developmental and membrane-associated factors shaping stem cell niche, and also was a predictor of the response of AML cells to hypomethylating agents, implying that the survival of AML cells depends on stochastic DNA methylations at bivalent domains. …”
Get full text

The Role of NF-κB/MIR155HG in Regulating the Stemness and Radioresistance in Breast Cancer Stem Cells by Yunbao Xu, Lu Yang, Guangming Li, Chuangzhou Rao

“…To examine the binding interaction between RelA and MIR155HG promoter, chromatin immunoprecipitation was performed. …”
Get full text

Endometrial polyps with bizarre stromal cells: a Benign or a low-grade lesion? by Musen Wang, Fei Gao, Hongkai Zhang, Wenxin Zheng

“…Higher magnification revealed eosinophilic cytoplasm in the stromal cells, which exhibited both mono- and multinucleation, hyperchromasia with coarse chromatin, and an absence of conspicuous nucleoli and mitotic figures. …”
Get full text