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Relevant bibliographies by topics / Targeted transcription regulation

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Journal articles

Academic literature on the topic 'Targeted transcription regulation'

Author: Grafiati

Published: 25 May 2024

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Journal articles on the topic "Targeted transcription regulation"

1

Braun, Christian J., Peter M. Bruno, Max A. Horlbeck, Luke A. Gilbert, Jonathan S. Weissman, and Michael T. Hemann. "Versatile in vivo regulation of tumor phenotypes by dCas9-mediated transcriptional perturbation." Proceedings of the National Academy of Sciences 113, no. 27 (2016): E3892—E3900. http://dx.doi.org/10.1073/pnas.1600582113.

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Targeted transcriptional regulation is a powerful tool to study genetic mediators of cellular behavior. Here, we show that catalytically dead Cas9 (dCas9) targeted to genomic regions upstream or downstream of the transcription start site allows for specific and sustainable gene-expression level alterations in tumor cells in vitro and in syngeneic immune-competent mouse models. We used this approach for a high-coverage pooled gene-activation screen in vivo and discovered previously unidentified modulators of tumor growth and therapeutic response. Moreover, by using dCas9 linked to an activation

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2

Li, Conghui, Honghong Wang, Zhinang Yin, et al. "Ligand-induced native G-quadruplex stabilization impairs transcription initiation." Genome Research 31, no. 9 (2021): 1546–60. http://dx.doi.org/10.1101/gr.275431.121.

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G-quadruplexes (G4s) are noncanonical DNA secondary structures formed through the self-association of guanines, and G4s are distributed widely across the genome. G4 participates in multiple biological processes including gene transcription, and G4-targeted ligands serve as potential therapeutic agents for DNA-targeted therapies. However, genome-wide studies of the exact roles of G4s in transcriptional regulation are still lacking. Here, we establish a sensitive G4-CUT&Tag method for genome-wide profiling of native G4s with high resolution and specificity. We find that native G4 signals are

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3

Ahmed, Mahmoud, Trang Huyen Lai, Trang Minh Pham, et al. "Hierarchical regulation of autophagy during adipocyte differentiation." PLOS ONE 17, no. 1 (2022): e0250865. http://dx.doi.org/10.1371/journal.pone.0250865.

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We previously showed that some adipogenic transcription factors such as CEBPB and PPARG directly and indirectly regulate autophagy gene expression in adipogenesis. The order and effect of these events are undetermined. In this study, we modeled the gene expression, DNA-binding of transcriptional regulators, and histone modifications during adipocyte differentiation and evaluated the effect of the regulators on gene expression in terms of direction and magnitude. Then, we identified the overlap of the transcription factors and co-factors binding sites and targets. Finally, we built a chromatin

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4

Scott, James N. F., Adam P. Kupinski, and Joan Boyes. "Targeted genome regulation and modification using transcription activator-like effectors." FEBS Journal 281, no. 20 (2014): 4583–97. http://dx.doi.org/10.1111/febs.12973.

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Huh, Hyunbin, Dong Kim, Han-Sol Jeong, and Hyun Park. "Regulation of TEAD Transcription Factors in Cancer Biology." Cells 8, no. 6 (2019): 600. http://dx.doi.org/10.3390/cells8060600.

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Transcriptional enhanced associate domain (TEAD) transcription factors play important roles during development, cell proliferation, regeneration, and tissue homeostasis. TEAD integrates with and coordinates various signal transduction pathways including Hippo, Wnt, transforming growth factor beta (TGFβ), and epidermal growth factor receptor (EGFR) pathways. TEAD deregulation affects well-established cancer genes such as KRAS, BRAF, LKB1, NF2, and MYC, and its transcriptional output plays an important role in tumor progression, metastasis, cancer metabolism, immunity, and drug resistance. To da

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6

Uprety, Bhawana, Amala Kaja, Jannatul Ferdoush, Rwik Sen, and Sukesh R. Bhaumik. "Regulation of Antisense Transcription by NuA4 Histone Acetyltransferase and Other Chromatin Regulatory Factors." Molecular and Cellular Biology 36, no. 6 (2016): 992–1006. http://dx.doi.org/10.1128/mcb.00808-15.

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NuA4 histone lysine (K) acetyltransferase (KAT) promotes transcriptional initiation of TATA-binding protein (TBP)-associated factor (TAF)-dependent ribosomal protein genes. TAFs have also been recently found to enhance antisense transcription from the 3′ end of theGAL10coding sequence. However, it remains unknown whether, like sense transcription of the ribosomal protein genes, TAF-dependent antisense transcription ofGAL10also requires NuA4 KAT. Here, we show that NuA4 KAT associates with theGAL10antisense transcription initiation site at the 3′ end of the coding sequence. Such association of

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7

Perez-Oquendo, Mabel, and Don L. Gibbons. "Regulation of ZEB1 Function and Molecular Associations in Tumor Progression and Metastasis." Cancers 14, no. 8 (2022): 1864. http://dx.doi.org/10.3390/cancers14081864.

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Zinc finger E-box binding homeobox 1 (ZEB1) is a pleiotropic transcription factor frequently expressed in carcinomas. ZEB1 orchestrates the transcription of genes in the control of several key developmental processes and tumor metastasis via the epithelial-to-mesenchymal transition (EMT). The biological function of ZEB1 is regulated through pathways that influence its transcription and post-transcriptional mechanisms. Diverse signaling pathways converge to induce ZEB1 activity; however, only a few studies have focused on the molecular associations or functional changes of ZEB1 by post-translat

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8

Imoberdorf, Rachel Maria, Irini Topalidou, and Michel Strubin. "A Role for Gcn5-Mediated Global Histone Acetylation in Transcriptional Regulation." Molecular and Cellular Biology 26, no. 5 (2006): 1610–16. http://dx.doi.org/10.1128/mcb.26.5.1610-1616.2006.

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ABSTRACT Transcriptional activators often require histone acetyltransferases (HATs) for full activity. The common explanation is that activators directly recruit HATs to gene promoters to locally hyperacetylate histones and thereby facilitate transcription complex formation. However, in addition to being targeted to specific loci, HATs such as Gcn5 also modify histones genome-wide. Here we provide evidence for a role of this global HAT activity in regulated transcription. We show that activation by direct recruitment of the transcriptional machinery neither recruits Gcn5 nor induces changes in

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9

Nourani, Amine, Yannick Doyon, Rhea T. Utley, Stéphane Allard, William S. Lane, and Jacques Côté. "Role of an ING1 Growth Regulator in Transcriptional Activation and Targeted Histone Acetylation by the NuA4 Complex." Molecular and Cellular Biology 21, no. 22 (2001): 7629–40. http://dx.doi.org/10.1128/mcb.21.22.7629-7640.2001.

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ABSTRACT The yeast NuA4 complex is a histone H4 and H2A acetyltransferase involved in transcription regulation and essential for cell cycle progression. We identify here a novel subunit of the complex, Yng2p, a plant homeodomain (PHD)-finger protein homologous to human p33/ING1, which has tumor suppressor activity and is essential for p53 function. Mass spectrometry, immunoblotting, and immunoprecipitation experiments confirm the stable stoichiometric association of this protein with purified NuA4. Yeast cells harboring a deletion of theYNG2 gene show severe growth phenotype and have gene-spec

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10

Zhang, Yixin, Yanlan Mo, Liyuan Han, Zhenyuan Sun, and Wenzhong Xu. "Exploring Transcriptional Regulation of Hyperaccumulation in Sedum plumbizincicola through Integrated Transcriptome Analysis and CRISPR/Cas9 Technology." International Journal of Molecular Sciences 24, no. 14 (2023): 11845. http://dx.doi.org/10.3390/ijms241411845.

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The cadmium hyperaccumulator Sedum plumbizincicola has remarkable abilities for cadmium (Cd) transport, accumulation and detoxification, but the transcriptional regulation mechanisms responsible for its Cd hyperaccumulation remain unknown. To address this knowledge gap, we conducted a comparative transcriptome study between S. plumbizincicola and the non-hyperaccumulating ecotype (NHE) of Sedum alfredii with or without Cd treatment. Our results revealed many differentially expressed genes involved in heavy metal transport and detoxification that were abundantly expressed in S. plumbizincicola.

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