Relevant bibliographies by topics / Intronic polyadenylation

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  1. Journal articles
  2. Dissertations / Theses
  3. Book chapters
  4. Conference papers
  5. Reports

Academic literature on the topic 'Intronic polyadenylation'

Author: Grafiati
Published: 25 May 2024
Last updated: 31 July 2025

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Journal articles on the topic "Intronic polyadenylation"

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Tikhonov, M. V., P. G. Georgiev, and O. G. Maksimenko. "Competition within Introns: Splicing Wins over Polyadenylation via a General Mechanism." Acta Naturae 5, no. 4 (2013): 52–61. http://dx.doi.org/10.32607/20758251-2013-5-4-52-61.

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Most eukaryotic messenger RNAs are capped, spliced, and polyadenylated via co-transcriptional processes that are coupled to each other and to the transcription machinery. Coordination of these processes ensures correct RNA maturation and provides for the diversity of the transcribed isoforms. Thus, RNA processing is a chain of events in which the completion of one event is coupled to the initiation of the next one. In this context, the relationship between splicing and polyadenylation is an important aspect of gene regulation. We have found that cryptic polyadenylation signals are widely distr
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Wang, Xiuye, Liang Liu, Adam W. Whisnant, et al. "Mechanism and consequences of herpes simplex virus 1-mediated regulation of host mRNA alternative polyadenylation." PLOS Genetics 17, no. 3 (2021): e1009263. http://dx.doi.org/10.1371/journal.pgen.1009263.

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Eukaryotic gene expression is extensively regulated by cellular stress and pathogen infections. We have previously shown that herpes simplex virus 1 (HSV-1) and several cellular stresses cause widespread disruption of transcription termination (DoTT) of RNA polymerase II (RNAPII) in host genes and that the viral immediate early factor ICP27 plays an important role in HSV-1-induced DoTT. Here, we show that HSV-1 infection also leads to widespread changes in alternative polyadenylation (APA) of host mRNAs. In the majority of cases, polyadenylation shifts to upstream poly(A) sites (PAS), includin
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Lou, Hua, Karla M. Neugebauer, Robert F. Gagel, and Susan M. Berget. "Regulation of Alternative Polyadenylation by U1 snRNPs and SRp20." Molecular and Cellular Biology 18, no. 9 (1998): 4977–85. http://dx.doi.org/10.1128/mcb.18.9.4977.

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ABSTRACT Although considerable information is currently available about the factors involved in constitutive vertebrate polyadenylation, the factors and mechanisms involved in facilitating communication between polyadenylation and splicing are largely unknown. Even less is known about the regulation of polyadenylation in genes in which 3′-terminal exons are alternatively recognized. Here we demonstrate that an SR protein, SRp20, affects recognition of an alternative 3′-terminal exon via an effect on the efficiency of binding of a polyadenylation factor to an alternative polyadenylation site. T
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Spraggon, Lee, and Luca Cartegni. "U1 snRNP-Dependent Suppression of Polyadenylation: Physiological Role and Therapeutic Opportunities in Cancer." International Journal of Cell Biology 2013 (2013): 1–10. http://dx.doi.org/10.1155/2013/846510.

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Pre-mRNA splicing and polyadenylation are critical steps in the maturation of eukaryotic mRNA. U1 snRNP is an essential component of the splicing machinery and participates in splice-site selection and spliceosome assembly by base-pairing to the 5′ splice site. U1 snRNP also plays an additional, nonsplicing global function in 3′ end mRNA processing; it actively suppresses the polyadenylation machinery from using early, mostly intronic polyadenylation signals which would lead to aberrant, truncated mRNAs. Thus, U1 snRNP safeguards pre-mRNA transcripts against premature polyadenylation and contr
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Scholl, Amanda, Alexander Muselman, and Dong-Er Zhang. "An Intronic Suppressor Element Regulates RUNX1 Alternative Polyadenylation." Blood 126, no. 23 (2015): 3578. http://dx.doi.org/10.1182/blood.v126.23.3578.3578.

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Abstract Polyadenylation is a post-transcriptional modification where the 3' end of an mRNA is cleaved and 250-300 adenines are added. It is predicted that 70-75% of human genes have more than one polyadenylation sequence (PAS) and are subject to alternative polyadenylation (APA). APA events affect the coding sequence of a gene when a proximal PAS is located within an intron, constitutive exon, or alternative exon. Gene expression is also affected if there are multiple PAS within the distal 3' untranslated region (UTR); proximal PAS usage shortens the 3'UTR, which can remove cis-regulatory reg
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Duan, Cheng-Guo, Xingang Wang, Lingrui Zhang, et al. "A protein complex regulates RNA processing of intronic heterochromatin-containing genes in Arabidopsis." Proceedings of the National Academy of Sciences 114, no. 35 (2017): E7377—E7384. http://dx.doi.org/10.1073/pnas.1710683114.

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In several eukaryotic organisms, heterochromatin (HC) in the introns of genes can regulate RNA processing, including polyadenylation, but the mechanism underlying this regulation is poorly understood. By promoting distal polyadenylation, the bromo-adjacent homology (BAH) domain-containing and RNA recognition motif-containing protein ASI1 and the H3K9me2-binding protein EDM2 are required for the expression of functional full-length transcripts of intronic HC-containing genes in Arabidopsis. Here we report that ASI1 and EDM2 form a protein complex in vivo via a bridge protein, ASI1-Immunoprecipi
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Wang, Ruijia, and Bin Tian. "APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms." Bioinformatics 36, no. 12 (2020): 3907–9. http://dx.doi.org/10.1093/bioinformatics/btaa266.

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Abstract Summary Most eukaryotic genes produce alternative polyadenylation (APA) isoforms. APA is dynamically regulated under different growth and differentiation conditions. Here, we present a bioinformatics package, named APAlyzer, for examining 3′UTR APA, intronic APA and gene expression changes using RNA-seq data and annotated polyadenylation sites in the PolyA_DB database. Using APAlyzer and data from the GTEx database, we present APA profiles across human tissues. Availability and implementation APAlyzer is freely available at https://bioconductor.org/packages/release/bioc/html/APAlyzer.
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Lee, Shih-Han, Irtisha Singh, Sarah Tisdale, Omar Abdel-Wahab, Christina S. Leslie, and Christine Mayr. "Widespread intronic polyadenylation inactivates tumour suppressor genes in leukaemia." Nature 561, no. 7721 (2018): 127–31. http://dx.doi.org/10.1038/s41586-018-0465-8.

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Dubbury, Sara J., Paul L. Boutz, and Phillip A. Sharp. "CDK12 regulates DNA repair genes by suppressing intronic polyadenylation." Nature 564, no. 7734 (2018): 141–45. http://dx.doi.org/10.1038/s41586-018-0758-y.

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Wang, Hong-Wei. "A Link between Intronic Polyadenylation and HR Maintenance Discovered." Biochemistry 58, no. 14 (2019): 1835–36. http://dx.doi.org/10.1021/acs.biochem.9b00202.

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Dissertations / Theses on the topic "Intronic polyadenylation"

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Dubbury, Sara Jane. "Cdk12 regulates DNA repair Genes by suppressing intronic polyadenylation." Thesis, Massachusetts Institute of Technology, 2018. http://hdl.handle.net/1721.1/115596.

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Thesis: Ph. D., Massachusetts Institute of Technology, Department of Biology, 2018.<br>This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.<br>Cataloged from student-submitted PDF version of thesis. Vita.<br>Includes bibliographical references.<br>During transcription, cyclin-dependent kinases (CDKs) dynamically phosphorylate the C-terminal domain (CTD) of RNA Polymerase II (RNAPII) to recruit factors that coordinate transcription and mRNA biogenesis. Cdk12 phosphorylates Serine 2 (Ser2) of the RNAPII
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Devaux, Alexandre. "Rôle de la polyadénylation intronique dans la réponse des cellules cancéreuses au cisplatine." Electronic Thesis or Diss., université Paris-Saclay, 2024. http://www.theses.fr/2024UPASL015.

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Au cours d’études sur la polyadénylation alternative (APA), des transcrits courts terminant dans un exon final alternatif ont été découverts, on parle de polyadénylation intronique (IPA). L’IPA est régulée par des facteurs de l’épissage (dont U1 snRNP), de polyadénylation, et d’élongation de la transcription (dont CDK12). Les isoformes IPA sont régulées par des agents génotoxiques (induisant des dommages à l’ADN), dont les rayonnements UV et la doxorubicine. Les inhibiteurs de CDK12 augmentent l’IPA dans des gènes de réparation de l’ADN et la sensibilité cellulaire à des génotoxiques. L’IPA a
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Idir, Yassir. "Epigenetic regulation of transcription from genes-containing heterochromatin." Thesis, Université Paris-Saclay (ComUE), 2019. http://www.theses.fr/2019SACLS270.

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La maturation des ARN implique un grand nombre d’évènements post-transcriptionnels, parmi lesquels la polyadénylation qui constitue une étape clé. Chez Arabidopsis, la présence de l’hétérochromatine au niveau des introns de certains gènes peut influencer considérablement la polyadénylation de leur transcrits. INCREASED IN BONSAI METHYLATION2 (IBM2) est une protéinequi contrôle cette catégorie de gènes en reconnaissant l’hétérochromatine au niveau des introns via son domaine BOMO-ADJACENT HOMOLOGY (BAH). IBM2 se lie à l’ARNm par son motif RNA RECOGNOTION (RRM), afin d’assurer la transcription c
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Book chapters on the topic "Intronic polyadenylation"

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Rokeya, Begum, Mohammad Asrafuzzaman, Maliha Tabassum Rashid, and Shaeri Nawar. "The Role of Introns for the Development of Inflammation-Mediated Cancer Cell." In Inflammation [Working Title]. IntechOpen, 2021. http://dx.doi.org/10.5772/intechopen.96754.

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Cancer and inflammation are connected by intrinsic pathways and extrinsic pathway where the intrinsic pathway is activated by genetic events including mutation, chromosomal rearrangement or amplification, and the inactivation of tumor-suppressor genes, as well as the extrinsic pathway, is the inflammatory or infectious conditions that increase the cancer risk. On the other hand, introns are non-coding elements of the genome and play a functional role to generate more gene products through splicing out, transcription, polyadenylation, mRNA export, and translation. Moreover, introns also may act
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Mcafee, James g., mae huang, syrus soltaninassab, janee Rech, sunita iyengar,, and wallace m. Lestourgeon. "The packaging of pre-Mrna." In Eukaryotic mRNA Processing. Oxford University PressOxford, 1997. http://dx.doi.org/10.1093/oso/9780199634187.003.0003.

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Abstract In eukaryotes, pre-mRNA is bound by protein either simultaneously with the initiation of transcription or very soon thereafter (1-3), and it is not possible to isolate pre-mRNA molecules free from a unique set of abundant nuclear proteins unless protein denaturants are used in the purification scheme. The packaging of DNA into nucleosomes, and their association in the 30 nm chromatin fibre, greatly foreshortens the DNA substrate and provides some protection of the genome from nuclease activity (4). However, the major pre-mRNA binding proteins possess well- characterized, helix-unwindi
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huang, Sui, and david l. Spector. "Nuclear organization of pre¬ mRNA splicing factors and substrates." In Eukaryotic mRNA Processing. Oxford University PressOxford, 1997. http://dx.doi.org/10.1093/oso/9780199634187.003.0002.

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Abstract Pre-mRNA transcripts must be processed and transported to the cytoplasm where the mature mRNAs are translated into proteins. For most RNA polymerase II tran-scripts, this processing includes addition of a 7-methyl-guanosine cap structure at the 5’ end of the nascent RNA transcripts; hnRNP assembly; removal of non-coding intron regions and ligation of exons; 3’ end cleavage and polyadenylation; and the ex¬ change of hnRNP proteins for mRNP proteins. Splicing occurs in a multicomponent complex termed a spliceosome. Many of the detailed biochemical steps involved in the prc-mRNA splicing
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SWANSON, MAURICE S., and JOHN P. ARIS. "Posttranscriptional Control: Nuclear RNA Processing." In Inborn Errors Of Development. Oxford University PressNew York, NY, 2008. http://dx.doi.org/10.1093/oso/9780195306910.003.0125.

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Abstract Normal development of human tissues requires the activation of specific genes during various embryonic stages so that stage-specific protein isoforms and other gene products appear in their proper developmental windows. While transcriptional initiation starts the gene expression cascade, nascent transcripts must be modified and the mature RNA products correctly localized within the cell. Most of the nuclear processing machinery is devoted toward producing the major RNAs required for the translational apparatus (Fig. 125–1). Pre-messenger RNAs (pre-mRNAs) are transcribed by RNA polymer
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Stuart, Kenneth D. "RNA editing in kinetoplastid mitochondria." In RNA Editing. Oxford University PressOxford, 2000. http://dx.doi.org/10.1093/oso/9780199638154.003.0001.

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Abstract All three major classes of RNA undergo post-transcriptional processing by nucleolytic cleavage and base modification before they become functional (1). A general theme in RNA processing is (cis or trans) RNA–RNA interactions and the association with a macromolecular complex. Ribosomal RNA precursors are processed by a series of endonucleolytic cleavages that are catalyzed by RNA or protein enzymes. The rRNA bases are modified at sites which are guided by base pairing with small nucleolar (sno) RNAs (2). Similarly, tRNAs are cleaved from precursors, and the site of the 5’ cleavage is g
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Conference papers on the topic "Intronic polyadenylation"

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Wang, Xinyi, Jessika Carvajal-Moreno, Jack C. Yalowich та Terry Elton. "Strategies to Circumvent Topoisomerase IIα Intron 19 Intronic Polyadenylation (IPA) in Acquired Etoposide Resistance Human Leukemia K562 Cells". У ASPET 2023 Annual Meeting Abstracts. American Society for Pharmacology and Experimental Therapeutics, 2023. http://dx.doi.org/10.1124/jpet.122.207410.

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Pannekoek, H., M. Linders, J. Keijer, H. Veerman, H. Van Heerikhuizen, and D. J. Loskutoff. "THE STRUCTURE OF THE HUMAN ENDOTHELIAL PLASMINOGEN ACTIVATOR INHIBITOR (PAI-1) GENE: NON-RANDOM POSITIONING OF INTRONS." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644767.

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The endothelium plays a crucial role in the regulation of the fibrinolytic process, since it synthesizes and secretes tissue-type plasminogen activator (t-PA) as well as the fast-acting plasminogen activator inhibitor (PAI-1). Molecular cloning of full-length PAI-1 cDNA, employing a human endothelial cDNA expression library, and a subsequent determination of the complete nucleotide sequence, allowed a prediction of the amino-acid sequence of the PAI-1 glycoprotein. It was observed that the amino-acid sequence is significantly homologous to those of members of the serine protease inhibitor ("Se
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Reports on the topic "Intronic polyadenylation"

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Schuster, Gadi, and David Stern. Integrated Studies of Chloroplast Ribonucleases. United States Department of Agriculture, 2011. http://dx.doi.org/10.32747/2011.7697125.bard.

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Gene regulation at the RNA level encompasses multiple mechanisms in prokaryotes and eukaryotes, including splicing, editing, endo- and exonucleolytic cleavage, and various phenomena related to small or interfering RNAs. Ribonucleases are key players in nearly all of these post-transcriptional mechanisms, as the catalytic agents. This proposal continued BARD-funded research into ribonuclease activities in the chloroplast, where RNase mutation or deficiency can cause metabolic defects and is often associated with plant chlorosis, embryo or seedling lethality, and/or failure to tolerate nutrient
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