Relevant bibliographies by topics / RNA-binding

Contents

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

Academic literature on the topic 'RNA-binding'

Author: Grafiati
Published: 4 June 2021
Last updated: 25 July 2025

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Journal articles on the topic "RNA-binding"

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Muckstein, U., H. Tafer, J. Hackermuller, S. H. Bernhart, P. F. Stadler, and I. L. Hofacker. "Thermodynamics of RNA-RNA binding." Bioinformatics 22, no. 10 (2006): 1177–82. http://dx.doi.org/10.1093/bioinformatics/btl024.

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Hallegger, M., A. Taschner, and M. F. Jantsch. "RNA aptamers binding the double-stranded RNA-binding domain." RNA 12, no. 11 (2006): 1993–2004. http://dx.doi.org/10.1261/rna.125506.

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Muto, Yutaka, Chris Oubridge, and Kiyoshi Nagai. "RNA-binding proteins: TRAPping RNA bases." Current Biology 10, no. 1 (2000): R19—R21. http://dx.doi.org/10.1016/s0960-9822(99)00250-x.

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Kotelnikov, R. N., S. G. Shpiz, A. I. Kalmykova, and V. A. Gvozdev. "RNA-binding proteins in RNA interference." Molecular Biology 40, no. 4 (2006): 528–40. http://dx.doi.org/10.1134/s0026893306040054.

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Serin, Guillaume, Gérard Joseph, Laurence Ghisolfi, et al. "Two RNA-binding Domains Determine the RNA-binding Specificity of Nucleolin." Journal of Biological Chemistry 272, no. 20 (1997): 13109–16. http://dx.doi.org/10.1074/jbc.272.20.13109.

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Sastry, Srin, and Barbara M. Ross. "RNA-binding site in T7 RNA polymerase." Proceedings of the National Academy of Sciences 95, no. 16 (1998): 9111–16. http://dx.doi.org/10.1073/pnas.95.16.9111.

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Recent models of RNA polymerase transcription complexes have invoked the idea that enzyme-nascent RNA contacts contribute to the stability of the complexes. Although much progress on this topic has been made with the multisubunit Escherichia coli RNA polymerase, there is a paucity of information regarding the structure of single-subunit phage RNA polymerase transcription complexes. Here, we photo-cross-linked the RNA in a T7 RNA polymerase transcription complex and mapped a major contact site between amino acid residues 144 and 168 and probably a minor contact between residues 1 and 93. These
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Singh, Arunima. "RNA-binding protein kinetics." Nature Methods 18, no. 4 (2021): 335. http://dx.doi.org/10.1038/s41592-021-01122-6.

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SUGITA, Mamoru, and Masahiro SUGIURA. "Chloroplast RNA-binding Proteins." Nippon Nōgeikagaku Kaishi 71, no. 11 (1997): 1177–79. http://dx.doi.org/10.1271/nogeikagaku1924.71.1177.

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Larochelle, Stéphane. "RNA-binding proteome redux." Nature Methods 16, no. 3 (2019): 219. http://dx.doi.org/10.1038/s41592-019-0349-3.

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Laird-Offringa, Ite A., and Joel G. Belasco. "RNA-binding proteins tamed." Nature Structural & Molecular Biology 5, no. 8 (1998): 665–68. http://dx.doi.org/10.1038/1356.

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Dissertations / Theses on the topic "RNA-binding"

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Maticzka, Daniel [Verfasser], and Rolf [Akademischer Betreuer] Backofen. "Modelling binding preferences of RNA-binding proteins." Freiburg : Universität, 2017. http://d-nb.info/1135134146/34.

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Khanal, Reecha. "Identification of RNA Binding Proteins and RNA Binding Residues Using Effective Machine Learning Techniques." ScholarWorks@UNO, 2019. https://scholarworks.uno.edu/honors_theses/128.

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Identification and annotation of RNA Binding Proteins (RBPs) and RNA Binding residues from sequence information alone is one of the most challenging problems in computational biology. RBPs play crucial roles in several fundamental biological functions including transcriptional regulation of RNAs and RNA metabolism splicing. Existing experimental techniques are time-consuming and costly. Thus, efficient computational identification of RBPs directly from the sequence can be useful to annotate RBP and assist the experimental design. Here, we introduce AIRBP, a computational sequence-based method,
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Deumer, Claudia D. "RNA-binding proteins in yeast mitochondria." Doctoral thesis, Saechsische Landesbibliothek- Staats- und Universitaetsbibliothek Dresden, 2002. http://nbn-resolving.de/urn:nbn:de:swb:14-1035897639531-83407.

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This work focused on the further characterisation of Idhp and of the Krebs cycle enzymes citrate synthase 1 (Cit1p) and malate dehydrogenase 1 (Mdh1p) both of which have been identified as RNA-binding proteins without known RNA recognition motifs. Besides analysing their effects on mitochondrial translation and their organisation in protein complexes the work focused on the characterisation of the RNA-binding properties of recombinant Cit1p and Mdh1p: · Cit1p and Mdh1p play no essential role in mitochondrial protein synthesis. · Idhp is in a complex of molecular weight larger than the cytochro
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Loushin, Newman Carrie Lee. "Characterization of QKI RNA binding function /." Full text (PDF) from UMI/Dissertation Abstracts International, 2000. http://wwwlib.umi.com/cr/utexas/fullcit?p3004323.

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Crombie, Catriona Ann. "Histone hairpin binding protein, an RNA binding protein, essential for development." Thesis, University of Aberdeen, 2003. http://digitool.abdn.ac.uk/R?func=search-advanced-go&find_code1=WSN&request1=AAIU602058.

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Histones are proteins found in the nuclei of eukaryotic cells where they are complexed to DNA in chromatin. Rephcation-dependent histones are expressed only during S-phase. Regulation of expression of replication-dependent histone genes requires a highly conserved hairpin RNA element in the 3' untranslated region of histone mRNAs. Replication-dependent histone mRNAs are not polyadenylated; their 3' end is formed by an endonucleolytic cleavage event, 3' of a hairpin element, which is recognised by the Hairpin Binding Protein, HBP (also known as Stem-Loop Binding Protein, SLBP). This protein-RNA
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Whittington, Christi Leigh. "Molecular Dynamics of the RNA Binding Cavity of Influenza A Non-structural Protein 1 (NS1) RNA Binding Domain." Scholar Commons, 2012. http://scholarcommons.usf.edu/etd/4256.

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Molecular dynamics simulations were performed on the influenza A non-structural protein 1 (NS1) RNA binding domain (RBD), a homodimer. Fourteen simulations were performed at 298K, nine ionized with 0.1M KCl and five with no ions. Several analysis techniques were employed to study RBD residue flexibility. The focus of the study was the RNA binding cavity formed by side chains of helix 2 (chain A) and helix 2’ (chain B) and cavity intermonomeric salt bridges. Opening of the salt bridges D29–R46’ and D29’–R46 was observed in several of the trajectories. The RNA binding cavity has large flexibilit
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Blancafort, Pilar. "Making conformation-specific RNA-binding zinc fingers." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1999. http://www.collectionscanada.ca/obj/s4/f2/dsk1/tape7/PQDD_0023/NQ47598.pdf.

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Waterman, David Geoffrey. "Structural studies on prokaryotic RNA-binding proteins." Thesis, University of York, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.441058.

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Fesser, Stephanie Marion. "Contribution of RNA binding proteins to substrate specificity in small RNA biogenesis." Diss., Ludwig-Maximilians-Universität München, 2013. http://nbn-resolving.de/urn:nbn:de:bvb:19-173105.

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Attig, Jan. "Impact of retrotransposon-derived RNA elements and their recognition by RNA binding proteins." Thesis, University of Cambridge, 2015. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.709161.

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Books on the topic "RNA-binding"

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Sandberg, Kathryn, and Susan E. Mulroney, eds. RNA Binding Proteins. Springer US, 2002. http://dx.doi.org/10.1007/978-1-4757-6446-8.

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Yeo, Gene W., ed. Systems Biology of RNA Binding Proteins. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1221-6.

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B, Denman Robert, ed. RNA binding proteins in development and disease. Research Signpost, 2008.

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Symposium on RNA Biology (2nd 1997 North Carolina Biotechnology Center). Symposium on RNA Biology: RNA tool and target : held at North Carolina Biotechnology Center, Research Triangle Park, North Carolina, USA, October 17-19, 1997. Oxford University Press, 1997.

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Randolph, Lisa Kathryn. Regulation of synapse density by Pumilio RNA-binding proteins. [publisher not identified], 2022.

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Ren-Jang, Lin, ed. RNA-protein interaction protocols. 2nd ed. Humana, 2008.

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Li, Karpra G. P. A structure-function analysis of the smaug RNA-binding domain. National Library of Canada, 2003.

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Ren-Jang, Lin, ed. RNA-protein interaction protocols. 2nd ed. Humana, 2008.

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Bowman, John Alfred Leng. Identification and characterization of a novel RNA-binding domain in SRM160. National Library of Canada, 2001.

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Tsai, Yueh-Lin. Function and Regulation of ALS/FTD-associated RNA Binding Protein FUS. [publisher not identified], 2021.

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Book chapters on the topic "RNA-binding"

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Penalva, Luiz O. F. "RNA-binding Protein." In Encyclopedia of Systems Biology. Springer New York, 2013. http://dx.doi.org/10.1007/978-1-4419-9863-7_313.

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Ritter, Birgit, and Marc R. Reboll. "Purification of RNA-Binding Proteins." In RNA Mapping. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1062-5_17.

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Chitsaz, Hamidreza, Rolf Backofen, and S. Cenk Sahinalp. "biRNA: Fast RNA-RNA Binding Sites Prediction." In Lecture Notes in Computer Science. Springer Berlin Heidelberg, 2009. http://dx.doi.org/10.1007/978-3-642-04241-6_3.

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Zanini, Andrea A., Mohammad F. Azim, Tyra N. McCray, and Tessa M. Burch-Smith. "RNA Binding Proteins Regulating Chloroplast RNA Metabolism." In Nucleic Acids and Molecular Biology. Springer Nature Switzerland, 2024. http://dx.doi.org/10.1007/978-3-031-70098-9_2.

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Reboll, Marc R. "Mapping of Protein Binding RNA Elements." In RNA Mapping. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1062-5_16.

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Zoschke, Reimo, Christiane Kupsch, and Christian Schmitz-Linneweber. "RNA-Binding Proteins Required for Chloroplast RNA Processing." In Plant Mitochondria. Springer New York, 2010. http://dx.doi.org/10.1007/978-0-387-89781-3_8.

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Jordan, Britta, Lisa Nickel, and Ruth A. Schmitz. "Microscale Thermophoresis to Study RNA–RNA Binding Affinity." In Prokaryotic Gene Regulation. Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2413-5_15.

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Giudice, Jimena, and Thomas A. Cooper. "RNA-Binding Proteins in Heart Development." In Systems Biology of RNA Binding Proteins. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1221-6_11.

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Cole, James L. "RNA-Binding Proteins – Catalytic Domains." In Encyclopedia of Biophysics. Springer Berlin Heidelberg, 2013. http://dx.doi.org/10.1007/978-3-642-16712-6_461.

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Gerstberger, Stefanie, Markus Hafner, Manuel Ascano, and Thomas Tuschl. "Evolutionary Conservation and Expression of Human RNA-Binding Proteins and Their Role in Human Genetic Disease." In Systems Biology of RNA Binding Proteins. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1221-6_1.

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Conference papers on the topic "RNA-binding"

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Li, Yichong, Xiaojian Liu, Fan Cheng, Xiaoyong Pan, and Yang Yang. "RBP-Former: Joint Prediction of RNA-protein Binding Sites on Full-length RNA Transcripts for Multiple RBPs." In 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2024. https://doi.org/10.1109/bibm62325.2024.10821865.

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Majumder, Subhasree, and Debnath Pal. "Prediction of Small Molecules Binding Site with RNA as a Target." In 2024 15th International Conference on Computing Communication and Networking Technologies (ICCCNT). IEEE, 2024. http://dx.doi.org/10.1109/icccnt61001.2024.10726012.

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M.M.Alkubaisy, Dulfikar Jawad Hashim, Karrar Hayder Shakir, et al. "AI in Neurodegenerative Disease Research: IBM Watson Identifying RNA Binding Proteins." In 2024 International Conference on IoT, Communication and Automation Technology (ICICAT). IEEE, 2024. https://doi.org/10.1109/icicat62666.2024.10923068.

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Mohan, Divya, M. Vaishnavi Prabha, and Amokh G. Nair. "Hybrid Deep Learning for RNA-Protein Binding Prediction with Hierarchical Features and Debiasing." In 2024 4th International Conference on Ubiquitous Computing and Intelligent Information Systems (ICUIS). IEEE, 2024. https://doi.org/10.1109/icuis64676.2024.10866658.

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Guo, Junkun, and Yang Yang. "Enhancing RBP Binding Site Prediction on Long RNA Sequences through Large Language Models." In 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2024. https://doi.org/10.1109/bibm62325.2024.10822773.

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Joby, George, K. Vrinda, Govindan Chandana, Surendran Arundhathy, and Biju Avany. "DNA RNA binding protein prediction." In MULTIMEDIA UNIVERSITY ENGINEERING CONFERENCE 2023 (MECON2023). AIP Publishing, 2024. http://dx.doi.org/10.1063/5.0230564.

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Adamek, Maksimiljan. "Molecular Grammar of RNA-binding Protein Interactions in Formation and Function of Ribonucleoprotein Complexes." In Socratic Lectures 8. University of Lubljana Press, 2023. http://dx.doi.org/10.55295/psl.2023.ii15.

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Ribonucleoproteins (RNPs) are macromolecular assemblies of proteins along RNA molecules to carry out specialized cellular processes. Understanding how RNA binding proteins (RBPs) and RNA sequences determine the interactions to form RNPs and ultimately steer biomolecular processes remains poorly understood. There is a mounting evidence that RNP assembly de-pends on the formation of a network of transient, multivalent RBP RNA and RBP RBP interac-tions, particularly between tyrosine residues from intrinsically disordered domains and argi-nine residues from RNA-binding domains of RBPs. Furthermore
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Huang, Yile, Yulong Qiao, Yu Zhao, et al. "RNA binding proteins (RBPs) regulate lncRNA nuclear retention." In 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2020. http://dx.doi.org/10.1109/bibm49941.2020.9313283.

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Nieves, Bethsaida I., Shuang Niu, Dedeepya Vaka, Julia Salzman, Patrick Brown, and Alejandro I. Sweet-Cordero. "Abstract 204: Molecular function of the RNA binding protein EWS in RNA processing." In Proceedings: AACR 103rd Annual Meeting 2012‐‐ Mar 31‐Apr 4, 2012; Chicago, IL. American Association for Cancer Research, 2012. http://dx.doi.org/10.1158/1538-7445.am2012-204.

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Deng, Lei, Youzhi Liu, Yechuan Shi, and Hui Liu. "A deep neural network approach using distributed representations of RNA sequence and structure for identifying binding site of RNA-binding proteins." In 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2019. http://dx.doi.org/10.1109/bibm47256.2019.8983345.

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Reports on the topic "RNA-binding"

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Atasoy, Ulus, J. W. Davis, and Tim Hoffman. RNA Binding Proteins Posttranscriptionally Regulate Genes Involved In Oncogenesis. Defense Technical Information Center, 2010. http://dx.doi.org/10.21236/ada540837.

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Brewer, Gary. RNA-Binding Proteins as Novel Oncoproteins and Tumor Suppressors in Breast Cancer. Defense Technical Information Center, 2004. http://dx.doi.org/10.21236/ada436941.

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Brewer, Gary. RNA-Binding Proteins as Novel Oncoproteins and Tumor Suppressors in Breast Cancer. Defense Technical Information Center, 2006. http://dx.doi.org/10.21236/ada456197.

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Brewer, Gary. RNA-Binding Proteins as Novel Oncogenes and Tumor Suppressors in Breast Cancer. Defense Technical Information Center, 2005. http://dx.doi.org/10.21236/ada474438.

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Gafni, Yedidya, and Vitaly Citovsky. Inactivation of SGS3 as Molecular Basis for RNA Silencing Suppression by TYLCV V2. United States Department of Agriculture, 2013. http://dx.doi.org/10.32747/2013.7593402.bard.

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The Israeli isolate of Tomato yellow leaf curl geminivirus(TYLCV-Is) is a major tomato pathogen, causing extensive crop losses in Israel and in the south-eastern U.S. Yet, little is known about the molecular mechanisms of its interaction with tomato cells. One of the most interesting aspects of such interaction is how the invading virus counteracts the RNA silencing response of the plant. In the former BARD project, we have shown that TYLCV-Is V2 protein is an RNA silencing suppressor, and that this suppression is carried out via the interaction of V2 with the SGS3 component of the plant RNA s
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Whitham, Steven A., Amit Gal-On, and Victor Gaba. Post-transcriptional Regulation of Host Genes Involved with Symptom Expression in Potyviral Infections. United States Department of Agriculture, 2012. http://dx.doi.org/10.32747/2012.7593391.bard.

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Understanding how RNA viruses cause disease symptoms in their hosts is expected to provide information that can be exploited to enhance modern agriculture. The helper component-proteinase (HC-Pro) protein of potyviruses has been implicated in symptom development. Previously, we demonstrated that symptom expression is associated with binding of duplex small-interfering-RNA (duplex-siRNA) to a highly conserved FRNK amino acid motif in the HC-Pro of Zucchini yellow mosaic virus (ZYMV). This binding activity also alters host microRNA (miRNA) profiles. In Turnip mosaic virus (TuMV), which infects t
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Liao, Jianhua, Jingting Liu, Baoqing Liu, Chunyan Meng, and Peiwen Yuan. Effect of OIP5-AS1 on clinicopathological characteristics and prognosis of cancer patients: a meta-analysis. INPLASY - International Platform of Registered Systematic Review and Meta-analysis Protocols, 2022. http://dx.doi.org/10.37766/inplasy2022.10.0118.

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Review question / Objective: According to recent studies, long non-coding RNA (lncRNAs) i.e., OPA-interacting protein 5 antisense RNA 1 (OIP5-AS1) has an important role in various carcinomas. However, its role in the cancer is contradictory. Therefore, we aimed to evaluate the link between OIP5-AS1 and cancer patients' clinicopathological characteristics and prognosis to better understand OIP5-AS1's role in cancer. Condition being studied: Reported studies have revealed that long non-coding RNA (lncRNAs) are considerably involved in crucial physiological events in several carcinomas, it can in
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Hale, Benjamin J., Caixia Yang, and Jason W. Ross. Expression of RNA Binding Proteins DND1 and FXR1 in the Porcine Uterus during the Estrous Cycle and Early Pregnancy. Iowa State University, 2013. http://dx.doi.org/10.31274/ans_air-180814-832.

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Mawassi, Munir, and Valerian Dolja. Role of RNA Silencing Suppression in the Pathogenicity and Host Specificity of the Grapevine Virus A. United States Department of Agriculture, 2010. http://dx.doi.org/10.32747/2010.7592114.bard.

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RNA silencing is a defense mechanism that functions against virus infection and involves sequence-specific degradation of viral RNA. Diverse RNA and DNA viruses of plants encode RNA silencing suppressors (RSSs), which, in addition to their role in viral counterdefense, were implicated in the efficient accumulation of viral RNAs, virus transport, pathogenesis, and determination of the virus host range. Despite rapidly growing understanding of the mechanisms of RNA silencing suppression, systematic analysis of the roles played by diverse RSSs in virus biology and pathology is yet to be completed
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Whitham, Steven A., Amit Gal-On, and Tzahi Arazi. Functional analysis of virus and host components that mediate potyvirus-induced diseases. United States Department of Agriculture, 2008. http://dx.doi.org/10.32747/2008.7591732.bard.

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The mechanisms underlying the development of symptoms in response to virus infection remain to be discovered in plants. Insight into symptoms induced by potyviruses comes from evidence implicating the potyviral HC-Pro protein in symptom development. In particular, recent studies link the development of symptoms in infected plants to HC-Pro's ability to interfere with small RNA metabolism and function in plant hosts. Moreover, mutation of the highly conserved FRNK amino acid motif to FINK in the HC-Pro of Zucchini yellow mosaic virus (ZYMV) converts a severe strain into an asymptomatic strain,
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