Log in

Relevant bibliographies by topics / RNA stem loop

Contents

Journal articles
Dissertations / Theses
Book chapters
Conference papers

Academic literature on the topic 'RNA stem loop'

Author: Grafiati

Published: 4 June 2021

Last updated: 1 February 2022

Create a spot-on reference in APA, MLA, Chicago, Harvard, and other styles

Select a source type:

Consult the lists of relevant articles, books, theses, conference reports, and other scholarly sources on the topic 'RNA stem loop.'

Next to every source in the list of references, there is an 'Add to bibliography' button. Press on it, and we will generate automatically the bibliographic reference to the chosen work in the citation style you need: APA, MLA, Harvard, Chicago, Vancouver, etc.

You can also download the full text of the academic publication as pdf and read online its abstract whenever available in the metadata.

Journal articles on the topic "RNA stem loop"

1

Yunus, Muhammad Amir, Xiaoyan Lin, Dalan Bailey, et al. "The Murine Norovirus Core Subgenomic RNA Promoter Consists of a Stable Stem-Loop That Can Direct Accurate Initiation of RNA Synthesis." Journal of Virology 89, no. 2 (2014): 1218–29. http://dx.doi.org/10.1128/jvi.02432-14.

Full text

Abstract:

ABSTRACTAll members of theCaliciviridaefamily of viruses produce a subgenomic RNA during infection. The subgenomic RNA typically encodes only the major and minor capsid proteins, but in murine norovirus (MNV), the subgenomic RNA also encodes the VF1 protein, which functions to suppress host innate immune responses. To date, the mechanism of norovirus subgenomic RNA synthesis has not been characterized. We have previously described the presence of an evolutionarily conserved RNA stem-loop structure on the negative-sense RNA, the complementary sequence of which codes for the viral RNA-dependent

APA, Harvard, Vancouver, ISO, and other styles

2

Luo, Guangxiang, Shaojie Xin, and Zhaohui Cai. "Role of the 5′-Proximal Stem-Loop Structure of the 5′ Untranslated Region in Replication and Translation of Hepatitis C Virus RNA." Journal of Virology 77, no. 5 (2003): 3312–18. http://dx.doi.org/10.1128/jvi.77.5.3312-3318.2003.

Full text

Abstract:

ABSTRACT Sequences of the untranslated regions at the 5′ and 3′ ends (5′UTR and 3′UTR) of the hepatitis C virus (HCV) RNA genome are highly conserved and contain cis-acting RNA elements for HCV RNA replication. The HCV 5′UTR consists of two distinct RNA elements, a short 5′-proximal stem-loop RNA element (nucleotides 1 to 43) and a longer element of internal ribosome entry site. To determine the sequence and structural requirements of the 5′-proximal stem-loop RNA element in HCV RNA replication and translation, a mutagenesis analysis was preformed by nucleotide deletions and substitutions. Eff

APA, Harvard, Vancouver, ISO, and other styles

3

Frank, D. N., H. Roiha, and C. Guthrie. "Architecture of the U5 small nuclear RNA." Molecular and Cellular Biology 14, no. 3 (1994): 2180–90. http://dx.doi.org/10.1128/mcb.14.3.2180.

Full text

Abstract:

We have used comparative sequence analysis and deletion analysis to examine the secondary structure of the U5 small nuclear RNA (snRNA), an essential component of the pre-mRNA splicing apparatus. The secondary structure of Saccharomyces cerevisiae U5 snRNA was studied in detail, while sequences from six other fungal species were included in the phylogenetic analysis. Our results indicate that fungal U5 snRNAs, like their counterparts from other taxa, can be folded into a secondary structure characterized by a highly conserved stem-loop (stem-loop 1) that is flanked by a moderately conserved in

APA, Harvard, Vancouver, ISO, and other styles

4

Frank, D. N., H. Roiha, and C. Guthrie. "Architecture of the U5 small nuclear RNA." Molecular and Cellular Biology 14, no. 3 (1994): 2180–90. http://dx.doi.org/10.1128/mcb.14.3.2180-2190.1994.

Full text

Abstract:

We have used comparative sequence analysis and deletion analysis to examine the secondary structure of the U5 small nuclear RNA (snRNA), an essential component of the pre-mRNA splicing apparatus. The secondary structure of Saccharomyces cerevisiae U5 snRNA was studied in detail, while sequences from six other fungal species were included in the phylogenetic analysis. Our results indicate that fungal U5 snRNAs, like their counterparts from other taxa, can be folded into a secondary structure characterized by a highly conserved stem-loop (stem-loop 1) that is flanked by a moderately conserved in

APA, Harvard, Vancouver, ISO, and other styles

5

Donahue, Christine P., Jake Ni, Eriks Rozners, Marcie A. Glicksman, and Michael S. Wolfe. "Identification of Tau Stem Loop RNA Stabilizers." Journal of Biomolecular Screening 12, no. 6 (2007): 789–99. http://dx.doi.org/10.1177/1087057107302676.

Full text

Abstract:

Alternative splicing of tau exon 10 produces tau isoforms with either 3 (3R) or 4 (4R) repeated microtubule-binding domains. Increased ratios of 4R to 3R tau expression, above the physiological 1:1, leads to neurofibrillary tangles and causes neurodegenerative disease. An RNA stem loop structure plays a significant role in determining the ratio, with decreasing stability correlating with an increase in 4R tau mRNA expression. Recent studies have shown that aminoglycosides are able to bind and stabilize the tau stem loop in vitro, suggesting that other druglike small molecules could be identifi

APA, Harvard, Vancouver, ISO, and other styles

6

Shen, Ni, Louis Jetté, Chen Liang, Mark A. Wainberg, and Michael Laughrea. "Impact of Human Immunodeficiency Virus Type 1 RNA Dimerization on Viral Infectivity and of Stem-Loop B on RNA Dimerization and Reverse Transcription and Dissociation of Dimerization from Packaging." Journal of Virology 74, no. 12 (2000): 5729–35. http://dx.doi.org/10.1128/jvi.74.12.5729-5735.2000.

Full text

Abstract:

ABSTRACT The kissing-loop domain (KLD) encompasses a stem-loop, named kissing-loop or dimerization initiation site (DIS) hairpin (nucleotides [nt] 248 to 270 in the human immunodeficiency virus type 1 strains HIV-1Lai and HIV-1Hxb2), seated on top of a 12-nt stem-internal loop called stem-loop B (nt 243 to 247 and 271 to 277). Destroying stem-loop B reduced genome dimerization by ∼50% and proviral DNA synthesis by ∼85% and left unchanged the dissociation temperature of dimeric genomic RNA. The most affected step of reverse transcription was plus-strand DNA transfer, which was reduced by ∼80%.

APA, Harvard, Vancouver, ISO, and other styles

7

Olsthoorn, R. C. L., A. Bruyere, A. Dzianott, and J. J. Bujarski. "RNA Recombination in Brome Mosaic Virus: Effects of Strand-Specific Stem-Loop Inserts." Journal of Virology 76, no. 24 (2002): 12654–62. http://dx.doi.org/10.1128/jvi.76.24.12654-12662.2002.

Full text

Abstract:

ABSTRACT A model system of a single-stranded trisegment Brome mosaic bromovirus (BMV) was used to analyze the mechanism of homologous RNA recombination. Elements capable of forming strand-specific stem-loop structures were inserted at the modified 3′ noncoding regions of BMV RNA3 and RNA2 in either positive or negative orientations, and various combinations of parental RNAs were tested for patterns of the accumulating recombinant RNA3 components. The structured negative-strand stem-loops that were inserted in both RNA3 and RNA2 reduced the accumulation of RNA3-RNA2 recombinants to a much highe

APA, Harvard, Vancouver, ISO, and other styles

8

Walter, Brandon L., Todd B. Parsley, Ellie Ehrenfeld, and Bert L. Semler. "Distinct Poly(rC) Binding Protein KH Domain Determinants for Poliovirus Translation Initiation and Viral RNA Replication." Journal of Virology 76, no. 23 (2002): 12008–22. http://dx.doi.org/10.1128/jvi.76.23.12008-12022.2002.

Full text

Abstract:

ABSTRACT The limited coding capacity of picornavirus genomic RNAs necessitates utilization of host cell factors in the completion of an infectious cycle. One host protein that plays a role in both translation initiation and viral RNA synthesis is poly(rC) binding protein 2 (PCBP2). For picornavirus RNAs containing type I internal ribosome entry site (IRES) elements, PCBP2 binds the major stem-loop structure (stem-loop IV) in the IRES and is essential for translation initiation. Additionally, the binding of PCBP2 to the 5′-terminal stem-loop structure (stem-loop I or cloverleaf) in concert with

APA, Harvard, Vancouver, ISO, and other styles

9

Lee, Haekyung, Hyukwoo Shin, Eckard Wimmer, and Aniko V. Paul. "cis-Acting RNA Signals in the NS5B C-Terminal Coding Sequence of the Hepatitis C Virus Genome." Journal of Virology 78, no. 20 (2004): 10865–77. http://dx.doi.org/10.1128/jvi.78.20.10865-10877.2004.

Full text

Abstract:

ABSTRACT The cis-replicating RNA elements in the 5′ and 3′ nontranslated regions (NTRs) of the hepatitis C virus (HCV) genome have been thoroughly studied before. However, no cis-replicating elements have been identified in the coding sequences of the HCV polyprotein until very recently. The existence of highly conserved and stable stem-loop structures in the RNA polymerase NS5B coding sequence, however, has been previously predicted (A. Tuplin, J. Wood, D. J. Evans, A. H. Patel, and P. Simmonds, RNA 8:824-841, 2002). We have selected for our studies a 249-nt-long RNA segment in the C-terminal

APA, Harvard, Vancouver, ISO, and other styles

10

Evans, Donald, and Thomas Blumenthal. "trans Splicing of PolycistronicCaenorhabditis elegans Pre-mRNAs: Analysis of the SL2 RNA." Molecular and Cellular Biology 20, no. 18 (2000): 6659–67. http://dx.doi.org/10.1128/mcb.20.18.6659-6667.2000.

Full text

Abstract:

ABSTRACT Genes in Caenorhabditis elegans operons are transcribed as polycistronic pre-mRNAs in which downstream gene products aretrans spliced to a specialized spliced leader, SL2. SL2 is donated by a 110-nucleotide RNA, SL2 RNA, present in the cell as an Sm-bound snRNP. SL2 RNA can be conceptually folded into a phylogenetically conserved three-stem-loop secondary structure. Here we report an in vivo mutational analysis of the SL2 RNA. Some sequences can be changed without consequence, while other changes result in a substantial loss of trans splicing. Interestingly, the spliced leader itself

APA, Harvard, Vancouver, ISO, and other styles

More sources

Dissertations / Theses on the topic "RNA stem loop"

1

Sabir, Tara. "Single molecule studies of the MS2 TR RNA stem loop." Thesis, University of Leeds, 2005. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.424024.

Full text

APA, Harvard, Vancouver, ISO, and other styles

2

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.

Full text

Abstract:

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

APA, Harvard, Vancouver, ISO, and other styles

3

Striggles, John. "The RNA worldview and selecting aptamers against the P5.1 stem-loop of B.subtilis RNase P /." Free to MU Campus, others may purchase, 2003. http://wwwlib.umi.com/cr/mo/fullcit?p1418067.

Full text

APA, Harvard, Vancouver, ISO, and other styles

4

Hellmund, Christopher James. "Investigating the role of stem-loop 1 in the assembly process of HIV-1." Thesis, University of Cambridge, 2019. https://www.repository.cam.ac.uk/handle/1810/288541.

Full text

Abstract:

An important step in the production of infectious HIV-1 particles is maturation of the virus core. This process is completed by cleavage of the capsid (CA) domain of Gag, from its precursor, CA-SP1, by the viral protease. Large deletions in stem-loop 1 (SL1) in the 5' untranslated region (UTR) of HIV-1 genomic RNA (gRNA) delay CA-SP1 processing. SL1 harbours the dimerisation initiation site (DIS) palindrome suggesting that efficient Gag processing may be linked to gRNA dimerization as shown in HIV-2. However, a dimerisation mutant with normal Gag processing was identified. Gag processing defec

APA, Harvard, Vancouver, ISO, and other styles

5

Cojocaru, Vlad. "Molecular motions at the 5 stem-loop of U4 snRNA: Implications for U4/U6 snRNP assembly." Doctoral thesis, [S.l.] : [s.n.], 2005. http://webdoc.sub.gwdg.de/diss/2005/cojocaru.

Full text

APA, Harvard, Vancouver, ISO, and other styles

6

Denham, Elizabeth. "The Effects of Relocating the Ku-binding Stem-loop of Telomerase RNA on Telomere Healing Events." Thesis, Boston College, 2008. http://hdl.handle.net/2345/528.

Full text

Abstract:

Thesis advisor: Anne E. Stellwagen<br>Thesis advisor: Clare O'Connor<br>In most eukaryotes, the enzyme telomerase adds telomeric DNA repeats to the 3' ends of chromosomes in order to stabilize them and protect them from degradation. In the budding yeast Saccharomyces cerevisiae, telomerase is a ribonucleoprotein complex consisting of multiple protein subunits and an approximately 1.3 kb RNA component termed TLC1. Among the various proteins involved in telomerase, Ku is a heterodimer that binds both to double-stranded DNA and to a 48 nucleotide stem loop on the TLC1 RNA. Beyond its function of

APA, Harvard, Vancouver, ISO, and other styles

7

Clingman, Carina C. "A Feedback Loop Couples Musashi-1 Activity to Omega-9 Fatty Acid Biosynthesis: A Dissertation." eScholarship@UMMS, 2014. http://escholarship.umassmed.edu/gsbs_diss/718.

Full text

Abstract:

All living creatures change their gene expression program in response to nutrient availability and metabolic demands. Nutrients and metabolites can directly control transcription and activate second-‐messenger systems. In bacteria, metabolites also affect post-‐transcriptional regulatory mechanisms, but there are only a few isolated examples of this regulation in eukaryotes. Here, I present evidence that RNA-‐binding by the stem cell translation regulator Musashi-‐1 (MSI1) is allosterically inhibited by 18-‐22 carbon ω-‐9 monounsaturated fatty acids. The fatty acid binds to the N-‐termi

APA, Harvard, Vancouver, ISO, and other styles

8

Gangapatnam, Girija Lakshmi. "A NOVEL ROLE FOR dADAR ISOFORMS IN DROSOPHILA rnp-4f 5'-UTR INTRON SPLICING REGULATION." Miami University / OhioLINK, 2012. http://rave.ohiolink.edu/etdc/view?acc_num=miami1335963918.

Full text

APA, Harvard, Vancouver, ISO, and other styles

9

Lu, Jian. "The Kluyveromyces lactis killer toxin is a transfer RNA endonuclease." Doctoral thesis, Umeå : Department of Molecular Biology, Umeå Univ, 2007. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-1092.

Full text

APA, Harvard, Vancouver, ISO, and other styles

10

Seleem, Mohamed N. "Ochrobactrum anthropi: a soil bacterium for the study of Brucella virulence." Diss., Virginia Tech, 2006. http://hdl.handle.net/10919/28818.

Full text

Abstract:

The species of Brucella were isolated and characterized almost 120 years ago and their genomes sequenced for almost 4 years. Compared to other bacterial pathogens relatively, little is known about the factors contributing to their persistence in hosts and multiplication within phagocytic cells. Also, many aspects of the interactions between Brucella and its host remain unclear. Molecular characterization of intracellular survival processes of Brucella will provide guidance for additional prevention and control measures. One of the features that distinguishes Brucella is that they do not expres

APA, Harvard, Vancouver, ISO, and other styles

More sources

Book chapters on the topic "RNA stem loop"

1

Harada, Kazuo. "Identification of Antisense RNA Stem-Loops That Inhibit RNA–Protein Interactions Using a Bacterial Reporter System." In RNA-RNA Interactions. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1896-6_4.

Full text

APA, Harvard, Vancouver, ISO, and other styles

2

Guignon, Valentin, Cedric Chauve, and Sylvie Hamel. "An Edit Distance Between RNA Stem-Loops." In String Processing and Information Retrieval. Springer Berlin Heidelberg, 2005. http://dx.doi.org/10.1007/11575832_38.

Full text

APA, Harvard, Vancouver, ISO, and other styles

3

Le, Shu-Yun, and Jih-H. Chen. "Statistical Inference on Distinct RNA Stem-Loops in Genomic Sequences." In Bioinformatics Research and Development. Springer Berlin Heidelberg, 2007. http://dx.doi.org/10.1007/978-3-540-71233-6_25.

Full text

APA, Harvard, Vancouver, ISO, and other styles

4

Salone, Véronique, and Mathieu Rederstorff. "Stem-Loop RT-PCR Based Quantification of Small Non-Coding RNAs." In Methods in Molecular Biology. Springer New York, 2015. http://dx.doi.org/10.1007/978-1-4939-2547-6_10.

Full text

APA, Harvard, Vancouver, ISO, and other styles

5

Saxena, Shipra, Sneha Yogindran, Manmohan Arya, Yogita Sharma, and Chandra Pal Singh. "RNAi-Mediated Control of Lepidopteran Pests of Important Crop Plants." In Moths and Caterpillars. IntechOpen, 2021. http://dx.doi.org/10.5772/intechopen.96429.

Full text

Abstract:

Insects as pests destroy annually an estimated 18–20% of the crop production worldwide. Caterpillars, the larval stage of moths, are the major pests of agricultural products owing to their voracious feeding habits. In the past few decades, the potent methods of insect control, such as insecticides and Bt toxins, have been constrained as a result of health hazards, environmental issues, and development of resistance, after their prolonged application. Thus, there is need to find alternative options to improve plant protection strategies. Recently, RNA interference (RNAi), the post-transcriptional gene-silencing mechanism, has emerged as one of such a novel, sustainable, and environment friendly approaches for insect management and crop protection. RNAi technology relies on selection of a vital insect pest target gene and its expression as a double stranded RNA or stem-loop RNA molecule, which is recognized by the host RNAi machinery and processed into small interfering RNAs (siRNAs) or microRNAs (miRNAs). The siRNA/miRNA along with the RNA-induced silencing complex (RISC) binds to the complimentary mRNA and induce gene silencing at post-transcriptional level. With effective target-gene selection and transgenic plants expressing these precursor RNA molecules, insect pests of various crops have been efficiently managed. In this chapter, we discuss the basic mechanism of RNAi and its application in controlling lepidopteran pests of important crop plants.

APA, Harvard, Vancouver, ISO, and other styles

6

Okut, Hayrettin. "Deep Learning for Subtyping and Prediction of Diseases: Long-Short Term Memory." In Deep Learning Applications. IntechOpen, 2021. http://dx.doi.org/10.5772/intechopen.96180.

Full text

Abstract:

The long short-term memory neural network (LSTM) is a type of recurrent neural network (RNN). During the training of RNN architecture, sequential information is used and travels through the neural network from input vector to the output neurons, while the error is calculated and propagated back through the network to update the network parameters. Information in these networks incorporates loops into the hidden layer. Loops allow information to flow multi-directionally so that the hidden state signifies past information held at a given time step. Consequently, the output is dependent on the previous predictions which are already known. However, RNNs have limited capacity to bridge more than a certain number of steps. Mainly this is due to the vanishing of gradients which causes the predictions to capture the short-term dependencies as information from earlier steps decays. As more layers in RNN containing activation functions are added, the gradient of the loss function approaches zero. The LSTM neural networks (LSTM-ANNs) enable learning long-term dependencies. LSTM introduces a memory unit and gate mechanism to enable capture of the long dependencies in a sequence. Therefore, LSTM networks can selectively remember or forget information and are capable of learn thousands timesteps by structures called cell states and three gates.

APA, Harvard, Vancouver, ISO, and other styles

Conference papers on the topic "RNA stem loop"

1

Deng, Dezhong, Douglas Holman, and David A. Hendrix. "DeepSloop: A Recurrent Neural Network Learns Complex Rules to Detect Stem-Loop-Forming RNA Sequences." In 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2019. http://dx.doi.org/10.1109/bibm47256.2019.8983346.

Full text

APA, Harvard, Vancouver, ISO, and other styles

2

Venturini, M. "Simulation of Compressor Transient Behavior Through Recurrent Neural Network Models." In ASME Turbo Expo 2005: Power for Land, Sea, and Air. ASMEDC, 2005. http://dx.doi.org/10.1115/gt2005-68030.

Full text

Abstract:

In the paper, self-adapting models capable of reproducing time-dependent data with high computational speed are investigated. The considered models are recurrent feed-forward neural networks (RNNs) with one feedback loop in a recursive computational structure, trained by using a back-propagation learning algorithm. The data used for both training and testing the RNNs have been generated by means of a non-linear physics-based model for compressor dynamic simulation, which was calibrated on a multi-stage axial-centrifugal small size compressor. The first step of the analysis is the selection of

APA, Harvard, Vancouver, ISO, and other styles

3

Ho, C. J., S. Y. Chiu, and J. F. Lin. "Two Dimensional Simulation of Heat Transfer and Fluid Flow in a Rectangular Natural Circulation Loop Containing PCM Suspensions." In ASME 2004 Heat Transfer/Fluids Engineering Summer Conference. ASMEDC, 2004. http://dx.doi.org/10.1115/ht-fed2004-56244.

Full text

Abstract:

A two-dimensional numerical simulation, via a finite difference method, of fluid flow and heat transfer in a rectangular natural circulation loop is presented to explore efficacy of using solid-liquid phase change material (PCM) suspensions as a heat transfer medium. A continuum mixture flow model is used for the buoyancy-driven circulation flow of the PCM suspensions together with an approximate enthalpy model to describe the solid-liquid phase change (melting/freezing) process of the PCM particles in the loop. Parametric simulations have been conducted for the pertinent physical parameters o

APA, Harvard, Vancouver, ISO, and other styles

4

Ferrari, Jerome, and Zachary Leutwyler. "Fluid Flow Force Measurement Under Various Cavitation State on a Globe Valve Model." In ASME 2008 Pressure Vessels and Piping Conference. ASMEDC, 2008. http://dx.doi.org/10.1115/pvp2008-61238.

Full text

Abstract:

Proper actuator sizing and valve-stem guide selection requires accurate knowledge of the thrust requirements for linear valves. For globe valves, the flow-induced forces acting on the disc can be a substantial part of the total required thrust that the actuator is required to overcome. The flow-induced forces acting on the globe valve disc are decomposed into the rejection (or axial) force and the transverse (or side load) force. The axial force acts along the disc stem axis and the transverse force acts perpendicular to the disc stem axis. The axial force generally lends itself to simple anal

APA, Harvard, Vancouver, ISO, and other styles

5

La¨uferts, Ulrike, Charlotte Halbe, and Aliki van Heek. "Value-Creating Investment Strategies to Manage Risk From Structural Market Uncertainties: Switching and Compound Options in (V)HTR Technologies." In Fourth International Topical Meeting on High Temperature Reactor Technology. ASMEDC, 2008. http://dx.doi.org/10.1115/htr2008-58157.

Full text

Abstract:

To measure the value of a technology investment under uncertainty with standard techniques like net present value (NPV) or return on investment (ROI) will often uncover the difficulty to present convincing business case. Projected cash flows are inefficient or the discount rate chosen to compensate for the risk is so high, that it is disagreeable to the investor’s requirements. Decision making and feasibility studies have to look beyond traditional analysis to reveal the strategic value of a technology investment. Here, a Real Option Analysis (ROA) offers a powerful alternative to standard dis

APA, Harvard, Vancouver, ISO, and other styles

We offer discounts on all premium plans for authors whose works are included in thematic literature selections. Contact us to get a unique promo code!