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  1. No Access手机体育投注平台

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    Computational Detection of Plant RNA Editing Events

    手机体育投注平台 Computers are able to systematically exploit RNA-seq data allowing us to efficiently detect RNA editing sites in a genome-wide scale. This chapter introduces a very flexible computational framework for detecti...

    Alejandro A. Edera, M. Virginia Sanchez-Puerta in RNA Editing (2021)

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    C-to-U RNA Editing: From Computational Detection to Experimental Validation

    手机体育投注平台 The AID/APOBEC family of enzymes are cytidine deaminases that act upon DNA and RNA. Among APOBECs, the best characterized family member to act on RNA is the enzyme APOBEC1. APOBEC1-mediated RNA editing plays a...

    Taga Lerner, Mitchell Kluesner, Rafail Nikolaos Tasakis in RNA Editing (2021)

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    Adenosine-to-Inosine RNA Editing Enzyme ADAR and microRNAs

    RNA is subjected to over 100 different types of chemical modifications inside the cell. These modifications have various effects on its function and expression, resulting in RNA diversity. RNA editing or conve...

    Kang Yuting, Dan Ding, Hisashi Iizasa in RNA Editing (2021)

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    Co-transcriptional Analysis of Self-Cleaving Ribozymes and Their Ligand Dependence

    Self-cleaving ribozymes are RNA molecules that catalyze a site-specific self-scission reaction. Analysis of self-cleavage is a crucial aspect of the biochemical study and understanding of these molecules. Here...

    Luiz F. M. Passalacqua, Andrej Lupták in Ribozymes (2021)

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    Discovering A-to-I RNA Editing Through Chemical Methodology “ICE-seq”

    RNA editing of adenosines to inosines contributes to a wide range of biological processes by regulating gene expression post-transcriptionally. To understand the effect, accurate mapping of inosines is necessa...

    Masayuki Sakurai, Shunpei Okada, Hiroki Ueda, Yuxi Yang in RNA Editing (2021)

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    Demonstration of a Ribozyme in Epsilon Domain of Hepatitis B Virus RNA

    The epsilon domain of Hepatitis B virus plays a crucial role in encapsidation of viral pregenomic RNA and its partial NMR structure has been determined. However, we recently described a potassium-dependent rib...

    Dibyajnan Chakraborty, Sagarmoy Ghosh in Ribozymes (2021)

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    Characterization and Optimization of a Deoxyribozyme with a Short Left Binding Arm

    手机体育投注平台 Deoxyribozymes capable of catalyzing sequence-specific RNA cleavage have broad applications in biotechnology. In vitro selected RNA-cleaving deoxyribozymes normally contain two substrate-binding arms and a cen...

    Yueyao Wang, Hanyang Yu in Ribozymes (2021)

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    SHAPE Profiling to Probe Group II Intron Conformational Dynamics During Splicing

    Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE) is a widely used technique for studying the structure and function of RNA molecules. It characterizes the flexibility of single nucleotides ...

    Timothy Wiryaman, Navtej Toor in Ribozymes (2021)

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    Inverse RNA Folding Workflow to Design and Test Ribozymes that Include Pseudoknots

    Ribozymes are RNAs that catalyze reactions. They occur in nature, and can also be evolved in vitro to catalyze novel reactions. This chapter provides detailed protocols for using inverse folding software to de...

    Mohammad Kayedkhordeh, Ryota Yamagami, Philip C. Bevilacqua, David H. Mathews in Ribozymes (2021)

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    RNA Editing in Human and Mouse Tissues

    手机体育投注平台 Adenosine-to-inosine (A-to-I) RNA editing is a fundamental posttranscriptional mechanism that greatly diversifies the transcriptome in many living organisms, including mammals. Multiple studies have demonstrat...

    Harini Srinivasan, Eng Piew Louis Kok, Meng How Tan in RNA Editing (2021)

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    Design and Evaluation of Guide RNA Transcripts with a 3′-Terminal HDV Ribozyme to Enhance CRISPR-Based Gene Inactivation

    The recently discovered clustered regularly interspaced short palindromic repeats (CRISPR)-Cpf1 system, now reclassified as Cas12a, is a DNA-editing platform analogous to the widely used CRISPR-Cas9 system. Th...

    Ben Berkhout, Zongliang Gao, Elena Herrera-Carrillo in Ribozymes (2021)

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    High-Throughput Sequencing to Detect DNA-RNA Changes

    手机体育投注平台 The advent of deep sequencing technologies has greatly improved the study of complex eukaryotic genomes and transcriptomes, allowing the investigation of posttranscriptional molecular mechanisms as alternative...

    Claudio Lo Giudice, Graziano Pesole, Ernesto Picardi in RNA Editing (2021)

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    Cloning and Detection of Aptamer-Ribozyme Conjugations

    RNA aptamers can be used to target proteins or nucleic acids for therapeutic purposes and are candidates for RNA-mediated gene therapy. Like other small therapeutic RNAs, they can be expressed in cells from DN...

    Ryan P. Goguen, Anne Gatignol, Robert J. Scarborough in Ribozymes (2021)

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    Proteome Diversification by RNA Editing

    手机体育投注平台 RNA editing is an RNA modification that alters the RNA sequence relative to its genomic blueprint. The most common type of RNA editing is A-to-I editing by double-stranded RNA-specific adenosine deaminase (ADA...

    Eli Eisenberg in RNA Editing (2021)

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    Long Non-coding RNA Depletion Using Self-Cleaving Ribozymes

    手机体育投注平台 Some genes encode a functional product, whereas others act as DNA elements or via the act of transcription . We describe here a ribozyme-based approach to deplete an endogenous lncRNA in mouse embryonic s...

    Alex C. Tuck, Marc Bühler in Ribozymes (2021)

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    RNA Editing in Interferonopathies

    手机体育投注平台 The type I interferonopathies comprise a heterogenous group of monogenic diseases associated with a constitutive activation of type I interferon signaling.

    Loredana Frassinelli, Silvia Galardi, Silvia Anna Ciafrè in RNA Editing (2021)

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    RNA Editing in Neurological and Neurodegenerative Disorders

    The brain is one of the organs that are preferentially targeted by adenosine-to-inosine (A-to-I) RNA editing, a posttranscriptional modification. This chemical modification affects neuronal development and fun...

    Pedro Henrique Costa Cruz, Yukio Kawahara in RNA Editing (2021)

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    Substitutional RNA Editing in Plant Organelles

    RNA editing by cytidine (C) to uridine (U) conversions frequently occurs in land plant mitochondria and plastids. Target cytidines are specifically recognized by nuclear-encoded pentatricopeptide repeat (PPR) ...

    Mizuho Ichinose, Mamoru Sugita in RNA Editing (2021)

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    Discovering RNA Editing Events in Fungi

    手机体育投注平台 RNA editing is an important posttranscriptional process that alters the genetic information of RNA encoded by genomic DNA. Adenosine-to-inosine (A-to-I) editing is the most prevalent type of RNA editing in ani...

    Huiquan Liu, Jin-Rong Xu in RNA Editing (2021)

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    Live-Cell Quantification of APOBEC1-Mediated RNA Editing: A Comparison of RNA Editing Assays

    手机体育投注平台 APOBEC1 is a member of the AID/APOBECs, a group of deaminases responsible for the editing of C>U in both DNA and RNA. APOBEC1 is physiologically involved in C>U RNA editing: while hundreds of targets have been...

    Martina Chieca, Serena Torrini, Silvestro G. Conticello in RNA Editing (2021)

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