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Enzymes in RNA science and biotechnology. Part B /
Enzymes in RNA Science and Biotechnology, Part B, Volume 692 in the Methods in Enzymology series, highlights new advances in the field with this new volume presenting interesting chapters on topics such as Quantitative base-resolution sequencing technology for mapping pseudouridines in mammalian mRN...
| Clasificación: | Libro Electrónico |
|---|---|
| Otros Autores: | , |
| Formato: | Electrónico eBook |
| Idioma: | Inglés |
| Publicado: |
Amsterdam, Netherlands :
Elsevier Academic Press,
2023.
|
| Edición: | First edition. |
| Colección: | Methods in enzymology,
volume 692 |
| Temas: | |
| Acceso en línea: | Texto completo |
MARC
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| 245 | 0 | 0 | |a Enzymes in RNA science and biotechnology. |n Part B / |c edited by Ryota Yamagami, Department of Materials Science and Biotechnology, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime, Japan, Chun Kit Kwok, Department of Chemistry and State Key Laboratory of Marine Pollution, City University of Hong Kong, Hong Kong SAR, P.R. China. |
| 250 | |a First edition. | ||
| 264 | 1 | |a Amsterdam, Netherlands : |b Elsevier Academic Press, |c 2023. | |
| 264 | 4 | |c �2023 | |
| 300 | |a 1 online resource (xxi, 324 pages) : |b illustrations (some colour). | ||
| 336 | |a text |b txt |2 rdacontent | ||
| 337 | |a computer |b c |2 rdamedia | ||
| 338 | |a online resource |b cr |2 rdacarrier | ||
| 490 | 0 | |a Methods in enzymology, |x 0076-6879 ; |v volume 692 | |
| 520 | |a Enzymes in RNA Science and Biotechnology, Part B, Volume 692 in the Methods in Enzymology series, highlights new advances in the field with this new volume presenting interesting chapters on topics such as Quantitative base-resolution sequencing technology for mapping pseudouridines in mammalian mRNA, Quantitative base-resolution DAMM-seq for mapping RNA methylations in tRNA and mitochondrial dsRNA, Discovering RNA modification enzymes using a comparative genomics approach, Functional analysis of tRNA modification enzymes using mutational profiling, and Fluorescent labeling of tRNA for rapid kinetic interaction studies with tRNA-binding proteins. Other chapters cover Enzymatic Synthesis of RNA Standards for Mapping and Quantifying RNA Modifications in Sequencing Analysis, Characterizing RNase L-mediated mRNA decay in single cells, Characterization of RNase J, Pri-miRNA cleavage assays for the Microprocessor complex, The pre-miRNA cleavage assays for DICE, Methods for study of ribonuclease targeting chimeras, and Profiling the in vivo RNA interactome associated with the endoribonuclease RNase III in Staphylococcus aureus. | ||
| 505 | 0 | |a Front Cover -- Series Page -- Methods in ENZYMOLOGY -- Copyright -- Contents -- Contributors -- Preface -- Section 1: Post-transcriptional modification enzymes -- Chapter One: D-Seq: Genome-wide detection of dihydrouridine modifications in RNA -- 1 Introduction -- 1.1 RNA modifications impact RNA function -- 1.2 Methods to detect dihydrouridine -- 2 Step-by-step method details -- 2.1 Sample preparation -- 2.1.1 RNA isolation from S. cerevisiae -- 2.1.2 Poly(A) selection using oligo (dT) cellulose beads -- 2.1.3 Poly(A) selection using oligo (dT) magnetic beads | |
| 505 | 8 | |a 2.1.4 tRNA size selection using silica columns -- 3 D-Seq Library preparation -- 3.1 RNA fragmentation -- 3.2 Borohydride reduction -- 3.3 32 End healing -- 3.4 RNA size selection -- 3.5 32 Adapter ligation -- 3.6 Reverse transcription -- 3.7 Size selection -- 3.8 52 Adapter ligation -- 3.9 PCR amplification -- 4 D-seq data analysis -- 4.1 Trimming of adapter sequences -- 4.2 PCR duplicate collapsing -- 4.3 UMI removal -- 4.4 Read mapping -- 4.5 Read end position gathering -- 4.6 D-site identification -- 5 Experimental considerations -- 5.1 Negative control selection | |
| 505 | 8 | |a 5.2 Sequencing depth and biological replicates -- 6 Solutions and reagent recipes -- 6.1 Solutions -- Acknowledgments -- References -- Chapter Two: Quantitative base-resolution sequencing technology for mapping pseudouridines in mammalian mRNAQuantitative base-resolution sequencing technology -- 1 Introduction -- 2 Materials -- 2.1 Preparation of RNA samples -- 2.2 RNA fragmentation -- 2.3 RNA 32- and 52-end repair -- 2.4 RNA 32-adaptor ligation -- 2.5 RNA 52-adaptor ligation -- 2.6 BID-seq bisulfite treatment -- 2.7 Desulphonation -- 2.8 Reverse transcription -- 2.9 PCR amplification | |
| 505 | 8 | |a 2.10 NGS sequencing and data analysis -- 3 Methods -- 3.1 Overview -- 3.2 Preparation of RNA sample -- 3.3 RNA fragmentation -- 3.4 RNA 32- and 52-end repair -- 3.5 RNA 32-adaptor ligation -- 3.6 RNA 52 adaptor ligation -- 3.7 BID-seq bisulfite treatment -- 3.8 Desulphonation -- 3.9 Reverse transcription -- 3.10 PCR amplification -- 3.11 NGS sequencing and data analysis -- 4 Notes -- Funding -- References -- Chapter Three: Base-resolution quantitative DAMM-seq for mapping RNA methylations in tRNA and mitochondrial polycistronic RNABase-resolution quantitative DAMM-seq -- 1 Introduction | |
| 505 | 8 | |a 2 Materials -- 2.1 Preparation of RNA samples -- 2.2 RNA fragmentation -- 2.3 Demethylation -- 2.4 RNA 32-end repair -- 2.5 RNA 32-adaptor ligation -- 2.6 Reverse transcription -- 2.7 cDNA 32-adaptor ligation -- 2.8 PCR amplification -- 2.9 NGS sequencing and data analysis -- 3 Methods -- 3.1 Overview of DAMM-seq -- 3.2 Preparation of RNA sample -- 3.3 RNA fragmentation -- 3.4 Demethylation (optional) -- 3.5 RNA 32-end repair -- 3.6 RNA 32-adaptor ligation -- 3.7 Reverse transcription -- 3.8 cDNA 32-end ligation -- 3.9 PCR amplification -- 3.10 NGS sequencing and data analysis -- 4 Notes | |
| 650 | 0 | |a Catalytic RNA. | |
| 650 | 0 | |a Enzymes |x Biotechnology. | |
| 650 | 6 | |a Ribozymes. |0 (CaQQLa)201-0224271 | |
| 650 | 6 | |a Enzymes |0 (CaQQLa)201-0002557 |x Biotechnologie. |0 (CaQQLa)201-0378829 | |
| 700 | 1 | |a Yamagami, Ryota, |e editor. | |
| 700 | 1 | |a Kwok, Chun Kit, |e editor. | |
| 776 | 0 | 8 | |i ebook version : |z 9780443239779 |
| 856 | 4 | 0 | |u https://sciencedirect.uam.elogim.com/science/bookseries/00766879/692 |z Texto completo |