Alternative pre-mRNA Splicing: Theory and Protocols by Stefan Stamm, Chris Smith, Reinhard Lührmann

By Stefan Stamm, Chris Smith, Reinhard Lührmann

The ebook involves significant elements: The first one presents a quick theoretical
introduction that provides a quick evaluate of different splicing and cites key papers within the field for extra in-depth details. the second one half is a suite of experimental protocols which are utilized in the field of different splicing.
Contents
1 Splicing within the RNA World
2 RNPs, Small RNAs, and miRNAs
3 RNA components excited by Splicing
4 A Structural Biology standpoint of Proteins fascinated about Splicing Regulation
5 The Spliceosome in Constitutive Splicing
6 using Saccharomyces cerevisiae to review the Mechanism of pre-mRNA Splicing
7 demanding situations in Plant substitute Splicing
8 substitute Splice website Selection
9 Integration of Splicing with Nuclear and mobile Events
10 Splicing and Disease
11 From Bedside to Bench: the best way to study a Splicing Mutation
12 research of universal Splicing Problems
13 Ultracentrifugation within the research and Purification of Spliceosomes Assembled In Vitro
14 Chemical Synthesis of RNA
15 RNA Interference (siRNA, shRNA)
16 Expression and Purification of Splicing Proteins
17 Detection of RNA–Protein Complexes by way of Electrophoretic Mobility Shift Assay
18 useful research of huge Exonic Sequences via Iterative In Vivo Selection
19 identity of Splicing cis-Elements via an Ultra-Refined Antisense Microwalk
20 Genomic SELEX to spot RNA pursuits of Plant RNA-Binding Proteins
21 Quantification of other Splice Variants
22 High-Throughput research of different Splicing by way of RT-PCR
23 tracking adjustments in Plant substitute Splicing Events
24 Array Analysis
25 The CLIP option to research Protein–RNA Interactions in Intact Cells and Tissues
26 RNA–Protein Crosslinking and Immunoprecipitation (CLIP) in Schizosaccharomyces pombe
27 identity of Proteins sure to RNA
28 Single-Cell Detection of Splicing occasions with Fluorescent Splicing Reporters
29 The instruction of HeLa cellphone Nuclear Extracts
30 In Vitro Splicing Assays
31 meeting and Isolation of Spliceosomal Complexes In Vitro
32 research of Site-Specific RNA–Protein Interactions
33 Immunoprecipitation and Pull-Down of Nuclear Proteins
34 research of Protein (-RNA) Complexes through (Quantitative) Mass Spectrometric Analysis
35 quickly Cloning of Splicing Reporter Minigenes
36 In Vivo research of Splicing Assays
37 Coupled Promoter Splicing Systems
38 reliable mobilephone traces with Splicing Reporters
39 Splicing issue ChIP and ChRIP: Detection ofSplicing and Splicing elements at
Genes by way of Chromatin Immunoprecipitation
40 Yeast Genetics to enquire the functionality of middle Pre-mRNA Splicing Factors
41 research of HIV-1 RNA Splicing
42 In Vivo research of Plant Intron Splicing
43 amendment State-Specific Antibodies
44 research of different Splicing in Drosophila Genetic Mosaics
45 Antisense Derivatives of U7 Small Nuclear RNA as Modulators of Pre-mRNA Splicing
46 Screening for replacement Splicing Modulators
47 Use of Oligonucleotides to alter Splicing
48 altering signs to the Spliceosome
49 review of Splicing correct Databases
50 research of RNA Transcripts by way of High-Throughput RNA Sequencing
51 id of Splicing issue aim Genes by means of High-Throughput Sequencing
52 Bioinformatic research of Splicing Events
53 research of Pre-mRNA Secondary constructions and substitute Splicing
54 constitution Prediction for however Spliced Proteins
55 Comparative Genomics equipment for the Prediction of Small RNA-Binding websites

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Extra resources for Alternative pre-mRNA Splicing: Theory and Protocols

Sample text

FitzHugh, W. et al. (2001) Initial sequencing and analysis of the human genome. Nature, 409, 860–921. T. et al. (2008) The complete genome of an individual by massively parallel DNA sequencing. Nature, 452, 872–876. j 2 RNPs, Small RNAs, and miRNAs Michaela Beitzinger and Gunter Meister Key Concepts . RNAs are almost always associated with proteins, forming RNA–protein complexes. RNA functions range from catalytic activity to pure structural scaffolding functions. Short RNAs appear to be crucial for gene regulation.

Ks. Trojdena 4 02-109 Warsaw Poland Marta Pabis Max Planck Institute of Molecular Cell Biology and Genetics Pfotenhauerstraße 108 01307 Dresden Germany Niketa A. Patel The James A. Haley Veterans Hospital Research Service 13000 Bruce B. Downs Blvd. Tampa, FL 33612 USA and University of South Florida College of Medicine Department of Molecular Medicine 12901 Bruce B. Downs Blvd. H. Morgan Building Lexington, KY 40506-0225 USA Michael Sammeth Centro Nacional de Análisis Genómico (CNAG) Baldiri Reixac 4 08028 Barcelona Spain Aparna K.

20, HPK G18 8093 Zurich Switzerland Alan Cochrane University of Toronto Department of Molecular Genetics 1 King’s College Circle Toronto, Ontario Canada M5S-1A8 Miguel B. Coelho University of Cambridge Department of Biochemistry 80 Tennis Court Road Cambridge CB2 1QW UK Denise R. Cooper The James A. Haley Veterans Hospital Research Service 13000 Bruce B. Downs Blvd. Tampa, FL 33612 USA and University of South Florida College of Medicine Department of Molecular Medicine 12901 Bruce B. Downs Blvd.

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