RNA : methods and protocols / edited by Henrik Nielsen. — Totowa, N.J. : Humana, 2011. – (58.17/M592/v.703)

Contents

    Contents
    
    Preface
    Contributors xiii
    Electronic Supplenlentary Material l
    Electronic Supplementary Material 2
    PART I: RNA METHODS
    l. The Transcriptional Landscape 3
    2. Working with RNA
    3. Synthesis of RNA by In Vitro Transcription 29
    4. Efficient Poly(A)+ RNA Selection Using LNA Oligo(T) Capture 43
    5. Genome Browsers 53
    6. Web-Based Tools for Studying RNA Structure and Function
    7. Northern Blotting Analysis 87
    8. 1Lipid Amplification of cDNA Ends (RACE) 107
    9. Fractionation of mRNA Based on the Length of the Poly(A) Tail 123
    10. Analysis of Mutations that Influence Pre-mRNA Splicing 137
    11. S1 Nuclease Analysis of Alternatively Spliced mRNA 161
    12. Promises and Challenges in Developing RNAi as a Research Tool and Therapy
    13. Inhibition of Gene Function in Mammalian Cells Using Short-Hairpin RNA (shRNA)
    14. Validation of RNAi by Real Time PCR 205
    15. Profiling RNA Polymerase II Using the Fast Chromatin Immunoprecipitation Method
    PART II: RNP METHODS
    16. The Post-transcriptional Operon 237
    17. RIP-Chip Analysis: RNA-Binding Protein Immunoprecipitation-Microarray (Chip) Profiling 247
    18. Isolation of RNP Granules 265
    19. Electrophoretic Mobility Shift Assay for Characterizing RNA-Protein Interaction
    20. Polysome Analysis and RNA Purification from Sucrose Gradients 293
    21. Prediction of Targets for MicroRNAs
    22. Outsourcing of Experimental Work 319
    Subject Index 327