Microrna Target Identification: Methods and Protocols

ISBN-13: 9781493992065 / Angielski / Twarda / 2019 / 359 str.

Alessandro Lagana

Spis treści

1. A Practical Guide to miRNA Target Prediction

            Most Mauluda Akhtar, Luigina Micolucci, Md Soriful Islam, Fabiola Olivieri, and Antonio Domenico Procopio

 

2. miRandb: A Meta-Database of Online Resources of miRNA and miRNA Targets

            Seyed Hamid Aghaee-Bakhtiari

 

3. Sfold Tools for MicroRNA Target Prediction

            William Rennie, Shaveta Kanoria, Chaochun Liu, C. Steven Carmack, Jun Lu, and Ye Ding

 

4. The Role of Tertiary Structure in MicroRNA Target Recognition

            Hin Hark Gan and Kristin C. Gunsalus

 

5. Protocols for miRNA Target Prediction in Plants

            Gaurav Sablok, Kun Yang, and Xiaopen Wen

 

6. Improving miRNA-Target Prediction Using CLASH Data

            Xiaoman Li and Haiyan Hu

 

7. Integration of Omics Data to Identify Cancer-Related MicroRNA

            Luciano Cascione

 

8. Functional Analysis of Genetic Variants and Somatic Mutations Impacting MicroRNA-Target Recognition: Bioinformatics Resources

            Jesse D. Ziebarth, Anindya Bhattacharya, and Yan Cui

 

9. Construction and Analysis of miRNA Regulatory Networks

            Antonella Mensi, Vincenzo Bonnici, Simone Caligola, and Rosalba Giugno

 

10. Identification of Disease-miRNA Networks across Different Cancer Types Using SWitchMiner (SWIM)

            Giulia Fiscon, Federica Conte, Lorenzo Farina, Marco Pellegrini, Francesco Russo, and Paola Paci

 

11. Computational Methods to Investigate the Impact of miRNAs on Pathways

            Salvatore Alaimo, Giovanni Micale, Alessandro La Ferlita, Alfredo Ferro, and Alfredo Pulvirenti

 

12. Consensus Target Prediction with Enrichment Analysis for MicroRNAs Harboring Editing Sites and Other Variations

            Giovanni Nigita, Rosario Distefano, Dario Veneziano, Giulia Romano, Mario Acunzo, and Carlo M. Croce

 

13. A Roadmap for the Computational Prediction and Experimental Validation of Competitive Endogenous RNAs

            Florian A. Karreth

 

14. Investigating miRNA-lncRNA Interactions: Computational Tools and Resources

            Dario Veneziano, Gioacchino P. Marceca, Sebastiano Di Bella, Giovanni Nigita, Rosario Distefano, and Carlo M. Croce

 

15. Combing the Hairball: Improving Visualization of miRNA-Target Interaction Networks

            Francesco Russo, Jessica Xin Hu, Jose Alejandro Romero Herrera, and Søren Brunak

 

16. Inconsistencies and Limitations of Current MicroRNA Target Identification Methods

            Sophie Mockly and Hervé Seitz

 

17. Experimental Validation of MicroRNA Targets: Luciferase Reporter Assay

            Luisa Tomasello, Landon Cluts, and Carlo M. Croce

 

18. Experimental Validation of MicroRNA Targets: Mutagenesis of the Binding Regions

            Luisa Tomasello, Landon Cluts, and Carlo M. Croce

 

19. Experimental Validation of MicroRNA Targets: Analysis of MicroRNA Targets through Western Blotting

            Luisa Tomasello, Landon Cluts, and Carlo M. Croce

Blurb

This detailed book provides a comprehensive state-of-the-art presentation of all aspects of miRNA target identification, from the prediction of miRNA binding sites on their target molecules to their experimental validation and downstream functional analysis. It also explores methodologies and tools for target prediction and related analysis, as well as tutorials on specific tasks, tools, and analysis pipelines. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, MicroRNA Target Identification: Methods and Protocols updates on basic and advanced concepts involving miRNA target identification and delivers an extremely useful guide to specific computational tasks and analysis in miRNA research.