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A Guide for miRNA Target Prediction and Analysis Using Web-Based Applications

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RNA Mapping

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1182))

Abstract

MiRNAs are small noncoding RNAs which act by binding to the 3′UTR of mRNA transcripts to exert a negative regulatory effect. The miRNA binding to its target follows rules based on the base complementarity of the seed sequence (2–9 first nucleotides of the miRNA sequence). Several algorithms have been developed to predict miRNA binding to genomic targets and its physiological consequences. This chapter will describe several practical aspects for the use of miRNA target prediction algorithms taking advantage of their web interfaces as well as how to produce integrative results in a graphical manner.

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Acknowledgements

M.C.C. was supported by a postdoctoral fellowship from Fundação para a Ciência e Tecnologia, Portugal (Ref. SFRH/BPD/ 65131/2009). The authors would like to acknowledge Francisco Enguita Jr. for his friendship and excellent technical support in the preparation of the manuscript.

Author information

Authors and Affiliations

  1. Departamento de Ciências e Tecnologia da Biomassa, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus da Caparica, Caparica, 2829-516, Portugal

    Ana Lúcia Leitão

  2. Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Avenida Prof. Egas Moniz, Lisbon, 1649-028, Portugal

    Marina C. Costa & Francisco J. Enguita

Authors
  1. Ana Lúcia Leitão
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  2. Marina C. Costa
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  3. Francisco J. Enguita
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Corresponding author

Correspondence to Francisco J. Enguita .

Editor information

Editors and Affiliations

  1. Diabetes, Cardiovascular, and Metabolic Diseases, Translational Genomics Research Institute, Phoenix, Arizona, USA

    M. Lucrecia Alvarez

  2. Department of Plastic Surgery, University Hospital of the RWTH Aachen, Germany

    Mahtab Nourbakhsh

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Leitão, A.L., Costa, M.C., Enguita, F.J. (2014). A Guide for miRNA Target Prediction and Analysis Using Web-Based Applications. In: Alvarez, M., Nourbakhsh, M. (eds) RNA Mapping. Methods in Molecular Biology, vol 1182. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-1062-5_23

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  • DOI: https://doi.org/10.1007/978-1-4939-1062-5_23

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-1061-8

  • Online ISBN: 978-1-4939-1062-5

  • eBook Packages: Springer Protocols

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