30. Computational Methods for the Identification of MicroRNAs from Small RNA Sequencing Data

  1. Dr. Matthias Harbers2,3 and
  2. Prof. Dr. Günter Kahl4,5,6
  1. Eugene Berezikov

Published Online: 23 JAN 2012

DOI: 10.1002/9783527644582.ch30

Tag-Based Next Generation Sequencing

Tag-Based Next Generation Sequencing

How to Cite

Berezikov, E. (2011) Computational Methods for the Identification of MicroRNAs from Small RNA Sequencing Data, in Tag-Based Next Generation Sequencing (eds M. Harbers and G. Kahl), Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany. doi: 10.1002/9783527644582.ch30

Editor Information

  1. 2

    4-2-6 Nishihara, Kashiwa-Shi, Chiba 277-0885, Japan

  2. 3

    DNAFORM Inc., Leading Venture Plaza 2, 75-1 Ono-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0046, Japan

  3. 4

    Mohrmühlgasse 3, 63500 Seligenstadt, Germany

  4. 5

    University of Frankfurt am Main Biocenter, Max-von-Lauestraße 9, 60439 Frankfurt am Main, Germany

  5. 6

    Frankfurt Biotechnology Innovation Center (FIZ), GenXPro Ltd, Altenhöferallee 3, 60438 Frankfurt am Main, Germany

Author Information

  1. Hubrecht Institute, Small RNA Biology Research Group, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands

Publication History

  1. Published Online: 23 JAN 2012
  2. Published Print: 14 DEC 2011

ISBN Information

Print ISBN: 9783527328192

Online ISBN: 9783527644582

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Keywords:

  • computational methods;
  • microRNA identification;
  • small RNA sequencing data;
  • miR-intess pipeline;
  • applications

Summary

MicroRNAs (miRNAs) are a large class of small noncoding RNAs that interact with the target mRNAs and thereby regulate expression of thousands of genes. Due to their diversity and critical position in gene regulatory networks, miRNAs are involved in virtually every aspect of a cell's life, from differentiation to apoptosis, and have been implicated in various human diseases. The advent of second (next)-generation sequencing technologies allowed experimental identification of the diversity of small RNAs, and greatly facilitated discovery and annotation of miRNA genes. In this chapter, I provide an overview of the computational methods for miRNA discovery based on small RNA sequencing data.