20. Algorithmic Issues in the Analysis of Chip-Seq Data

  1. Mourad Elloumi2 and
  2. Albert Y. Zomaya3
  1. Federico Zambelli and
  2. Giulio Pavesi

Published Online: 23 DEC 2010

DOI: 10.1002/9780470892107.ch20

Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications

Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications

How to Cite

Zambelli, F. and Pavesi, G. (2011) Algorithmic Issues in the Analysis of Chip-Seq Data, in Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications (eds M. Elloumi and A. Y. Zomaya), John Wiley & Sons, Inc., Hoboken, NJ, USA. doi: 10.1002/9780470892107.ch20

Editor Information

  1. 2

    Unit of Technologies of Information and Communication (UTIC) and University of Tunis-El Manar, Tunisia

  2. 3

    School of Information Technologies, The University of Sydney, Australia

Author Information

  1. Department of Biomolecular Sciences and Biotechnology, University of Milan, Italy

Publication History

  1. Published Online: 23 DEC 2010
  2. Published Print: 18 JAN 2011

ISBN Information

Print ISBN: 9780470505199

Online ISBN: 9780470892107

SEARCH

Keywords:

  • algorithmic issues in Chip-Seq data analysis - the ChIP-Seq analysis pipeline;
  • mapping and assembly with quality (MAQ) - one of the most successful tools, taking advantage of nucleotide-by-nucleotide quality scores, coming together with Solexa/Illumina tag sequences;
  • next-generation sequencing techniques - new avenues in molecular biology, key roles bioinformatics plays in modern genomics

Summary

This chapter contains sections titled:

  • Introduction

  • Mapping Sequences on the Genome

  • Identifying Significantly Enriched Regions

  • Deriving Actual Transcription Factor Binding Sites

  • Conclusions

  • References