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Practical Use of BiNoM: A Biological Network Manager Software

  • Eric Bonnet
  • Laurence Calzone
  • Daniel Rovera
  • Gautier Stoll
  • Emmanuel Barillot
  • Andrei Zinovyev
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1021)

Abstract

The Biological Network Manager (BiNoM) is a software tool for the manipulation and analysis of biological networks. It facilitates the import and conversion of a set of well-established systems biology file formats. It also provides a large set of graph-based algorithms that allow users to analyze and extract relevant subnetworks from large molecular maps. It has been successfully used in several projects related to the analysis of large and complex biological data, or networks from databases. In this tutorial, we present a detailed and practical case study of how to use BiNoM to analyze biological networks.

Key words

Biological networks Graph-based algorithms Subnetworks Molecular maps BiNoM 

Notes

Acknowledgements

EB, LC, DR, GS, EmB, and AZ are members of the team “Computational Systems Biology of Cancer,” Equipe labellisée par la Ligue Nationale Contre le Cancer. The research leading to these results has received funding from the European Union Seventh Framework Programme (FP7/2007–2013) ASSET project under agreement number FP7-HEALTH-2010-259348 and from the grant “Projet Incitatif et Collaboratif Computational Systems Biology Approach for Cancer” from Institut Curie.

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Copyright information

© Springer Science+Business Media, LLC 2013

Authors and Affiliations

  • Eric Bonnet
    • 1
    • 2
    • 3
  • Laurence Calzone
    • 1
    • 2
    • 3
  • Daniel Rovera
    • 1
    • 2
    • 3
  • Gautier Stoll
    • 1
    • 2
    • 3
  • Emmanuel Barillot
    • 1
    • 2
    • 3
  • Andrei Zinovyev
    • 1
    • 2
    • 3
  1. 1.Institut CurieParisFrance
  2. 2.INSERM, U900ParisFrance
  3. 3.Mines ParisTechFontainebleauFrance

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