Bacterial Molecular Networks: Bridging the Gap Between Functional Genomics and Dynamical Modelling

  • Jacques van Helden
  • Ariane Toussaint
  • Denis Thieffry
Part of the Methods in Molecular Biology book series (MIMB, volume 804)


This introductory review synthesizes the contents of the volume Bacterial Molecular Networks of the series Methods in Molecular Biology. This volume gathers 9 reviews and 16 method chapters describing computational protocols for the analysis of metabolic pathways, protein interaction networks, and regulatory networks. Each protocol is documented by concrete case studies dedicated to model bacteria or interacting populations. Altogether, the chapters provide a representative overview of state-of-the-art methods for data integration and retrieval, network visualization, graph analysis, and dynamical modelling.

Key words

Protein interactions Metabolic pathways Regulatory networks Graph motifs Clustering Dynamical modelling Bacteria Metagenomics Computational biology Bioinformatics Systems biology 



The collaboration between the TAGC (DT) and BiGRe (JvH and AT) laboratories is supported by the Belgian Program on Interuniversity Attraction Poles, initiated by the Belgian Federal Science Policy Office, project P6/25 (BioMaGNet). The BiGRe laboratory is further supported by the MICROME Collaborative Project funded by the European Commission within its FP7 Programme, under the thematic area “BIO-INFORMATICS – Microbial genomics and bio-informatics” (contract number 222886–2).


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Copyright information

© Springer Science+Business Media, LLC 2012

Authors and Affiliations

  • Jacques van Helden
    • 1
  • Ariane Toussaint
    • 1
  • Denis Thieffry
    • 2
  1. 1.Laboratoire de Bioinformatique des Génomes et des Réseaux (BiGRe)Université Libre de BruxellesBruxellesBelgium
  2. 2.Institut de Biologie de l’Ecole Normale Supérieure (IBENS), UMR ENS, CNRS 8197, INSERM 1024ParisFrance

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