@article{Chaouiya2013,
  author   = {Chaouiya, Claudine and B\'{e}renguier, Duncan and Keating, Sarah M. and Naldi,
    Aur\'{e}lien and {van Iersel}, Martijn P. and Rodriguez, Nicolas and Dr\"ager, Andreas and
    B\"uchel, Finja and Cokelaer, Thomas and Kowal, Bryan and Wicks, Benjamin and Gon\c{c}alves,
    Emanuel and Dorier, Julien and Page, Michel and Monteiro, Pedro T. and {von Kamp}, Axel and
    Xenarios, Ioannis and {de Jong}, Hidde and Hucka, Michael and Klamt, Steffen and Thierffry, Dennis
    and {Le Nov\`{e}re}, Nicolas and Saez-Rodriguez, Julio and Helikar, Tom\'{a}\v{s}},
  title    = {{SBML Qualitative Models: a model representation format and infrastructure to foster
    interactions between qualitative modelling formalisms and tools}},
  journal  = {BMC Systems Biology},
  year     = {2013},
  volume   = {7},
  pages    = {135},
  number   = {1},
  month    = dec,
  abstract = {Background: Qualitative frameworks, especially those based on the
    logical discrete formalism, are increasingly used to model regulatory and
	signalling networks. A major advantage of these frameworks is that
	they do not require precise quantitative data, and that they are
	well-suited for studies of large networks. While numerous groups
	have developed specific computational tools that provide original
	methods to analyse qualitative models, a standard format to exchange
	qualitative models has been missing.

	Results: We present the System Biology Markup Language (SBML) Qualitative
	Models Package (``qual''), an extension of the SBML Level 3 standard
	designed for computer representation of qualitative models of biological
	networks. We demonstrate the interoperability of models via SBML qual
	through the analysis of a specific signalling network by three independent
	software tools. Furthermore, the cooperative development of the SBML qual
	format paved the way for the development of LogicalModel, an open-source
	model library, which will facilitate the adoption of the format as
	well as the collaborative development of algorithms to analyze qualitative
	models.

	Conclusion: SBML qual allows the exchange of qualitative models
	among a number of complementary software tools. SBML qual has the
	potential to promote collaborative work on the development of novel
	computational approaches, as well as on the specification and the
	analysis of comprehensive qualitative models of regulatory and signalling
	networks.},
  doi       = {10.1186/1752-0509-7-135},
  eprint    = {1309.1910},
  pdf       = {https://www.biomedcentral.com/content/pdf/1752-0509-7-135.pdf},
  publisher = {Springer (Biomed Central Ltd.)},
  url       = {https://www.biomedcentral.com/1752-0509/7/135}
}