title: NAIL, a software toolset for inferring, analyzing and visualizing regulatory networks.
abstract: The wide variety of published approaches for the problem of regulatory network inference makes using multiple inference algorithms complex and time-consuming. Network Analysis and Inference Library (NAIL) is a set of software tools to simplify the range of computational activities involved in regulatory network inference. It uses a modular approach to connect different network inference algorithms to the same visualization and network-based analyses. NAIL is technology-independent and includes an interface layer to allow easy integration of components into other applications.
  
  
  METHODS
  NAIL is implemented in MATLAB, runs on Windows, Linux and OSX, and is available from SourceForge at https://sourceforge.net/projects/nailsystemsbiology/ for all researchers to use.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Aus
authors.forename: Daniel G
authors.initials: DG
authors.lastname: Hurley
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada.
authors.forename: Joseph
authors.initials: J
authors.lastname: Cursons
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada.
authors.forename: Yi Kan
authors.initials: YK
authors.lastname: Wang
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada.
authors.forename: David M
authors.initials: DM
authors.lastname: Budden
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Aus
authors.forename: Cristin G
authors.initials: CG
authors.lastname: Print
authors.affiliation: Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Australia, Department of Mathematics and Statistics, University of Melbourne School of Medicine, University of Melbourne, Victoria 3010, Australia and Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, Canada Auckland Bioengineering Institute, University of Auckland, Auckland 1001, New Zealand, Department of Molecular Medicine and Pathology, School of Medical Sciences, Faculty of Medical and Health Sciences,University of Auckland, Auckland 1001, New Zealand, Bioinformatics Institute, University of Auckland, Auckland 1001, New Zealand, Maurice Wilkins Centre, University of Auckland, Auckland 1001, New Zealand, Systems Biology Laboratory, Melbourne School of Engineering, University of Melbourne, Victoria 3010, Aus
authors.forename: Edmund J
authors.initials: EJ
authors.lastname: Crampin
mesh_terms: D000465:Algorithms; D003196:Computer Graphics; D053263:Gene Regulatory Networks; D006801:Humans; D012984:Software; D049490:Systems Biology / Q000379:methods*