Daniel G Hurley1, Joseph Cursons2, Yi Kan Wang2, David M Budden3, Cristin G Print1, Edmund J Crampin1. 1. 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 2. 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. 3. 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.
Abstract
UNLABELLED: 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. AVAILABILITY AND IMPLEMENTATION: 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. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
UNLABELLED: 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. AVAILABILITY AND IMPLEMENTATION: 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. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Authors: Miles C Andrews; Joseph Cursons; Daniel G Hurley; Matthew Anaka; Jonathan S Cebon; Andreas Behren; Edmund J Crampin Journal: Mol Cancer Date: 2016-11-16 Impact factor: 27.401
Authors: David Henriques; Alejandro F Villaverde; Miguel Rocha; Julio Saez-Rodriguez; Julio R Banga Journal: PLoS Comput Biol Date: 2017-02-06 Impact factor: 4.475