GreenSim: A network simulator for comprehensively validating and evaluating new machine learning techniques for network structural inference

Christopher Fogelberg, Vasile Palade

Research output: Chapter in Book/Report/Conference proceedingConference proceeding

1 Citation (Scopus)

Abstract

Networks are very important in many fields of machine learning research. Within networks research, inferring the structure of unknown networks is often a key problem; e.g. of genetic regulatory networks. However, there are very few wellknown biological networks, and good simulation is essential for validating and evaluating novel structural inference techniques. Further, the importance of large, genome-wide structural inference is increasingly recognised, but there does not appear to be a good simulator available for large networks. This paper presents GREENSIM, a simulator that helps address this gap. GREENSIM automatically generates large, genome-size networks with more biologically realistic structural characteristics and 2nd-order non-linear regulatory functions. The simulator itself and the novel method used for generating a network structure with appropriate in- and out-degree distributions may also generalise easily to other types of network. GREENSIM is available online at: http://syntilect.com/cgf/pubs:software

Original languageEnglish
Title of host publicationProceedings - 22nd International Conference on Tools with Artificial Intelligence, ICTAI 2010
PublisherIEEE
Pages225-230
Number of pages6
Volume2
ISBN (Electronic)978-0-7695-4263-8
ISBN (Print)978-1-4244-8817-9
DOIs
Publication statusPublished - 17 Dec 2010
Externally publishedYes
Event22nd International Conference on Tools with Artificial Intelligence - Arras, France
Duration: 27 Oct 201029 Oct 2010

Conference

Conference22nd International Conference on Tools with Artificial Intelligence
Abbreviated titleICTAI 2010
CountryFrance
CityArras
Period27/10/1029/10/10

Keywords

  • Genetic regulatory networks
  • Networks
  • Simulation
  • Structural inference

ASJC Scopus subject areas

  • Software
  • Artificial Intelligence
  • Computer Science Applications

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  • Cite this

    Fogelberg, C., & Palade, V. (2010). GreenSim: A network simulator for comprehensively validating and evaluating new machine learning techniques for network structural inference. In Proceedings - 22nd International Conference on Tools with Artificial Intelligence, ICTAI 2010 (Vol. 2, pp. 225-230). [5671407] IEEE. https://doi.org/10.1109/ICTAI.2010.105