SCENERY: A Web-Based Application for Network Reconstruction and Visualization of Cytometry Data

  • Giorgos Athineou
  • Giorgos Papoutsoglou
  • Sofia Triantafillou
  • Ioannis Basdekis
  • Vincenzo Lagani
  • Ioannis Tsamardinos
Conference paper

DOI: 10.1007/978-3-319-40126-3_21

Volume 477 of the book series Advances in Intelligent Systems and Computing (AISC)
Cite this paper as:
Athineou G., Papoutsoglou G., Triantafillou S., Basdekis I., Lagani V., Tsamardinos I. (2016) SCENERY: A Web-Based Application for Network Reconstruction and Visualization of Cytometry Data. In: Saberi Mohamad M., Rocha M., Fdez-Riverola F., Domínguez Mayo F., De Paz J. (eds) 10th International Conference on Practical Applications of Computational Biology & Bioinformatics. Advances in Intelligent Systems and Computing, vol 477. Springer, Cham

Abstract

Cytometry techniques allow to quantify morphological characteristics and protein abundances at a single-cell level. Data collected with these techniques can be used for addressing the fascinating, yet challenging problem of reconstructing the network of protein interactions forming signaling pathways and governing cell biological mechanisms. Network reconstruction is an established and well studied problem in the machine learning and data mining fields, with several algorithms already available. In this paper, we present the first web-oriented application, SCENERY, that allows scientists to rapidly apply state-of-the-art network-reconstruction methods on cytometry data. SCENERY comes with an easy-to-use user interface, a modular architecture, and advanced visualization functions. The functionalities of the application are illustrated on data from a publicly available immunology experiment.

Keywords

Cytometry CyTOF Network reconstruction Web application Signaling pathway 

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Copyright information

© Springer International Publishing Switzerland 2016

Authors and Affiliations

  • Giorgos Athineou
    • 1
  • Giorgos Papoutsoglou
    • 1
  • Sofia Triantafillou
    • 1
  • Ioannis Basdekis
    • 2
  • Vincenzo Lagani
    • 1
  • Ioannis Tsamardinos
    • 1
  1. 1.Department of Computer ScienceUniversity of CreteHeraklionGreece
  2. 2.Foundation for Research and TechnologyHellas - Institute of Computer ScienceHeraklionGreece