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SignaLink: Multilayered Regulatory Networks

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Computational Cell Biology

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1819))

Abstract

Biological networks are graphs used to represent the inner workings of a biological system. Networks describe the relationships of the elements of biological systems using edges and nodes. However, the resulting representation of the system can sometimes be too simplistic to usefully model reality. By combining several different interaction types within one larger multilayered biological network, tools such as SignaLink provide a more nuanced view than those relying on single-layer networks (where edges only describe one kind of interaction). Multilayered networks display connections between multiple networks (i.e., protein–protein interactions and their transcriptional and posttranscriptional regulators), each one of them describing a specific set of connections. Multilayered networks also allow us to depict cross talk between cellular systems, which is a more realistic way of describing molecular interactions. They can be used to collate networks from different sources into one multilayered structure, which makes them useful as an analytic tool as well.

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Acknowledgment

The authors are grateful for the past and present developers and coauthors of SignaLink, and also to the members of the Netbiol, LINK, and Korcsmaros groups. This work was supported by a fellowship to TK in computational biology at the Earlham Institute (Norwich, UK) in partnership with the Quadram Institute (Norwich, UK), and strategically supported by the Biotechnological and Biosciences Research Council, UK (BB/J004529/1 and BB/P016774/1).

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Authors and Affiliations

  1. Eötvös Loránd University, Budapest, Hungary

    Luca Csabai, Tamás Korcsmáros & Dávid Fazekas

  2. Earlham Institute, Norwich Research Park, Norwich, UK

    Márton Ölbei, Aidan Budd, Tamás Korcsmáros & Dávid Fazekas

  3. Quadram Institute, Norwich Research Park, Norwich, UK

    Márton Ölbei & Tamás Korcsmáros

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  1. Luca Csabai
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  2. Márton Ölbei
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  3. Aidan Budd
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  4. Tamás Korcsmáros
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  5. Dávid Fazekas
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Corresponding author

Correspondence to Tamás Korcsmáros .

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Editors and Affiliations

  1. NNF Center for Protein Research, University of Copenhagen, Copenhagen, Denmark

    Louise von Stechow

  2. Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark

    Alberto Santos Delgado

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Csabai, L., Ölbei, M., Budd, A., Korcsmáros, T., Fazekas, D. (2018). SignaLink: Multilayered Regulatory Networks. In: von Stechow, L., Santos Delgado, A. (eds) Computational Cell Biology. Methods in Molecular Biology, vol 1819. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-8618-7_3

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  • DOI: https://doi.org/10.1007/978-1-4939-8618-7_3

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