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Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 506579
Title CyLineUp : A Cytoscape app for visualizing data in network small multiples
Author(s) Nijveen, Harm; Dias Costa, Maria; Slijkhuis, T.; Ligterink, Wilco; Hilhorst, Henk W.M.; Ridder, Dick de
Source F1000 Research 5 (2016). - ISSN 2046-1402
Department(s) Bioinformatics
Laboratory of Plant Physiology
Publication type Refereed Article in a scientific journal
Publication year 2016

CyLineUp is a Cytoscape 3 app for the projection of high-throughput measurement data from multiple experiments/samples on a network or pathway map using "small multiples" This visualization method allows for easy comparison of different experiments in the context of the network or pathway. The user can import various kinds of measurement data and select any appropriate Cytoscape network or WikiPathways pathway map. CyLineUp creates small multiples by replicating the loaded network as many times as there are experiments/samples (e.g. time points, stress conditions, tissues, etc.). The measurement data for each experiment are then mapped onto the nodes (genes, proteins etc.) of the corresponding network using a color gradient. Each step of creating the visualization can be customized to the user's needs. The results can be exported as a high quality vector image.

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