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Paduano F, Forbes AG. Extended LineSets: a visualization technique for the interactive inspection of biological pathways. BMC Proc. 2015;9:S4doi: 10.1186/1753-6561-9-S6-S4.
Paduano, F., & Forbes, A. G. (2015). Extended LineSets: a visualization technique for the interactive inspection of biological pathways. BMC proceedings, 9S4. https://doi.org/10.1186/1753-6561-9-S6-S4
Paduano, Francesco, and Forbes, Angus Graeme. "Extended LineSets: a visualization technique for the interactive inspection of biological pathways." BMC proceedings vol. 9 (2015): S4. doi: https://doi.org/10.1186/1753-6561-9-S6-S4
Paduano F, Forbes AG. Extended LineSets: a visualization technique for the interactive inspection of biological pathways. BMC Proc. 2015 Aug 13;9:S4. doi: 10.1186/1753-6561-9-S6-S4. eCollection 2015. PMID: 26361500; PMCID: PMC4547339.
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BMC Proc. 2015 Aug 13;9:S4. doi: 10.1186/1753-6561-9-S6-S4. eCollection 2015.

Extended LineSets: a visualization technique for the interactive inspection of biological pathways.

BMC proceedings

Francesco Paduano, Angus Graeme Forbes

Affiliations

  1. Department of Computer Science M/C 152, University of Illinois at Chicago, 851 S. Morgan, Room 1120, Chicago 60607-7053, IL, USA.

PMID: 26361500 PMCID: PMC4547339 DOI: 10.1186/1753-6561-9-S6-S4

Abstract

BACKGROUND: Biologists make use of pathway visualization tools for a range of tasks, including investigating inter-pathway connectivity and retrieving details about biological entities and interactions. Some of these tasks require an understanding of the hierarchical nature of elements within the pathway or the ability to make comparisons between multiple pathways. We introduce a technique inspired by LineSets that enables biologists to fulfill these tasks more effectively.

RESULTS: We introduce a novel technique, Extended LineSets, to facilitate new explorations of biological pathways. Our technique incorporates intuitive graphical representations of different levels of information and includes a well-designed set of user interactions for selecting, filtering, and organizing biological pathway data gathered from multiple databases.

CONCLUSIONS: Based on interviews with domain experts and an analysis of two use cases, we show that our technique provides functionality not currently enabled by current techniques, and moreover that it helps biologists to better understand both inter-pathway connectivity and the hierarchical structure of biological elements within the pathways.

Keywords: Eliminating Node Redundancy; Hierarchical Inspection; Interactive Visual Analysis; Line Sets; Pathway Visualization

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