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Signaling hypergraphs

Paper ID Volume ID Publish Year Pages File Format Full-Text
37049 45303 2014 7 PDF Available
Title
Signaling hypergraphs
Abstract

•We review common computational representations of signaling pathways.•These approaches cannot adequately model multi-way molecular reactions that are common in pathways.•We highlight hypergraphs as an under-utilized abstraction for representing such interactions.•We summarize challenges and opportunities presented by signaling hypergraphs.

Signaling pathways function as the information-passing mechanisms of cells. A number of databases with extensive manual curation represent the current knowledge base for signaling pathways. These databases motivate the development of computational approaches for prediction and analysis. Such methods require an accurate and computable representation of signaling pathways. Pathways are often described as sets of proteins or as pairwise interactions between proteins. However, many signaling mechanisms cannot be described using these representations. In this opinion, we highlight a representation of signaling pathways that is underutilized: the hypergraph. We demonstrate the usefulness of hypergraphs in this context and discuss challenges and opportunities for the scientific community.

Keywords
signaling pathways; graphs; hypergraphs
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Signaling hypergraphs
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Publisher
Database: Elsevier - ScienceDirect
Journal: - Volume 32, Issue 7, July 2014, Pages 356–362
Authors
, , , , ,
Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us