Biological Process Linkage Networks

Dikla Dotan-Cohen, Stan Letovsky, Avraham A Melkman and Simon Kasif

PLOS ONE, 2009, vol. 4, issue 4, 1-10

Abstract: Background: The traditional approach to studying complex biological networks is based on the identification of interactions between internal components of signaling or metabolic pathways. By comparison, little is known about interactions between higher order biological systems, such as biological pathways and processes. Results: We construct, catalogue, and analyze different types of PLNs derived from different data sources and different species. When applied to the Gene Ontology, many of the resulting links connect processes that are distant from each other in the hierarchy, even though the connection makes eminent sense biologically. Some others, however, carry an element of surprise and may reflect mechanisms that are unique to the organism under investigation. In this aspect our method complements the link structure between processes inherent in the Gene Ontology, which by its very nature is species-independent. Conclusions: Our approach constitutes a promising new direction towards understanding the higher levels of organization of the cell as a system which should help current efforts to re-engineer ontologies and improve our ability to predict which proteins are involved in specific biological processes.

Date: 2009
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0005313

DOI: 10.1371/journal.pone.0005313

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