ArticlePloS one2012
Identifying neighborhoods of coordinated gene expression and metabolite profiles.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- New views on the selection acting on genetic polymorphism in central metabolic genes.Annals of the New York Academy of Sciences · 2017Review
- The Human Blood Metabolome-Transcriptome Interface.PLoS genetics · 2015Article
- NetPathMiner: R/Bioconductor package for network path mining through gene expression.Bioinformatics (Oxford, England) · 2014Article
- MIRA: mutual information-based reporter algorithm for metabolic networks.Bioinformatics (Oxford, England) · 2014Article
- What mRNA Abundances Can Tell us about Metabolism.Metabolites · 2012Article
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
In this paper we investigate how metabolic network structure affects any coordination between transcript and metabolite profiles. To achieve this goal we conduct two complementary analyses focused on the metabolic response to stress. First, we investigate the general size of any relationship between metabolic network gene expression and metabolite profiles. We find that strongly correlated transcript-metabolite profiles are sustained over surprisingly long network distances away from any target metabolite. Secondly, we employ a novel pathway mining method to investigate the structure of this transcript-metabolite relationship. The objective of this method is to identify a minimum set of metabolites which are the target of significantly correlated gene expression pathways. The results reveal that in general, a global regulation signature targeting a small number of metabolites is responsible for a large scale metabolic response. However, our method also reveals pathway specific effects that can degrade this global regulation signature and complicates the observed coordination between transcript-metabolite profiles.
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