Dynamic covariation between gene expression and proteome characteristics

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dc.contributor.author Sharabiani, Mansour TA -
dc.contributor.author Siermala, Markku -
dc.contributor.author Lehtinen, Tommi O -
dc.contributor.author Vihinen, Mauno -
dc.date.accessioned 2012-06-17T20:14:14Z
dc.date.available 2012-06-16 09:11:41 -
dc.date.available 2012-06-17T20:14:14Z
dc.date.issued 2005 -
dc.identifier.issn 1471-2105 -
dc.identifier.uri http://tampub.uta.fi/handle/10024/65882
dc.description BioMed Central Open access -
dc.description.abstract Background Cells react to changing intra- and extracellular signals by dynamically modulating complex biochemical networks. Cellular responses to extracellular signals lead to changes in gene and protein expression. Since the majority of genes encode proteins, we investigated possible correlations between protein parameters and gene expression patterns to identify proteome-wide characteristics indicative of trends common to expressed proteins. Results Numerous bioinformatics methods were used to filter and merge information regarding gene and protein annotations. A new statistical time point-oriented analysis was developed for the study of dynamic correlations in large time series data. The method was applied to investigate microarray datasets for different cell types, organisms and processes, including human B and T cell stimulation, Drosophila melanogaster life span, and Saccharomyces cerevisiae cell cycle. Conclusion We show that the properties of proteins synthesized correlate dynamically with the gene expression profile, indicating that not only is the actual identity and function of expressed proteins important for cellular responses but that several physicochemical and other protein properties correlate with gene expression as well. Gene expression correlates strongly with amino acid composition, composition- and sequence-derived variables, functional, structural, localization and gene ontology parameters. Thus, our results suggest that a dynamic relationship exists between proteome properties and gene expression in many biological systems, and therefore this relationship is fundamental to understanding cellular mechanisms in health and disease. -
dc.language.iso en -
dc.title Dynamic covariation between gene expression and proteome characteristics -
dc.type fi=Artikkeli aikakauslehdessä | en=Journal article| -
dc.identifier.urn urn:nbn:uta-3-642 -
dc.identifier.doi 10.1186/1471-2105-6-215 -
dc.type.version fi=Kustantajan versio | en=Publisher's version| -
dc.subject.okm fi=Biolääketieteet | en=Biomedicine| -
dc.journal.title BMC Bioinformatics -
dc.journal.volume 6 -
dc.journal.number 215 -
dc.journal.volumepagerange 1-18 -
dc.oldstats 61 -

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