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A new approach to quantify and analyse tRNA sequence data
Umeå University, Faculty of Social Sciences, Centre for Demographic and Ageing Research (CEDAR).ORCID iD: 0000-0001-9188-5518
(English)Manuscript (preprint) (Other academic)
Abstract [en]

A novel quantitative multivariate approach for describing and analyse tRNA sequence data is presented. This approach is based on a multivariate chemical description of each nucleoside in the sequence. 30 theoretically calculated descriptors were used to characterize 63 nucleosides, and principal component analysis was used to extract the main variation from this multivariate description. The resulting four principal properties were interpreted as (PPa) size/bulk of the nucleoside, (PPb) polarity/hydrophobicity of the nucleoside, (PPc) electronic properties of the nucleoside and (PPd)polarity and size of the ribose moiety. These principal properties may be used to translate the tRNA letter sequence data into a quantitative chemical representation. We demonstrate the use of this quantitative description with a multivariate analysis of a set of tRNA sequences. This analysis gives models that are interpretable in terms of wich sequence positions, and nucleoside properties that discriminate the different isoacceptors. This approach is applicable on all kinds of RNA sequence data and gives information that is complementary to current sequence analysis techniques.

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Other Chemistry Topics Organic Chemistry
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Organic Chemistry
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URN: urn:nbn:se:umu:diva-142697OAI: oai:DiVA.org:umu-142697DiVA, id: diva2:1163785
Available from: 2017-12-08 Created: 2017-12-08 Last updated: 2018-06-09
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Sandberg Hiltunen, Maria

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