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Principal coordinate analysis assisted chromatographic analysis of bacterial cell wall collection: a robust classification approach
Umeå University, Faculty of Medicine, Molecular Infection Medicine Sweden (MIMS). Umeå University, Faculty of Medicine, Department of Molecular Biology (Faculty of Medicine). Umeå University, Faculty of Medicine, Umeå Centre for Microbial Research (UCMR).
Umeå University, Faculty of Medicine, Molecular Infection Medicine Sweden (MIMS). Umeå University, Faculty of Medicine, Department of Molecular Biology (Faculty of Medicine). Umeå University, Faculty of Medicine, Umeå Centre for Microbial Research (UCMR).
2018 (English)In: Analytical Biochemistry, ISSN 0003-2697, E-ISSN 1096-0309, Vol. 550, p. 8-14Article in journal (Refereed) Published
Abstract [en]

In the present work, Principal coordinate analysis (PCoA) is introduced to develop a robust model to classify the chromatographic data sets of peptidoglycan sample. PcoA captures the heterogeneity present in the data sets by using the dissimilarity matrix as input. Thus, in principle, it can even capture the subtle differences in the bacterial peptidoglycan composition and can provide a more robust and fast approach for classifying the bacterial collection and identifying the novel cell wall targets for further biological and clinical studies. The utility of the proposed approach is successfully demonstrated by analysing the two different kind of bacterial collections. The first set comprised of peptidoglycan sample belonging to different subclasses of Alphaproteobacteria. Whereas, the second set that is relatively more intricate for the chemometric analysis consist of different wild type Vibrio Cholerae and its mutants having subtle differences in their peptidoglycan composition. The present work clearly proposes a useful approach that can classify the chromatographic data sets of chromatographic peptidoglycan samples having subtle differences. Furthermore, present work clearly suggest that PCoA can be a method of choice in any data analysis workflow.

Place, publisher, year, edition, pages
Elsevier, 2018. Vol. 550, p. 8-14
Keywords [en]
Principal coordinate analysis, Classification, Peptidoglycans, Chromatography, Principal component analysis, Data heterogeneity
National Category
Microbiology in the medical area
Identifiers
URN: urn:nbn:se:umu:diva-150872DOI: 10.1016/j.ab.2018.04.008ISI: 000436056600002PubMedID: 29649471Scopus ID: 2-s2.0-85045282388OAI: oai:DiVA.org:umu-150872DiVA, id: diva2:1244378
Available from: 2018-08-31 Created: 2018-08-31 Last updated: 2018-08-31Bibliographically approved

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Kumar, KeshavCava, Felipe

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Molecular Infection Medicine Sweden (MIMS)Department of Molecular Biology (Faculty of Medicine)Umeå Centre for Microbial Research (UCMR)
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Analytical Biochemistry
Microbiology in the medical area

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