Canonical correlation methods for exploring microbe-environment interactions in deep subsurface

Viivi Uurtio, Malin Bomberg, Kristian Nybo, Merja Itävaara, Juho Rousu

Research output: Chapter in Book/Report/Conference proceedingConference article in proceedingsScientificpeer-review

2 Citations (Scopus)

Abstract

In this study, we apply non-linear kernelized canonical correlation analysis (KCCA) as well as primal-dual sparse canonical correlation analysis (SCCA) to the discovery of correlations between sulphate reducing bacterial taxa and their geochemical environment in the deep biosphere. For visualization of canonical patterns, we demonstrate the applicability of the correlation plot technique on kernelized data. Finally, we provide an extension to the visual analysis by clustergrams. The presented framework and visualization tools enabled extraction of latent canonical correlation patterns between the salinity of the groundwater and the bacterial taxonomic orders Desulfobacterales, Desulfovibrionales and Clostridiales.
Original languageEnglish
Title of host publicationDiscovery Science
PublisherSpringer
Pages299-307
ISBN (Electronic)978-3-319-24282-8
ISBN (Print)978-3-319-24281-1
DOIs
Publication statusPublished - 2015
MoE publication typeA4 Article in a conference publication
Event18th International Conference on Discovery Science, DS 2015 - Banff, Canada
Duration: 4 Oct 20156 Oct 2015
Conference number: 18

Publication series

SeriesLecture Notes in Computer Science
Volume9356

Conference

Conference18th International Conference on Discovery Science, DS 2015
Abbreviated titleDS 2015
CountryCanada
CityBanff
Period4/10/156/10/15

Keywords

  • Canonical correlation
  • Kernel methods
  • Sparsity
  • Deep biosphere

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    Uurtio, V., Bomberg, M., Nybo, K., Itävaara, M., & Rousu, J. (2015). Canonical correlation methods for exploring microbe-environment interactions in deep subsurface. In Discovery Science (pp. 299-307). Springer. Lecture Notes in Computer Science, Vol.. 9356 https://doi.org/10.1007/978-3-319-24282-8_25