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
<p>Nonmetric MultiDimensional Scaling (NMDS) ordination plot represents the typifying microbial comp...
<p>Triplot showing the relationship between environmental parameters (nitrate, ammonium, phosphate, ...
<p>All analyses were performed based on Bray-Curtis dissimilarity of normalized OTU abundances of sa...
<p>Canonical correlation analyses (<b>A</b>) and factorial correspondence analysis (<b>B</b>) of bac...
It is well-known that human gut microbiota form an ecosystem where microbes interact with each other...
<p>In <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0050267#pone-0050267-g00...
Amplicon sequencing of 16S, ITS, and 18S regions of microbial genomes is a commonly used first step ...
Metagenomiikan tieteenalalla tutkitaan, miten tietyn ympäristön parametrit liittyvät siinä eläviin m...
Disruption of healthy microbial communities has been linked to numerous diseases, yet microbial inte...
Disruption of healthy microbial communities has been linked to numerous diseases, yet microbial inte...
The relationship between groundwater geochemistry and microbial community structure can be complex a...
Motivation: Network interpretation using correlations has several known difficulties. Firstly, the d...
This paper presents gradKCCA, a large-scale sparse non-linear canonical correlation method. Like Ker...
Abstract Background Discovering the key microbial species and environmental factors of microbial com...
[Background]Advance in high-throughput technologies in genomics, transcriptomics, and metabolomics h...
<p>Nonmetric MultiDimensional Scaling (NMDS) ordination plot represents the typifying microbial comp...
<p>Triplot showing the relationship between environmental parameters (nitrate, ammonium, phosphate, ...
<p>All analyses were performed based on Bray-Curtis dissimilarity of normalized OTU abundances of sa...
<p>Canonical correlation analyses (<b>A</b>) and factorial correspondence analysis (<b>B</b>) of bac...
It is well-known that human gut microbiota form an ecosystem where microbes interact with each other...
<p>In <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0050267#pone-0050267-g00...
Amplicon sequencing of 16S, ITS, and 18S regions of microbial genomes is a commonly used first step ...
Metagenomiikan tieteenalalla tutkitaan, miten tietyn ympäristön parametrit liittyvät siinä eläviin m...
Disruption of healthy microbial communities has been linked to numerous diseases, yet microbial inte...
Disruption of healthy microbial communities has been linked to numerous diseases, yet microbial inte...
The relationship between groundwater geochemistry and microbial community structure can be complex a...
Motivation: Network interpretation using correlations has several known difficulties. Firstly, the d...
This paper presents gradKCCA, a large-scale sparse non-linear canonical correlation method. Like Ker...
Abstract Background Discovering the key microbial species and environmental factors of microbial com...
[Background]Advance in high-throughput technologies in genomics, transcriptomics, and metabolomics h...
<p>Nonmetric MultiDimensional Scaling (NMDS) ordination plot represents the typifying microbial comp...
<p>Triplot showing the relationship between environmental parameters (nitrate, ammonium, phosphate, ...
<p>All analyses were performed based on Bray-Curtis dissimilarity of normalized OTU abundances of sa...