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Joint Analysis of Dependent Features within Compound Spectra Can Improve Detection of Differential Features.

ABSTRACT: Mass spectrometry is an important analytical technology in metabolomics. After the initial feature detection and alignment steps, the raw data processing results in a high-dimensional data matrix of mass spectral features, which is then subjected to further statistical analysis. Univariate tests like Student's t-test and Analysis of Variances (ANOVA) are hypothesis tests, which aim to detect differences between two or more sample classes, e.g., wildtype-mutant or between different doses of treatments. In both cases, one of the underlying assumptions is the independence between metabolic features. However, in mass spectrometry, a single metabolite usually gives rise to several mass spectral features, which are observed together and show a common behavior. This paper suggests to group the related features of metabolites with CAMERA into compound spectra, and then to use a multivariate statistical method to test whether a compound spectrum (and thus the actual metabolite) is differential between two sample classes. The multivariate method is first demonstrated with an analysis between wild-type and an over-expression line of the model plant Arabidopsis thaliana. For a quantitative evaluation data sets with a simulated known effect between two sample classes were analyzed. The spectra-wise analysis showed better detection results for all simulated effects.

SUBMITTER: Trutschel D

PROVIDER: S-EPMC4585098 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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Joint Analysis of Dependent Features within Compound Spectra Can Improve Detection of Differential Features.

Trutschel Diana D Schmidt Stephan S Grosse Ivo I Neumann Steffen S

Frontiers in bioengineering and biotechnology 20150924

Mass spectrometry is an important analytical technology in metabolomics. After the initial feature detection and alignment steps, the raw data processing results in a high-dimensional data matrix of mass spectral features, which is then subjected to further statistical analysis. Univariate tests like Student's t-test and Analysis of Variances (ANOVA) are hypothesis tests, which aim to detect differences between two or more sample classes, e.g., wildtype-mutant or between different doses of treat ...[more]

PMID: 26442246

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Project description:The motor cortex represents muscle and joint control and projects to spinal cord interneurons and-in many primates, including humans-motoneurons, via the corticospinal tract (CST). To examine these spinal CST anatomical mechanisms, we determined if motor cortex sites controlling individual forelimb joints project differentially to distinct cervical spinal cord territories, defined regionally and by the locations of putative last-order interneurons that were transneuronally labeled by intramuscular injection of pseudorabies virus. Motor cortex joint-specific sites were identified using intracortical-microstimulation. CST segmental termination fields from joint-specific sites, determined using anterograde tracers, comprised a high density core of terminations that was consistent between animals and a surrounding lower density projection that was more variable. Core terminations from shoulder, elbow, and wrist control sites overlapped in the medial dorsal horn and intermediate zone at C5/C6 but were separated at C7/C8. Shoulder sites preferentially terminated dorsally, in the dorsal horn; wrist/digit sites, more ventrally in the intermediate zone; and elbow sites, medially in the dorsal horn and intermediate zone. Pseudorabies virus injected in shoulder, elbow, or wrist muscles labeled overlapping populations of predominantly muscle-specific putative premotor interneurons, at a survival time for disynaptic transfer from muscle. At C5/C6, CST core projections from all joint zones were located medial to regions of densely labeled last-order interneurons, irrespective of injected muscle. At C7/C8 wrist CST core projections overlapped the densest interneuron territory, which was located in the lateral intermediate zone. In contrast, elbow CST core projections were located medial to the densest interneuron territories, and shoulder CST core projections were located dorsally and only partially overlapped the densest interneuron territory. Our findings show a surprising fractionation of CST terminations in the caudal cervical enlargement that may be organized to engage different spinal premotor circuits for distal and proximal joint control.

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Joint Analysis of Dependent Features within Compound Spectra Can Improve Detection of Differential Features.

Publications

Joint Analysis of Dependent Features within Compound Spectra Can Improve Detection of Differential Features.

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