multivariate permutation test
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A test-statistic typically employed in the gene set enrichment analysis (GSEA) prevents this method from being genuinely multivariate. In particular, this statistic is insensitive to changes in the correlation structure of the gene sets of interest. The present paper considers the utility of an alternative test-statistic in designing the confirmatory component of the GSEA. This statistic is based on a pertinent distance between joint distributions of expression levels of genes included in the set of interest. The null distribution of the proposed test-statistic, known as the multivariate N-statistic, is obtained by permuting group labels. Our simulation studies and analysis of biological data confirm the conjecture that the N-statistic is a much better choice for multivariate significance testing within the framework of the GSEA. We also discuss some other aspects of the GSEA paradigm and suggest new avenues for future research.
Hallucinatory experiences (HEs) can be pronounced in psychosis, but similar experiences also occur in nonclinical populations. Cognitive mechanisms hypothesized to underpin HEs include dysfunctional source monitoring, heightened signal detection, and impaired attentional processes. Using data from an international multisite study on non-clinical participants (N = 419), we described the overlap between two sets of variables - one measuring cognition and the other HEs - at the level of individual items. We used a three-step method to extract and examine item-specific signal, which is typically obscured when summary scores are analyzed using traditional methodologies. The three-step method involved: (1) constraining variance in cognition variables to that which is predictable from HE variables, followed by dimension reduction, (2) determining reliable HE items using split-halves and permutation tests, and (3) selecting cognition items for interpretation using a leave-one-out procedure followed by repetition of Steps 1 and 2. The results showed that the overlap between HEs and cognition variables can be conceptualized as bi-dimensional, with two distinct mechanisms emerging as candidates for separate pathways to the development of HEs: HEs involving perceptual distortions on one hand (including voices), underpinned by a low threshold for signal detection in cognition, and HEs involving sensory overload on the other hand, underpinned by reduced laterality in cognition. We propose that these two dimensions of HEs involving distortions/liberal signal detection, and sensation overload/reduced laterality may map onto psychosis-spectrum and dissociation-spectrum anomalous experiences, respectively.
- MeSH
- halucinace * MeSH
- kognice MeSH
- lidé MeSH
- multivariační analýza MeSH
- pozornost MeSH
- psychotické poruchy * MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- multicentrická studie MeSH
- práce podpořená grantem MeSH
The aim was to estimate the impacts of invasive Impatiens parviflora on forests' herbal layer communities. A replicated Before-After-Control-Impact field experiment and comparisons with adjacent uninvaded plots were used. The alien's impact on species richness was tested using hierarchical generalized mixed effect models with Poisson error structure. Impact on species composition was tested using multivariate models (DCA, CCA, RDA) and Monte-Carlo permutation tests. Removal plots did not differ in native species richness from neither invaded nor adjacent uninvaded plots, both when the treatment's main effect or its interaction with sampling time was tested (Chi(2) = 0.4757, DF = 2, p = 0.7883; Chi(2) = 7.229, DF = 8, p = 0.5121 respectively). On the contrary, ordination models revealed differences in the development of plots following the treatments (p = 0.034) with the invaded plots differing from the adjacent uninvaded (p = 0.002). Impatiens parviflora is highly unlikely to impact native species richness of invaded communities, which may be associated with its limited ability to create a dense canopy, a modest root system or the fact the I. parviflora does not represent a novel and distinctive dominant to the invaded communities. Concerning its potential impacts on species composition, the presence of native clonal species (Athyrium filix-femina, Dryopteris filix-mas, Fragaria moschata, Luzula luzuloides, Poa nemoralis) on the adjacent uninvaded plots likely makes them different from the invaded plots. However, these competitive and strong species are more likely to prevent the invasion of I. parviflora on the adjacent uninvaded plots rather than being themselves eliminated from the invaded communities.
- MeSH
- biologické modely MeSH
- druhová specificita MeSH
- Impatiens růst a vývoj MeSH
- společenstvo MeSH
- stromy růst a vývoj MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Česká republika MeSH
