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We report a fundamental shift in expression patterns in response to the presence of bacteria, highlighting the impact of biotic interaction on gene expression in dinoflagellates.
In this study, we have identified the relative contribution of strain, stage, and strain by stage interaction on gene expression across development between two genetically divergent isolates of C. elegans.
A recent experimental study on American eel has proposed an effect of both origin and environment (salinity), as well as its interaction on gene expression [ 102].
Briefly, the Buess method is an example of an expression deconvolution approach applied to coculture data; this method estimates the percent of fibroblasts and cancer cells in each coculture, and normalizes the data for composition differences prior to estimating the effect of epithelial stromal interaction on gene expression.
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Of highest urgency is to validate the significance of biotic interactions on gene expression in marine microbial communities.
We tested the effects of the compartments, follicle stages, and their interactions on gene expression using nbinomGLMTest.
We therefore studied the contribution of each factor and their interactions on gene expression variation by taking the other factors into consideration using the Akaike Information Criterion (AIC) [ 28].
We conducted principal components analysis (JMP 9.0.2, SAS, Cary, NC) to determine relative impact of treatment, age and age x treatment interactions on gene expression.
To investigate the influence of gene-gene interactions on gene expression trait heritability, we selected genes presenting multiple eQTLs and for each selected gene we fitted a linear mixed model with incorporation of SNP-SNP multiplicative interaction effect.
Using yeast as a model system, we evaluated the effects of four separate factors and their interactions on gene expression variation: protein interaction degree, toxicity degree, number of TFs, and the presence of TATA box.
The most connected nodes are 'Microarray' (denoting an interaction based on gene expression) and 'Reconstituted Complex' (implying an interaction is detected between purified proteins in vitro) with 19 edges, i.e. full connectivity.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com