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A principal component analysis (PCA) was run and associations between principal components and technical and biological annotations were evaluated, whereupon a batch effect was detected as the main principal component (Additional file 2A).
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To maximize information content, a variety of biological annotations were integrated.
Linguistic annotation can leverage existing cross-domain annotation frameworks, whereas biological annotations are domain specific.
For example, the names of data files and protocols are hidden and biological annotations are prioritized.
Biological annotations are based on experimental data published in peer-reviewed journals.
Only "Biological Process" terms were evaluated.
Differentially expressed (fold change >2, adj-p #x003C; 0.05) genes were systematically mapped to the associated biological annotation (e.g., Gene Ontology Terms, KEGG pathways) using DAVID, and the most over-represented (enriched) biological annotation were statistically highlighted.
Major biological significance and importance were evaluated by functional annotation clustering (FAC) tool in DAVID.
Gene ontology, biological networks, and canonical pathways were evaluated with Ingenuity Pathway Analysis software (www.ingenuity.com) and the DAVID Annotation Tool website (http://david.abcc.ncifcrf.gov) [7], [8].
These compounds were evaluated for their biological activities in various in vitro biological assays.
Hermitamides were evaluated for their biological activity in several systems.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com