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Manual inspection of the list of altered genes revealed one additional IFN induced gene, IFIH1 that is not annotated in the DAVID database (Table 1).
In fact, we found that these classes of genes were disproportionately represented in our list of altered genes when compared with their representation in the total probeset present on the microarray.
A complete list of altered gene regulation in each of the conditions is given in Additional file 15.
Typically, in these studies, enrichment analysis was performed to identify statistically significant overlap between the list of altered genes and pathways or predefined gene sets [ 16- 19].
A complete list of altered genes, including their putative function, can be found in Additional file 1 (leaves) and Additional file 2 (roots).
A study by Gonzalez-Malerva and colleagues builds upon this extensive knowledge, adding HSPB8 to the list of altered genes associated with endocrine resistance in breast cancer and describing the ability of HSPB8 to regulate autophagy and confer tamoxifen resistance.
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Now I'm thinking I might add Belgian privacy campaigner to my list of alter egos.
The lists of altered genes were then processed using Ingenuity Pathways Analysis to investigate a possible relationship between altered genes and mechanisms of toxicity.
Furthermore, microarray analyses can result in long lists of altered genes, most of which may be difficult to evaluate for functional relevance.
These lists of altered genes or proteins were then processed to investigate their functional distribution, as defined by Gene Ontology.
Lists of altered genes can then by annotated with current annotation provided by CEBS or projected onto biological pathways from groups like BioCarta, KEGG, and the Gene Ontology Consortium.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com