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To ensure that our tests are not biased by small sample sizes while comparing essential genes with their counterparts, the test results were verified with additional random sampling whereby each of the applied tests was repeated 105 times with a randomly drawn sample of the associated basic population.
Suggestion 3 (optional): Extend and further constrain the search motif (e.g. combine the motifs to reduce hits) and sift through results (filtered by, for example, biologically meaningful virus taxa with mRNA capping) to get ideas for further potential study targets to be verified with additional methods.
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Normality among the distribution of residuals was verified with histograms (Additional file 1: Figure S1 and S2), and P-P plots (Additional file 1: Figure S3 and S4).
The up-regulation of Foxg1 was verified with qPCR (Additional file 5: Figure S2c).
The changes of selected DEGs were verified with qPCR (Additional file 3).
The effects of Spire RNAi should also be verified with an additional shRNAi construct, or the authors could try to rescue the phenotype of Spire RNAi cells.
This observation was later verified with ANIb analysis (Additional file 3: Table S1).
Each paraphrasing was verified twice with additional human guidance.
The STRING database integrates experimentally verified PPIs with additional data sources, including genomic context, gene coexpression data and text-mined data.
The overexpression was verified with real-time PCR (Additional file 1, Figure S2A) and Western blot (Additional file 1, Figure S2B).
The significance of a deviation of the number of up- or downregulated genes in each group from the average was verified with a Fisher test (Additional file 4).
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