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To address this question, we used a transcriptional inhibitor, rifampicin, to test the expression profile in the presence of DBMIB.
It was our intention to test the expression profile of one of the main cold markers genes defined for cold in other time points of fermentation and to know if NSR1 behaves similarly in both species.
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Therefore, we tested the expression profile of GSK3ß-related genes (Figure 3B) in these hyper-proliferative PASMCs.
We then tested the expression profile of the tested genes in the strain χ3339 Δ island 4305 containing the R995 + island 4305 plasmid.
This means that some genes with significantly low raw p-values which is the case for TNF-α and IL-6 will be deemed non differentially expressed after adjusting for multiple testing although the expression profile of TNF-α is very similar to that observed by Q-PCR.
Furthermore, we tested whether the expression profile of TRAIL-R1 and TRAIL-R2 could determine receptor preference, but failed to observe any clear correlation.
We tested the expression profiles of the three markers (ACY1, SQSTM1, and GPC3) in a validation set of HGDN (n = 21) and WDHCC (n = 24).
Since gene expression differences could also result from responses to other deficient nutrients, we tested the expression profiles of the same selected candidate genes in root tissues grown under full N provided with 100% Hoagland solution (Additional file 5).
A global test was applied to test whether the expression profiles differed between the classes by permuting the labels of which arrays corresponded to which classes.
To test this hypothesis, the expression profile of all the significant genes were examined by k-means clustering (k = 30).
PCR primers were designed to fescue ESTs and tested to verify the expression profile observed in the microarray experiments.
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