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As listed in Table 1, Set A had 843,845 compounds associated with 548,071 assays, Set B had 400,599 compounds associated with 4,280 unique GIs, and Set C had 265,470 compounds associated with 4,540 BSIDs.
TaqMan assays set up for four of these sequences confirmed the relative expression levels (Table 4).
However, primers and probes were adjusted to fulfill the criteria for minor groove binder nonfluorescent quencher qMSP assays set by the Primer Express Software 3.0 (Applied Biosystems; Table 1).
Similar(57)
However, the two assay sets have very similar averages and standard deviations to each other, and hence the analysis and discussion below, which are based on the 1,528 assay set, also hold for the 843 assay set.
The results from the 843 assay set are included in Additional file 4. The similarity score distributions from the two assay sets have very similar averages and standard deviations to each other, and hence, the conclusions drawn from the 1,528 assay set should also be valid for the 843 assay set.
Therefore, a subset of the 1,528 assays were generated by selecting 843 assays which have active compounds only (without any inconclusive or unspecified compounds), and the same analyses were performed both for the 1,528 assay set and the 843 assay set.
Fresh biomass (sludge) samples from one laboratory reactor and four mill biotreatment systems were fed raw mill effluents and used to evaluate the four-assay set.
This four-assay set was also applied to three practical situations: (a) at-mill monitoring of a biotreatment system; (b) effects of cold storage on biomass; and (c) effects of decreased BOD loading on biomass.
Three endogenous controls were added to the assay set.
On the day of assay set up, cell count and viability were determined using a Guava Cell Counter.
Alternatively, the assay set up may be suppressing courtship.
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