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After 24 h, cell survival was measured using a Premixed WST-1 Cell Proliferation Reagent (Clontech, 630118), and the absorbance of each sample was measured at 450 nm against the background control using a multi-well plate reader.
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To optimise the assay, four pairs of primers were evaluated in early experiments and the best pair (SP7 5'-CGCCTCGAGGTCCGGCTC-33'/selectedGCCTCGAGGTCCGGCTC-3') selected based on observed cycle threshold (Ct) value for signal fluorescence to exceed those of background controls, using a SQPV-positive control sample.
Densitometry was measured with NIH Image J software version 1.45 to quantify the average pixel density/spotted area after normalization to the background controls using plug-in function, protein array.
Since extended staining can itself generate background, we also conducted controls using a sense probe derived from this fragment.
The output of the pTL-HIF1α was used as the positive control and to normalize the data against; the promoterless pTL was used as the negative control and background was subtracted using a media only control.
The background was subtracted using a control which contained only the cells and the dye.
By contrast, signal was not observed above background levels using a WOX14 sense control (Fig. 5C).
Both signals were adjusted for loading differences and background using a β-globin control probe.
Is this type of non-random background addressed by using a mock-treated control?
Measured fluorescence polarization values were converted into anisotropy (FA) values and subsequently background-subtracted using a no-ORC1 5 no-ORC1 5eacontrolyields ΔFA).
Media alone was used as a background control, OVA was used as a third-party control, and phorbol 12-myristate 13-acetate plus ionomycin was used as a positive control for IFNγ and IL-4 release by T helper 1 (Th1) and Th2 cells, respectively.
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