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Unless a very flat subclone of NIH 3T3 cells is used in these assays, as we used here, a high and variable background transformation rate can be observed.
In contrast, the 208F cells showed no background transformation and allowed us to detect a low frequency of transformation by RON and Stk.
These reports showed a very high background transformation rate in the NIH 3T3 cells (50 foci per μg control DNA, ref. [ 24]; see photographs of cell culture dishes in Fig. 2 of ref. [ 23]) casting doubt on the reliability of the transformation assay.
The past two decades have seen the development of a variety of molecular techniques to achieve such chromosomal modifications in E. coli K-12, including F' homogenotization, the formation and resolution of ColE1 plasmid cointegrates in a polA1 background, transformation and mating via an Hfr cross, and the use of temperature sensitive plasmids with selection for homologous recombination (2, 3).
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Thus, the upper and lower 95% confidence limits for the birth weaning:adult sensitivity estimates reflect possible uncertainties in all the group background transformations per animal, group adult transformations per animal, and the sensitivities of fetal and weaning 60-day life stages relative to adults.
But, attempts to knock-in genes in some cases have encountered a high background of transformation due to maintenance of unwanted circularization of the transforming DNA, which contains possible autonomously replicating sequence (ARS) activity.
All strains in this study were generated into the same VD300 background by transformation with either newly created plasmids or gDNA of existing strains.
However, several attempts to knock-in an Mmc gene into the Mmc genome were inefficient with a high background of transformation.
In order to overcome this hurdle, partially complemented apyrase apy2 SKO plants (= +/apy1; apy2/apy2; SPIK::AtAPY2) were used as the genetic background for transformation with each tagged AtAPY1 construct.
25 combinations of background correction, transformation, and normalization methods displayed in Figure 1 were calculated either with methods from BeadStudio, with methods available in the lumi package, or with a combination of BeadStudio and lumi methods.
Firstly, in order to recover the linearized and dephosphorylated vector by electroelution, we effectively reduced the background of transformation and optimized the ratio of vector and insert DNA in ligation.
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