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The models were then compared to current mutant data and some were invalidated.
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With gNCA, we analyzed the combined wild-type and fkh1 fkh2 mutant data set and showed that gNCA can be used to identify TFAs which are consistent with cell physiology, transcription factors with potential cell cycle dependent roles, as well as interactions between transcription factors.
The set of 520 genes that we found to be differentially expressed during wild type nodule formation (wild type temporal profile data set) was used as a reference set for the comparison of the transcriptomes of the Fix− nodules of the different mutants (mutant data set) and those of wild type nodules in the Jemalong J5 background induced by S. meliloti Sm1021 or Sm2011.
The six complementation lines (35S:Z3/z3) grew normally at the early vegetative stage uren contrast to the inferior growth of the z3 mutant (data not shown), and flowered as early as the wild type (Fig. 5a), indicating that constitutive expression of Z3 complemented the late-flowering phenotype of the z3 mutants under NLD conditions in the field.
For the photosynthetic yield data, single factor ANOVA analyses were applied to the measurements from day 7, comparing the control (SE02a#1 and SE02a#3) and mutant data.
All methods produced score distributions that deviated significantly from the null distribution, suggesting that there is indeed consistency between the yeast eQTL data and independent mutant data.
These data illustrate the problems that arise when trying to reconcile mutant data with crystal structures and models that are essentially derived from the WT protein.
When we assayed aggregate formation during development in shaking suspension by following the decrease in optical density of the suspension we did not detect differences between wild type and mutant (data not shown).
c Statistics analysis of the number of bulliform cells besides large veins and small veins between WT and rel2 mutant, data are mean ± SD (n ≥ 10).
d Statistics analysis of the depth of bulliform cells on the sides of large veins and small veins between WT and rel2 mutant, data are mean ± SD (n ≥ 10).
Close inspection of the 2Fobs-Fcalc electron density maps built using both wild-type ParC55 and Cys426 mutant data sets have shown a very good coverage for most of the backbone and side-chains (ure 6B).
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