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Since cellular lysosomal enzyme levels are reduced in Lerp mutants, we considered the possibility that lysosome-dependent processes, such as autophagy, might be impaired.
Additionally when designing the mutants, we considered if the mutations were contained within a single trypsin fragment and if other S and or T residues were also present in these peptides (3).
To classify our mutants, we considered seed germination of more than 25% in the presence of 1 µM ABA after 72 hr of inhibition to be strong ABA resistance.
Because AOX expression at any stage of the fly life-cycle had no effect on the major phenotypic features of tko 25t mutants, we considered the hypothesis that the steps in mitochondrial electron flow that AOX bypasses may not be crucial determinants of the phenotype.
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Furthermore, we detected no substantial difference in any of our mutants when we considered either marker relative to a loading control (Figure 4B).
Due to the phenotypic resemblance of hau and gho mutant embryos, we considered this gene as a candidate to be mutated in gho mutant embryos.
Note that since the PDZ challenge focused solely on ERBB2IP-1 mutants, we only considered ERBB2IP-1 -related sequences in our training set and deliberately disregarded similar data for other PDZ domains available in databases such as PDZBase [12] or DOMINO [13].
On the basis of our previous findings in the mutant cartilage growth plate, where BiP was significantly upregulated and Bcl-2 was downregulated (20) owing to the expression of mutant Comp T585M, we considered the possibility that the expression of mutant Comp T585M was eliciting an rER/cell stress response in tenocytes that might eventually be causing increased cell death.
As these neurons were also susceptible to age-related cell death in cycD and cdk4 mutant brains, we consider them to be extremely sensitive to the level of endogenous CycD/Cdk4 activity where its main action may be to promote balanced mitobiogenesis.
Since these genes show regulation by Wnt signaling in both gain-of-function (delNTBAR-1, delNTPOP-1) and loss-of-function [ bar-1 (ga80 ), pry-1 (mu38 )] Wnt mutant backgrounds, we consider these 11 genes, bli-1, col-38, col-49, col-71, dao-4, F08G2.7, pry-1, sptf-2, tag-164 (ok771), Y41C4A.11, and Y43C5A.3 likely to be direct targets of the WBC pathway in C. elegans.
For this reason, we considered mutant phenotypes that span the range of mild to severe.
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