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Due to the enhanced signal to noise separation, frequent clusters are more robust and are more likely to be regulated by the same splicing factors (thus more likely to represent splicing modules) than those heavy subgraphs derived from a single dataset.
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Variants grouped into the categories '1-2 bp diff' (IIIa) and '>2 bp diff' (IIIb) which were present in both amplicon replicates but less frequent than any annotated artefact were labelled as 'unclassified variants', since they are not amongst the most frequent clusters but are unlikely to be artefacts if they appear in both replicates in at least two copies each (i.e. in clusters).
For α values of 0.6 and 0.7, higher percentages of the edge clusters are frequent in at least N graphs.
For example (β = 0.6), while for α = 0.5, 86 % of the reported edge clusters are frequent in at least 5 graphs, the percentage drops to 70%% for α = 0.
Thus, multiple clusters are less frequent in cells that express lower levels of polarity factors.
We have noticed that for a small edge frequency threshold (k), a large percentage of the reported edge clusters are not frequent in at least k coexpression networks.
Although many gene clusters are conserved across species, rearrangements appear to be frequent in most lineages.
The most frequent clustering, which was in agreement with visual inspection, was selected and used as a reference to assess the reproducibility of the analysis.
For example, for a frequency threshold of 5, none of the reported edge clusters were frequent.
When the RAD marker allele sequences showing the most frequent segregation patterns (linkage clusters) were compared across the two families, matches could be made between specific linkage clusters.
Although variations in the number of rRNA gene clusters were frequent among the cichlid groups analyzed, the presence of two clusters in homologous chromosomes was the most common condition observed in 79.0% and 63.4% of the 5S and 18S rRNA genes, respectively.
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