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For the affected operons, the rearrangement breakpoints occurred between genes of the operons resulting in separations of genes rather than splitting the genes into two fragments.
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In that study, separation of genes by the rate of sequence evolution and by gene families has demonstrated that rodent-specific exons are more frequent in rapidly evolving genes and in rodent-specific paralogs [29].
This allows the separation of genes while avoiding the stochastic nature of k-means clustering.
Firstly, the accuracy of gene expression models is substantially improved by unsupervised separation of genes into latent regulatory classes.
The main effect observed on PC2 was showing the separation of genes by tissue as discussed above.
This separation of genes based on TFBS similarity indicates the presence of common cis-elements in the SST-regulated gene expression.
However, due to the spatial separation of genes and ribosomes, direct coupling of gene transcription, translation and protein biosynthesis is no longer possible in Eukarya.
Thus, we focused on the gene module itself and examined the orientation and separation of genes in modules residing outside the cluster (Table 1).
A cut-off of 200 bp is pessimistic - it will often cause the separation of genes that would intuitively be assumed to be co-functioning, reducing the apparent size of TCS gene foci.
The separation of genes on the second axis appears to be largely due to frequency differences in C-ending and G-ending codons among the GC rich genes (see right side of Fig. 2B).
The separation of genes into sex-biased expression groups also reveals a fast-X effect that is particularly pronounced for male-biased genes, as would be expected if positive selection acts on recessive X-linked mutations in hemizygous males.
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