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Clustering of elements into TE families was performed using USEARCH v. 5.0.144 (Edgar 2010) with the parameters –id 0.8 –queryfract 0.8 –rev –maxrejects 128, choosing the longest element for each family as the representative sequence.
Many real technological, biological, social, and information networks fall into the broad class of 'small-world' networks [3], a middle ground between regular and random networks: they have high local clustering of elements, like regular networks, but also short path lengths between elements, like random networks.
The tree shows no significant clustering of elements derived from the same array or the same chromosome.
The distribution of transposase ORFs in each strain was then analysed using a sliding window, revealing significant clustering of elements in regions of the EAN and CcI3 genomes.
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Analysis of microarray transcriptional patterns of various OXPHOS genes in humans suggested clustering of transcripts encoding elements of the same OXPHOS complex [11], thus, conceivably facilitating co-regulation of OXPHOS genes' expression.
The process of defining attributes involves examining the clusters of elements associated with the concept.
Any HCA needs a set X of elements to classify, a set of attributes (a_i) characterizing the elements, a similarity function sf to quantify resemblance between elements and a grouping methodology gm to form clusters of elements [17].
Trentelman said it had identified clusters of elements found in the paint, but lacked the pinpoint accuracy needed to create a detailed image.
The second analysis, hierarchical clustering, created clusters of elements having similar concepts.
The Identicals function of MAK was used to identify clusters of elements with identical sequences.
Consequently, the clusters were manually condensed into two primary groups i.e. a cluster of elements showing S. aureus-induced increased expression and a cluster of elements showing S. aureus-induced decreased expression.
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