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To identify reliable clusters the clustering algorithm was run 10 times, and afterwards clusters are integrated to generate a single robust clustering solution (tight clustering).
This result indicates that almost all siu and fiu gene clusters are integrated into the iron-regulatory network of C. variabile DSM 44702 that obviously exerts a hierarchical control of gene expression by DtxR in concert with the AraC-type regulators of these clusters.
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In the proposed NC-spectral clustering, the nearest correlation (NC) method and spectral clustering are integrated.
However, the gene cluster was integrated without SCC-specific integration site sequences and lacks the additional three ORFs that flank the pseudo-SCC element in S0385.
Full-length cDNAs were clustered using CAP3 with default parameters, and the subset of cDNAs in the same cluster were integrated into the highest tier.
Various sets of miRNAs, according to prior rules such as function, associated disease, tissue specificity, family, and cluster, were integrated with miR2Gene.
It would be of interest to determine if gene family clusters that are integrated amongst the core genes in the T. cruzi genome are less prone to rearrangement over time or variation between strains relative to those on chromosome ends, as would be predicted.
Gene ranking and graph clustering analyses are integrated into the package.
Multiple tools of the optimization, including the Sobol Sequence, the Support Vector Machine for regression, a variant of the non-dominated sorting genetic algorithm II, and the k-means clustering method, are integrated together to seek the optimal solutions for the design problem.
When bacteria are exposed to phages, short fragments derived from phage DNA are integrated into clusters of regularly interspaced short palindromic repeat (CRISPR) regions of the bacterial genome as spacers [ 27].
Thus, since not all the noise points are integrated into the clusters, the amount of cluster expansion is a bit smaller than the static case.
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