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In addition, another putative phosphonate transport system (M00224_1) and the N-acetylglucosamine transport system (M00205_1) categorized into one of the restricted modules (pattern B) were found to be conserved only in O. iheyensis.
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Universal: the modules completed by more than 70% of 768 prokaryotic species, Restricted: the modules completed by less than 30% of 768 prokaryotic species.
It is, unlike other algorithms, not restricted to modules located proximal to genes, but mostly contains distal predicted cis-regulated module predictions [ 30].
Pattern B defined as "restricted" comprised modules completed by less than 30% of the species, and accounted for 10.8% of all the pathway modules, and 17 modules were rare modules completed by less than 10% of the 768 species (Table 1).
Since module genes tend to be highly connected, we restricted the module detection analysis to genes that had relatively high connectivity.
If this prediction is true, then coordinated changes between the two regions would be expected to proceed more slowly than changes that are restricted to single modules.
Also, we report yeast modules restricted by evolutionary conservation and phenotypic profiles.
However, such mapping will be restricted to network modules existing in both species.
If the dataset has been restricted by previous modules (e.g. the selection of a specific reference), excluded species and taxa are disabled in the tables.
Thus, some of the relationships between connectivity and essentiality or sequence conservation and not detected when the analysis is restricted within the modules.
For example, some interactions are excluded since we restrict the module size to at least two genes, so that noisy measurements for a specific deletion will not dominate the results.
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