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In NetCutter, co-occurrence analysis is preceded by occurrence analysis, i.e. the occurrence probability of each entry in each list is determined.
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To avoid the bias caused by repeated occurrence of such structures in the data set, an occurrence analysis (i.e. how many times a particular ligand is found in a protein ligand complex) was performed for each ligand.
The set of weight matrices selected by co-occurrence analysis was subsequently used as starting point to derive more complex promoter models.
Conversely, domains, such as Actin, zf-MIZ, MCM, Piwi, MH2, which have high enrichment scores (>5) but are not currently considered as CM-related domains or identified as candidate CM domains by our co-occurrence analysis may actually deserve to be considered as such.
To explore if some of these drugs have been studied with addiction, we used a keyword-based literature search followed by a co-occurrence analysis.
The promoter sets were characterized further by word co-occurrence analysis, in which word-pairs that appeared together more frequently than expected were identified.
Such relatedness between the articles of the two theoretical physics categories (hep-th and gr-qc) may be verified independently by a category co-occurrence analysis.
This co-occurrence analysis has also been referred to as the guilt by association approach [ 23].
Further, the network co-occurrence analysis suggests the potential for the rare Symbiodinium community to play a role in conferring resistance to the coral host by replacing dominant Symbiodinium types lost under environmental stress.
Co-occurrence analysis was carried out in two ways: First, gene co-occurrence was analyzed and communities of co-occurring genes were defined by edge-betweenness clustering as described in Materials and Methods.
A prerequisite for co-occurrence analysis is the availability of occurrence probabilities of genes per list.
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CEO of Professional Science Editing for Scientists @ prosciediting.com