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Therefore, the observed bias could be due to (i) unrealistic assumptions (used by the inference method) that might be more violated under in-vitro simulations than in-silico simulation, or (ii) to a systematic, unidentified, error in our implementation of the migration among populations in the laboratory.
Figure 6 shows the time course of observed expressional level for five modules and their predictions by the inference method.
Figure 3 shows the time course of observed expressional levels of four modules and their predictions by the inference method.
The mean conditional entropy results marked with * represent the minimal achieved by the method, and therefore selected as predictor for the target by the inference method.
Intuitively, as the degree of belief in the prior is increased (by increasing the weight of the prior information), more of the interactions in the prior will be ranked highly by the inference method.
Where haplotypes establish but do not substantially move the marker frequency (see, for example, the event at generation 162 in the blue population), or where multiple similarly fit haplotypes establish in the same marker population, the number of mutation events is undercalled by the inference method.
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Using our software as a inference method, independently of prior biological information, we input information about the network topology obtained by first applying the inference method from Jarrah et al. in [ 19] to the available data with the added noise.
The Inference method handles term variations by using string similarity and Lucene search, though it tends to select highly specific concepts, such as mapping 'inherited disorders' to Blood Coagulation Disorders, Inherited (MESH D025861).
A dispersion of the order of 40 or 25% was found in the minimum and nominal lives when evaluated by the direct inference method or by the nonlinear regression method, respectively, and a dispersion of 17% calculated by nonlinear regression was observed for the shape parameter, β̂.
In Figures 12A and 13A, one of the reticulation branches (represented by dashed lines) found by the reticulogram inference method was also identified by our weighted consensus network building method (i.e., the reticulation branches between (1) A. mellifer and A. cerana in Figure 12A and between (2) Euglena and Olithodiscus in Figure 13A).
The constructed classifier also used the pathway activity scores computed by the proposed inference method to distinguish metastatic breast cancer samples from non-metastatic samples.
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