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Previous research in protein (or gene) function prediction can be partition into two classes of methods (feature-based approaches and graph-based approaches) according to the terms of input data and methodology.
Here, we consider a simple partition into two classes, derived from a continuous scaling of the 20 amino acids with respect to their mean atom depth, as defined from a representative set of globular proteins (Pintar et al. 2003; Pintar et al. 2003).
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Wells were randomly partitioned into two classes for training the models (70% or 197) and validating them (30% or 84).
Initially, dataset is randomly partitioned into two classes, and the initial means are computed for both the classes.
During the decomposing phase, training data are partitioned into two classes in several manners and two-class learning machines are trained.
At the root node, the training samples are partitioned into two classes, the largest class and the composite class.
The iHS statistic measures the extent of local LD, partitioned into two classes: haplotypes centered upon a SNP that carry the ancestral versus the derived allele.
The same trend was found for all data sets, that is, in all cases the data were partitioned into two classes: a) points on the baseline and b) points off the baseline (Table 1, Figure 2).
In a way, the motif-searching problem is a classification problem: all the words of a certain length appearing in the sequences should be partitioned into two classes: the binding sites, and all the others.
For a solution to the WMLF/GS problem for a SNP matrix M, after flipping the corresponding elements, all the rows of M can be partitioned into two classes H0 and H1, such that every two rows in the same class are compatible.
The R [ 21] package Combinatorially Complex Equilibrium Model Selection (ccems) [ 22] is used here to automatically generate thousands of ATP induced R1 hexamerization models partitioned into two classes: those that include model terms of complexes with ATP occupied h-sites (i.e. models that would support the existence of h-sites if selected) and those that do not.
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