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Permutation P values for a particular pair were obtained by permuting each dataset 1000 times.
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The probability for each pair is obtained by multiplying together the probabilities of the individual characters that make up the pair, as shown in the table.
The similarity matrices are used as kernels for those SVMs, and the final prediction for a pair is obtained by averaging the scores for the respective drug SVM and target SVM.
The qPCR efficiency of each primer pair was obtained by analyzing the standard curve of a cDNA serial dilution of the corresponding gene.
Gao et al. [ 25] designed a pathway score in which the values of all connected gene pairs are summed, where the value of a gene pair is obtained by multiplying the absolute normalized expression values of the paired genes.
PCR efficiency values for each primer pair was obtained by constructing a standard curve using threshold cycle (Ct) values derived from 6 data points, corresponding to 2-fold decrements of an original cDNA stock (duplicates were prepared for each dilution).
The total amount of conserved information for a species pair was obtained by summing the conserved information for percent identity classes which correspond to a selection coefficient between 0 and 1 according to equation 1, i.e. the classes with sequence identity equal or higher than value corresponding to the neutral mutational distance of the two species (parameter d).
Novel T7-like RNA polymerase-promoter pairs were obtained by mining phage genomes, followed by in vivo characterization in non-model strains Halomonas spp TD01 and Pseudomonas entomophila.
The silicon multilayer with compressive/tensile stress pairs were obtained by plasma ion assisted deposition and electron beam physical vapor deposition, respectively.
These pairs were obtained by us taking as base the human chromosome sequences of the ENCODE project and their corresponding annotation.
In total, 2.42 gigabase pairs were obtained by deep sequencing; unigenes involved in most metabolic pathways were detected by our procedures.
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