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Therefore, for each pair of the pathways, we calculated two P values (Pnodes and Plinks).
Tracking the migratory pathways, we calculated migration velocity for each cell type, based on randomly chosen cells (>100 cells).
To identify the differentially expressed pathways, we calculated the P-values representing significant expression changes of identified pathways.
From IPA-based classification of the proteins into each of the eight pathways, we calculated a density distribution for all eight signaling pathways along the cluster (Fig. 6b e).
To explore whether the observed age associations are unique to their pathway or common to multiple pathways, we calculated the Spearman correlation between those phenotypes.
For the pathways, we calculated the GN scores of all the metabolites in KEGG pathways and found a wide variation in the distribution of metabolite GN scores).
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In order to analyze possible interactions between the mutations of the key amino acids along the AZT-resistance pathway, we calculated epistasis (E) according to equation 1 from the determined fitness values.
For each pathway, we calculated four different significance values.
For each KEGG pathway, we calculated the hypergeometric p-value which indicates the enrichment of regulated genes in the pathway.
To recognize the switch to an anaerobic pathway, we calculated the lactate/pyruvate ratio (L/P ratio).
For each pathway, we calculated the ratio of P-values between down-miR and ctrl-miR to determine the specificity.
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