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Increasing values of K M beyond 130 mg/dL resulted in progressively more negative median correlation coefficients.
The mean (and median) correlation coefficients were also not very dependent on the laboratory/study or the platform (Table 4).
This analysis yielded median correlation coefficients of 0.87 0.92.
The median correlation coefficients of all three strand bias scores were near zero, suggesting that strand bias does not occur consistently at the same genomic sites across subjects.
To further highlight global reproducibility, median correlation coefficients (Pearson) for both the brain and liver replicates were determined to exceed 0.85.
Note that in the analysis of integrated samples, we removed noisy samples that had less than 0.5 median correlation coefficients with all other samples.
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Profile correlation analysis showed that the expression profiles across the 20 tumor samples determined by each array platform and by TaqMan® assays are highly correlated (median correlation coefficient R > 0.9, the rate of good correlation (Pearson correlation coefficient, R > 0.8) varied from 81 88% for the three array platforms (Table 2).
All duplicates were shown to be highly correlated with a median correlation coefficient value of 0.98 (data not shown).
Among 24 cell line groupings differentiated by their tissue of origin, we found liver cancer cell lines are most correlated to the HCC tumors (median correlation coefficient of 0.44, Figure 1b).
The three least correlated cell line types are autonomic ganglia (median correlation coefficient of 0.22), hematopoietic and lymphoid tissue (median correlation coefficient of 0.31) and small intestine (median correlation coefficient of 0.32).
Genes whose magnitude of correlation coefficient was greater than the median correlation coefficient of the FFRP's target genes were considered to be significantly correlated with the FFRP's expression under that condition set.
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