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Table 2 miRanda and TargetScan score parameters can predict co-expression

From: mirCoX: a database of miRNA-mRNA expression correlations derived from RNA-seq meta-analysis

Data Source

Parameter

Pearson Correlation

-log10 (P-Value)

miRanda conserved

Alignment Score

0.041

69.83

 

Conservation Score

-0.023

22.16

 

Free Energy

0.024

23.33

 

mirSVR Score

-0.02

16.6

miRanda nonconserved

Alignment Score

0.026

139.55

 

Conservation Score

-0.025

130.38

 

Free Energy

-0.08

> 307

 

mirSVR Score

0.024

120.49

TargetScan

Aggregate PCT

0.023

5.51

 

Context Score

-0.112

141.13

 

# Conserved Sites

0.0299

9.61

 

# Nonconserved Sites

-0.064

45.92

 

# Conserved 7mer-1a sites

0.019

3.27

 

# Conserved 7mer-m8 sites

0.014

1.39

 

# Conserved 8mer sites

0.02

4.2

 

# Nonconserved 7mer-1a sites

-0.094

99.64

 

# Nonconserved 7mer-m8 sites

0.031

10.64

 

# Nonconserved 8mer sites

-0.008

0

  1. For each predicted miRNA-mRNA pair from the miRanda conserved, miRanda nonconserved, and TargetScan datasets, the Pearson correlation coefficient for co-expression across multiple RNA-seq experiments was obtained. The correlation coefficient was then compared to various predictor variables provided by miRanda/TargetScan, across all pairs, again using Pearson correlation. (P-values after Bonferroni correction; * indicates significance at p < 0.05; ** indicates significance at p < 0.001).