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Table 2 Summary of results for free energy measurements obtained with EVAL-SS methods.

From: Free energy estimation of short DNA duplex hybridizations

Method

Stats

MFE_AD [kcal/mol]

Pearson coeff. (r)

 

SSSI

Sens.

PPV

F-measure

MultiRNAFold

min

0.000

0.7565

4.35

40.00

0.1667

1

0.2857

(Mathews)

q1

0.340

  

100.00

1.0000

1

1.0000

 

median

0.860

  

100.00

1.0000

1

1.0000

 

mean

2.681

  

95.83

0.9547

1

0.9711

 

q3

3.590

  

100.00

1.0000

1

1.0000

 

max

18.400

  

100.00

1.0000

1

1.0000

 

stddev

3.429

  

10.56

0.1224

0

0.09236

MultiRNAFold

min

0.000

0.7663

4.131

40.00

0.1667

1

0.2857

(SantaLucia)

q1

0.330

  

100.00

1.0000

1

1.0000

 

median

0.720

  

100.00

1.0000

1

1.0000

 

mean

2.528

  

96.44

0.9608

1

0.9747

 

q3

3.510

  

100.00

1.0000

1

1.0000

 

max

17.200

  

100.00

1.0000

1

1.0000

 

stddev

3.269

  

10.23

0.1189

0

0.08966

 

min

0.000

0.7660

3.992

40.00

0.1667

1

0.2857

 

q1

0.256

  

100.00

1.0000

1

1.0000

 

median

0.630

  

100.00

1.0000

1

1.0000

UNAFold

mean

2.374

  

96.08

0.9571

1

0.9724

 

q3

3.016

  

100.00

1.0000

1

1.0000

 

max

11.880

  

100.00

1.0000

1

1.0000

 

stddev

3.212

  

10.66

0.1231

0

0.09234

Vienna

min

0.010

0.7630

3.667

5.882

0.0000

0.0000

0.0000

Package

q1

1.700

  

100.000

1.0000

1.0000

1.0000

 

median

2.330

  

100.000

1.0000

1.0000

1.0000

 

mean

3.025

  

95.210

0.9467

0.9856

0.9616

 

q3

3.935

  

100.000

1.0000

1.0000

1.0000

 

max

15.400

  

100.000

1.0000

1.0000

1.0000

 

stddev

2.075

  

13.74

0.1581

0.1192

0.1387

  1. Summary of results for free energy measurements obtained with EVAL-SS methods. The p-values for the Pearson correlation test were less than 2.2e-16 in all cases.
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BMC Bioinformatics

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