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Table 2 A comparison of the 15 proteins that were found to contain significant clustering via GraphPAC , iPAC or NMC

From: A graph theoretic approach to utilizing protein structure to identify non-random somatic mutations

 

GraphPAC

iPAC

NMC

Protein

p-value

p*

p-value

p*

p-value

p*

KRAS

4.21 E-233

4.33 E-229

6.17 E-185

6.35 E-181

4.39 E-233

4.52 E-229

TP53

4.05 E-152

4.48 E-147

5.23 E-128

6.11 E-123

4.37 E-086

5.30 E-081

BRAF

3.84 E-130

1.04 E-126

3.73 E-130

1.01 E-126

3.84 E-130

1.04 E-126

PIK3CA

8.20 E-084

3.58 E-080

8.20 E-084

3.58 E-080

8.20 E-084

3.58 E-080

NRAS

8.26 E-029

9.91 E-027

5.38 E-026

6.46 E-024

8.26 E-029

9.91 E-027

HRAS

1.54 E-014

6.94 E-013

1.23 E-010

5.54 E-009

5.61 E-010

8.42 E-009

AKT1

2.47 E-005

2.47 E-004

1.18 E-005

7.08 E-005

2.47 E-005

7.41 E-005

IDE

1.56 E-003

4.67 E-003

2.20 E-005

6.60 E-005

1.56 E-003

4.67 E-003

EGFR

9.04 E-004

9.04 E-003

1.35 E-004

1.35 E-003

-

-

DPP4

3.17 E-003

3.63 E-002

-

-

-

-

MAP2K4

1.21E-003

1.21E-002

-

-

-

-

NRP1

1.58E-002

1.58E-002

-

-

-

-

PCSK9

5.61 E-003

1.68E-002

-

-

-

-

HAO1

-

-

7.95 E-003

2.39 E-002

-

-

EIF2AK2

-

-

2.45 E-003

7.36 E-003

-

-

  1. If a specific method did not find a particular protein to contain significant clustering, a "-" is shown. The p* calculation is described in Section ‘Multiple comparison adjustment for structures’. The smallest p-value from all of the insertion methods was selected.