| Method |
---|
Gene | SpacePAC | iPAC | GraphPAC | NMC |
---|
AKT1 | <1.00 E-03 | 4.48 E-04 | 5.54 E-04 | 5.55 E-04 |
ALK | <1.00 E-03 | 1.99 E-42 | 3.89 E-35 | 2.16 E-21 |
BRAF | <1.00 E-03 | <2.23 E-308 | <2.23 E-308 | <2.23 E-308 |
CHRM2 | 1.10 E-02 | | | |
CTNNB1 | 2.00 E-03 | 6.69 E-03 | 1.09 E-03 | 1.09 E-03 |
DOCK2 | 2.20 E-02 | 9.29 E-03 | 3.39 E-03 | |
FGFR3 | 2.00 E-02 | | | |
FSHR | 2.20 E-02 | | | |
HRAS | <1.00 E-3 | 1.55 E-23 | 1.87 E-32 | 2.68 E-15 |
IDE | 2.00 E-02 | 3.60 E-03 | | |
IGF2R | 1.40 E-02 | | 3.06 E-03 | 9.04 E-03 |
KIF18A | 6.00 E-03 | 1.56 E-02 | 1.56 E-02 | 1.56 E-02 |
KRAS | <1.00 E-03 | <2.23 E-308 | <2.23 E-308 | <2.23 E-308 |
NRAS | <1.00 E-03 | 1.53 E-75 | 6.65 E-77 | 6.77 E-77 |
PIK3CA | <1.00 E-03 | 4.73 E-118 | 4.73 E-118 | 4.73 E-118 |
PTEN | <1.00 E-03 | 5.71 E-03 | 7.60 E-04 | 1.68 E-04 |
SEC23A | 1.70 E-02 | | 1.18 E-02 | |
TP53 | <1.00 E-3 | 1.78 E-134 | 6.22 E-169 | 1.08 E-88 |
- This table shows the p-value of the most significant cluster for each of the 18 proteins identified by SpacePAC as well as the corresponding p-value under iPAC, GraphPAC and NMC. A blank entry in position (i,j) signifies that methodology j did not find any structures with significant clustering for protein i. Note that given n
i
total mutations for protein i, the pairwise methodologies perform comparisons, one for each pair of mutations. As such, the p-values shown for iPAC, GraphPAC and NMC have been multiplied by in order to account for the multiple comparison and provide a number directly comparable to the SpacePAC p-value. Also, while the GraphPAC methodology was run under all three insertion methods (Cheapest, Nearest and Farthest) as described by [25], we display the minimum p-value over the three methods. Note that since 1000 simulations were used for SpacePAC, the most significant result we can report is p<1.00E−03. Please see Figure 1 for further explanation.