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Table 2 The dysregulated pathways

From: A computational model to predict bone metastasis in breast cancer by integrating the dysregulated pathways

KEGG pathway Enrichment p-value Gene ID Gene symbol Cox coefficient Cox p-value Stability
Cytokine Cytokine Receptor Interaction 0.029 355 FAS −0.42 0.0048 0.9925
   1235 CCR6 −0.22 0.023 0.905
   1439 CSF2RB −0.32 0.0046 0.9875
   2322 FLT3 −0.28 0.015 0.93
   3561 IL2RG −0.20 0.031 0.8125
   3570 IL6R −0.37 0.027 0.85
   3575 IL7R −0.23 0.0044 0.995
   4982 TNFRSF11B −0.22 0.019 0.9125
   6363 CCL19 −0.11 0.033 0.8025
   6375 XCL1 −0.21 0.013 0.9575
   7042 TGFB2 −0.24 0.016 0.9325
   7422 VEGFA 0.15 0.031 0.83
Chemokine Signaling Pathway 0.041 112 ADCY6 0.34 0.032 0.8225
   1235 CCR6 −0.22 0.023 0.905
   3702 ITK −0.18 0.023 0.87
   3717 JAK2 −0.48 0.0025 1
   5579 PRKCB1 −0.39 0.021 0.8975
   5613 PRKX −0.26 0.031 0.815
   5829 PXN 0.34 0.021 0.8725
   6363 CCL19 −0.11 0.033 0.8025
   6375 XCL1 −0.21 0.013 0.9575
Cell Cycle 0.012 894 CCND2 −0.27 0.013 0.96
   1021 CDK6 −0.48 0.010 0.955
   1869 E2F1 0.32 0.0015 1
   1870 E2F2 0.33 0.031 0.8375
   7042 TGFB2 −0.24 0.016 0.9325
   8243 SMC1A 0.75 0.0085 0.98
   9700 ESPL1 0.25 0.010 0.97
   10744 PTTG2 0.46 0.011 0.975
Natural Killer Cell Mediated Cytotoxicity 0.048 355 FAS −0.42 0.0048 0.9925
   3002 GZMB −0.23 0.0067 0.985
   3383 ICAM1 −0.32 0.022 0.8975
   3821 KLRC1 −0.43 0.0073 0.97
   3932 LCK −0.24 0.025 0.875
   5579 PRKCB1 −0.39 0.021 0.8975
   22914 KLRK1 −0.34 0.015 0.9325
T Cell Receptor Signaling Pathway 0.046 917 CD3G −0.43 0.00097 0.9975
   3702 ITK −0.18 0.023 0.87
   3932 LCK −0.24 0.025 0.875
   5788 PTPRC −0.21 0.024 0.8675
   10892 MALT1 −0.43 0.015 0.905
   29851 ICOS −0.41 0.018 0.915
Pancreatic Cancer 0.027 1021 CDK6 −0.48 0.010 0.955
   1869 E2F1 0.32 0.0015 1
   1870 E2F2 0.33 0.031 0.8375
   7042 TGFB2 −0.24 0.016 0.9325
   7422 VEGFA 0.15 0.031 0.83
Non Small Cell Lung Cancer 0.0095 1021 CDK6 −0.48 0.010 0.955
   1869 E2F1 0.32 0.0015 1
   1870 E2F2 0.33 0.031 0.8375
   5579 PRKCB1 −0.39 0.021 0.8975
   6256 RXRA 0.45 0.012 0.9525
Primary Immunodeficiency 0.0014 3561 IL2RG −0.20 0.031 0.8125
   3575 IL7R −0.23 0.0044 0.995
   3932 LCK −0.24 0.025 0.875
   5788 PTPRC −0.21 0.024 0.8675
   29851 ICOS −0.41 0.018 0.915
  1. The first column contains the names of the pathways; the second column contains the enrichment p-value of the candidate genes to the pathways; the third column (Gene ID) and the forth column (Gene Symbol) contains all candidate genes in the pathways; the fifth column contains the average Cox coefficients of the genes in the 400 runs; the fifth column contains the average p-values of the genes in the 400 runs and the last column contains the stability of the genes in the 400 runs (the ratios of the genes are significant across all the 400 runs). In the table, there are 35 unique genes (some genes may be present at more than one pathways).