Table 4 Top 20 prognostic gene sets identified by two-means clustering in breast cancer gene expression datasets
From: A gene sets approach for identifying prognostic gene signatures for outcome prediction
Gene set | *category | Bild | Miller | Oh | Pawitan | Sorlie_1 | Sorlie_2 | Sotiriou_1 | Sotiriou_2 | van de Vijver | Wang | Weigelt | West | #freq | %mean |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
11823860_ST2 | BR | 1.32 | 7.21 | 10.02 | 22.68 | 8.87 | 0.44 | 4.51 | 8.18 | 45.51 | 8.19 | 0 | 0.97 | 8 | 9.83 |
mitotic checkpoint | BP | 7.51 | 13.34 | 2.91 | 13.57 | 0.07 | 0.03 | 4.08 | 9.59 | 30.78 | 12.49 | 0.01 | 3.57 | 7 | 8.16 |
Cell_cycle_KEGG_GenMAPP | PW | 7.2 | 12.05 | 2.08 | 11.46 | 4.28 | 0.31 | 2.75 | 9.33 | 40.26 | 6.93 | 0.01 | 0.03 | 7 | 8.06 |
cell division | BP | 4.37 | 10.47 | 3.46 | 13.81 | 6.05 | 0 | 2.14 | 7.69 | 32.14 | 15.18 | 0.02 | 0.06 | 7 | 7.95 |
cation efflux protein | IP | 7.94 | 9.69 | 2.16 | 15.77 | 4.16 | 2.41 | 1.96 | 10.45 | 24.69 | 10.04 | 0.51 | 0.21 | 7 | 7.5 |
cyclin, C-terminal | IP | 3.88 | 15.25 | 6.72 | 16.84 | 5.65 | 0.07 | 2.64 | 3.84 | 21.12 | 7.7 | 0.69 | 0.23 | 7 | 7.05 |
DNA repair | BP | 2.04 | 7.15 | 4.58 | 9.13 | 0.09 | 0.02 | 6.61 | 8.4 | 35.15 | 6.97 | 0.13 | 1.53 | 7 | 6.82 |
cyclin, N-terminal domain | IP | 3.4 | 15.66 | 2.50 | 10.93 | 5.5 | 0.3 | 4.37 | 3.91 | 26.72 | 7.28 | 1.03 | 0.03 | 7 | 6.8 |
protein tyrosine phosphatase activity | MF | 9.45 | 4.03 | 8.29 | 9.19 | 4.51 | 0.55 | 2.55 | 0.46 | 24.1 | 9.25 | 0 | 2.84 | 7 | 6.27 |
protein domain specific binding | MF | 6.56 | 5.32 | 0 | 10.73 | 0.14 | 1.24 | 12.14 | 6.81 | 15.53 | 2.69 | 10.09 | 0.66 | 7 | 5.99 |
DNA metabolism | BP | 4.08 | 8.01 | 1.81 | 10.15 | 0.06 | 0.17 | 5.06 | 4.88 | 26.2 | 8.88 | 0.64 | 0.3 | 7 | 5.85 |
identical protein binding | MF | 0.18 | 8.04 | 8.35 | 9.55 | 0.12 | 5.3 | 8.79 | 4.09 | 19.64 | 0.01 | 0.97 | 0.12 | 7 | 5.43 |
water transport | BP | 0.01 | 10.23 | 5.85 | 5.26 | 0.45 | 5.25 | 1.57 | 0.42 | 3.97 | 0.91 | 6.13 | 5.14 | 7 | 3.77 |
17076897_ADF3 | BR | 3.15 | 14.49 | 4.06 | 19.84 | 0.1 | 2.59 | 2.31 | 12.03 | 48.93 | 18.04 | 0 | 2.39 | 6 | 10.66 |
mitosis | BP | 6.45 | 13.81 | 2.22 | 16.95 | 1.35 | 0.1 | 2.23 | 9.05 | 37.87 | 11.43 | 0 | 0.16 | 6 | 8.47 |
16478745_ST1 | BR | 5.49 | 10.52 | 3.2 | 13.32 | 1.04 | 0 | 2.55 | 11.64 | 39.05 | 12.51 | 0.29 | 0.53 | 6 | 8.35 |
Pyrimidine metabolism_KEGG | PW | 4.28 | 7.84 | 4.35 | 25.6 | 0.61 | 0.46 | 2.07 | 8.04 | 42.75 | 3.12 | 0 | 0.77 | 6 | 8.32 |
14737219_USR | BR | 4.27 | 10.25 | 3.72 | 13.61 | 0.99 | 0.06 | 1.96 | 10.86 | 39.37 | 11.4 | 0.16 | 0.2 | 6 | 8.07 |
cytokinesis | BP | 2.6 | 8.9 | 3.91 | 17.06 | 0.03 | 0.91 | 0.22 | 8.68 | 48.68 | 5.24 | 0.16 | 0.17 | 6 | 8.05 |
14737219_CSR | BR | 0.51 | 10.7 | 3.13 | 15.5 | 7.45 | 0.08 | 4.25 | 1.43 | 39.65 | 7.32 | 0.38 | 2.3 | 6 | 7.73 |