Table 2 Genomic Signatures Included in the Study
Functional class | Signature name | Year | Number of genes mapped onto the platforms | Patients with the signature classified as (%)a | Reference | |||
|---|---|---|---|---|---|---|---|---|
GPL570 | GPL96 | Presence | Uncertainty | Absence | ||||
Prognosis | Combined prognostic classifier | 2006 | 91 | 90 | 370 (27.9) | 547 (41.3) | 409 (30.8) | [28] |
Prognosis | Non-overlapping signature | 2008 | 86 | 85 | 393 (29.6) | 532 (40.1) | 401 (30.2) | [29] |
Prognosis | Robust gene signature | 2011 | 58 | 57 | 467 (35.2) | 358 (27.0) | 501 (37.8) | [30] |
Prognosis | Poor survival signature | 2006 | 61 | 60 | 330 (24.9) | 577 (43.5) | 419 (31.6) | [31] |
Prognosis | 72-gene classifier | 2009 | 59 | 47 | 429 (32.4) | 437 (33.0) | 460 (34.7) | [32] |
Prognosis | Recurrence signature | 2011 | 43 | 43 | 253 (19.1) | 814 (61.4) | 259 (19.5) | [33] |
Biology/microenvironment | CIN70 signature | 2006 | 70 | 66 | 609 (45.9) | 151 (11.4) | 566 (42.7) | [12] |
Biology/microenvironment | Cell cycle signature | 2002 | 729 | 601 | 599 (45.2) | 112 (8.4) | 615 (46.4) | [34] |
Biology/microenvironment | Hypoxia signature | 2006 | 141 | 117 | 504 (38.0) | 323 (24.4) | 499 (37.6) | [13] |
Biology/microenvironment | Malignancy-risk signature | 2011 | 91 | 91 | 547 (41.3) | 644 (48.6) | 135 (10.2) | [35] |
Biology/microenvironment | Invasiveness gene signature | 2007 | 172 | 128 | 315 (23.8) | 798 (60.2) | 213 (16.1) | [36] |
Biology/microenvironment | Wound signature | 2004 | 411 | 348 | 459 (34.6) | 486 (36.7) | 381 (28.7) | [14] |
Biology/microenvironment | Metastatic signature | 2002 | 115 | 112 | 214 (16.1) | 1042 (78.6) | 70 (5.3) | [15] |
Biology/microenvironment | Metabolism proteome signature | 2014 | 194 | 187 | 412 (31.1) | 586 (44.2) | 328 (24.7) | [37] |
Biology/microenvironment | Hypoxia metagene | 2007 | 142 | 123 | 378 (28.5) | 538 (40.6) | 410 (30.9) | [38] |
Biology/microenvironment | CAFs signature | 2011 | 45 | 34 | 176 (13.3) | 1074 (81.0) | 76 (5.7) | [39] |
Biology/microenvironment | HRD signature | 2014 | 217 | 182 | 208 (15.7) | 590 (44.5) | 528 (39.8) | [16] |
Biology/microenvironment | Lactic acidosis response signature | 2008 | 1770 | 1378 | 415 (31.3) | 463 (34.9) | 448 (33.8) | [17] |
Biology/microenvironment | Angiogenesis signature | 2013 | 477 | 399 | 505 (38.1) | 573 (43.2) | 248 (18.7) | [40] |
Biology/microenvironment | Angiogenic signature | 2005 | 58 | 56 | 215 (16.2) | 928 (70.0) | 183 (13.8) | [41] |
Pathway | PTEN signature | 2007 | 177 | 156 | 459 (34.6) | 688 (51.9) | 179 (13.5) | [18] |
Pathway | TGF-β signature | 2008 | 240 | 212 | 161 (12.1) | 1042 (78.6) | 123 (9.3) | [19] |
Pathway | Ras signature | 2006 | 252 | 203 | 321 (24.2) | 869 (65.5) | 136 (10.3) | [42] |
Pathway | Myc signature | 2006 | 194 | 159 | 348 (26.2) | 712 (53.7) | 266 (20.1) | [42] |
Pathway | E2F3 signature | 2006 | 241 | 183 | 149 (11.2) | 1129 (85.1) | 48 (3.6) | [42] |
Pathway | β-catenin signature | 2006 | 76 | 70 | 8 (0.6) | 1291 (97.4) | 27 (2.0) | [42] |
Pathway | Src signature | 2006 | 63 | 57 | 17 (1.3) | 1280 (96.5) | 29 (2.2) | [42] |