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Table 4 Significantly phosphorylated RTK and kinase sites in chordoma using Proteome Profiler arrays, ranked based on p-value

From: Frequent activation of EGFR in advanced chordomas

Probe name Estimate Standard Error t-value Raw p-value fdr adjusted p-value
Phospho-RTK      
EPHB2 0.1285 0.0263 4.9 6.6931E-07 2.8111E-05
EGFR 0.6762 0.1694 3.99 3.8547E-05 0.0008
MSPR 0.1241 0.0426 2.91 0.0019 0.0266
PDGFRB 0.0848 0.0334 2.54 0.0057 0.0600
FGFR3 0.1022 0.0484 2.11 0.0177 0.1487
CSF1R 0.0887 0.0445 1.99 0.0236 0.1652
ERBB4 0.0160 0.0289 1.78 0.0379 0.2272
Phosphorylated kinase site      
AKT (T308) 0.3117 0.0313 9.95 3.1253E-21 1.5001E-19
RSK 1/2/3 (S380) 0.1747 0.0212 8.25 1.2388E-15 2.9731E-14
TP53 (S46) 0.2394 0.0336 7.14 2.3075E-12 3.6920E-11
MSK 1/2 (S376/S360) 0.1557 0.0256 6.09 1.3564E-09 1.6277E-08
YES (Y426) 0.1639 0.0288 5.69 1.2512E-08 1.2012E-07
TP53 (S15) 0.2533 0.0469 5.41 5.5176E-08 4.4141E-07
p38a (T180/Y182) 0.2858 0.0625 4.57 3.2798E-06 2.2490E-05
p70 S6K (T421/S424) 0.1086 0.0242 4.49 4.6993E-06 2.8196E-05
CREB (S133) 0.3273 0.1018 3.21 0.0007 0.0038
RSK 1/2 (S221) 0.0707 0.0246 2.87 0.0022 0.0104
SRC (Y419) 0.0934 0.0349 2.68 0.0038 0.0158
TP53 (S392) 0.1237 0.0464 2.67 0.004 0.0158
TOR (S2448) 0.2407 0.1258 1.91 0.0284 0.105
JUN (S63) 0.0863 0.0533 1.62 0.053 0.1818
HSP27 (S78/S82) 0.1048 0.0691 1.52 0.0647 0.2016
eNOS (S1177) 0.2002 0.1331 1.50 0.0672 0.2016
STAT1 (Y701) 0.0465 0.0318 1.46 0.0725 0.2048
STAT5b (Y699) 0.0380 0.0286 1.33 0.0921 0.2457
LYN (Y397) 0.0351 0.0283 1.24 0.1079 0.2725
STAT6 (Y641) 0.0309 0.0284 1.09 0.1382 0.3317
STAT5A (Y699) 0.0656 0.0715 0.92 0.1791 0.4093
FYN (Y420) 0.0587 0.0768 0.76 0.2239 0.4884
STAT5A/B (Y699) 0.0168 0.0366 0.46 0.3229 0.6739
ERK1/2 (T202/Y204. T185/Y187) 0.0284 0.0708 0.40 0.3447 0.6894
  1. * The probes written in bold have a log2-intensity ratio significantly larger than zero at the α-level of 5%.