Supplementary Table 3. Copy number variation genes between iC1 and iC3 subtypes. ID iC1_amp iC3_amp iC1_del iC3_del iC1_Normal iC3_Normal FisherP PSMA7 21 19 0 1 9 62 1.11254400968366e-05 PDSS2 8 0 1 9 21 73 1.60517732123479e-05 PDRG1 22 22 0 0 8 60 1.7731961726e-05 ATG5 8 0 2 9 20 73 1.97694109432433e-05 PSTPIP2 4 8 19 17 7 57 2.20539767075408e-05 TBPL1 11 3 1 3 18 76 2.97421948724081e-05 MAP7 10 2 1 4 19 76 3.19346225841393e-05 LMF1 1 5 11 3 18 74 3.60137013565189e-05 RPF2 9 1 1 9 20 72 3.65476756489053e-05 DPM1 20 23 1 0 9 59 5.18872857749731e-05 ZFAS1 21 22 0 0 9 60 5.47662589733556e-05 TOP1 20 19 0 2 10 61 6.661575628895e-05 GTPBP1 0 2 11 4 19 76 8.73221835384363e-05 SUN2 0 2 11 4 19 76 8.73221835384363e-05 AHCY 21 23 0 0 9 59 0.000138652252257911 LTV1 9 2 2 5 19 75 0.000145020767224694 DYNLRB1 20 22 0 0 10 60 0.000172483194691174 CDK5RAP1 20 22 0 0 10 60 0.000172483194691174 RBFOX2 0 3 11 5 19 74 0.000235717540346709 MKL1 0 1 10 4 20 77 0.000240096101518542 TNRC6B 0 1 10 4 20 77 0.000240096101518542 UFL1 6 0 4 10 20 72 0.000269672029376498 MYH9 1 3 11 5 18 74 0.000298888611349149 COX7A2 8 2 3 5 19 75 0.000313905656140179 CSNK1E 0 3 10 4 20 75 0.000340674133668947 EIF2S2 20 23 0 0 10 59 0.000351498282777221 PIGU 20 22 0 1 10 59 0.000402986897610977 TMEM184B 1 3 10 4 19 75 0.000454519742761063 TPST2 1 3 10 4 19 75 0.000454519742761063 PPIL4 8 2 2 6 20 74 0.000586166212069082 POLDIP3 1 2 10 5 19 75 0.000680863540752208 CYB5R3 0 2 10 5 20 75 0.000732218056597917 ZC3H7B 0 1 9 4 21 77 0.000820382740542349 NUP50 0 1 11 7 19 74 0.000851490890263246 TTLL1 0 1 11 7 19 74 0.000851490890263246 TTLL12 0 1 11 7 19 74 0.000851490890263246 POLR3H 1 1 8 4 21 77 0.00186489869078522 ATP5B 6 2 2 2 22 78 0.00215315418207035 SMAP1 8 4 3 5 19 73 0.00228033716598772 CTF1 3 4 4 0 23 78 0.00346835904944166 TLR3 0 4 16 17 14 61 0.00353500575342661 HNRNPA2B1 15 19 3 3 12 60 0.0036423036473255 CYCS 15 18 2 2 13 62 0.00403811159748434 TBC1D22A 0 3 11 8 19 71 0.00505428285457437 SFT2D1 8 4 2 7 20 71 0.0054936984891546 MPC1 8 4 2 7 20 71 0.0054936984891546 RNU4ATAC18P 7 3 2 7 21 72 0.0064104743980863 NFE2L3 15 19 2 2 13 61 0.00705664759430049 CDC42BPB 0 16 7 10 23 56 0.00967879659483449 C14orf79 0 16 6 9 24 57 0.00986443266635095 CHORDC1 5 3 2 21 23 58 0.0101362339051791 PHF10 9 6 2 6 19 70 0.0104799585187591 NEK1 0 5 14 16 16 61 0.0105558978979211 FGFR1OP 8 5 2 7 20 70 0.0114882303140184 JAG2 0 16 5 9 25 57 0.0118927011917446 SPCS2 7 8 1 19 22 55 0.0147939511087916 ZFYVE21 0 15 7 10 23 57 0.0157310317959461 DUSP28 3 0 3 14 24 68 0.0163907469997275 SNRPF 6 4 2 2 22 76 0.0176799554999978 CALM3 3 3 3 1 24 78 0.0181157305394975 CNEP1R1 0 8 5 3 25 71 0.0187398481644555 SMARCA4 0 2 9 7 21 73 0.0187672944255193 RAI1 1 3 11 11 18 68 0.0222257534282961 LLGL1 1 4 11 11 18 67 0.0224068776394039 TYK2 0 0 8 7 22 75 0.024305237116802 OARD1 8 6 2 6 20 70 0.0275998343155126 DUSP8 3 0 5 18 22 64 0.0287015446245518 NT5C3A 12 15 2 3 16 64 0.031042177354637 CLDN7 1 3 10 10 19 69 0.0340062071281004 NDUFA12 5 4 2 2 23 76 0.0360993122893157 ANKFY1 1 4 9 8 20 70 0.0375801144346939 FOXN3 0 12 7 11 23 59 0.0381677768275505 LYRM5 12 17 2 2 16 63 0.040401844550066 XPO6 3 3 4 3 23 76 0.0414113062445433 LETMD1 4 3 3 3 23 76 0.0414113062445433 VDAC1 2 0 10 20 18 62 0.041684797388949 NUPL2 14 19 1 2 15 61 0.0422450333300974 CNOT10 2 0 9 35 19 47 0.0450222404837205