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Supplementary tables and figures. Supplementary table 1. P-values calculated within each data set, using Students T-test, between poor and good outcome groups. P-values below 0.05 are highlighted with green. Supplemntary figures. Refining of differently expressed regions on chromosome regions:

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## Supplementary tables and figures

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**Supplementary table 1**P-values calculated within each data set, using Students T-test, between poor and good outcome groups. P-values below 0.05 are highlighted with green**Supplemntary figures**Refining of differently expressed regions on chromosome regions: 1p (supplementary figure 1) 1q (supplementary figure 2) 12q (supplementary figure 3) 14q (supplementary figure 4) 16q (supplementary figure 5) 17q (supplementary figure 6) 20q (supplementary figure 7) A: Sliding mean plot. The cytogenetic bands corresponding to gene sets in the GSEA analysis are indicated in the blue bar and core regions are highlighted as a black bars. B-D: Scaled ratios of differently expression (RDE) for all genes in the core regions.**Suppelementary figure 1A**1p36 1p35 1p34 1p33-32 1p31 1p22 1p21 1p13-12 Sliding mean of RDE DIRAS3 Gene number**Suppelementary figure 1B**Sliding mean of RDE DIRAS3 TGFBR3 GNG12 GADD45A Gene number**Supplementary figure 2A**1q11-22 1q23 1q24 1q25 1q31 1q32 q41 1q42 q43 q44 Sliding mean of RDE Gene number**Supplementary figure 2B**ACTA1 ARF1 Sliding mean of RDE NVL Gene number**Supplementary figure 3A**Sliding mean of RDE 12q11-12 12q13 12q14 q15 12q21 12q22-23 12q24 Gene number**Supplementary figure 3B**MYF6 Y=2.58 MDM2 Sliding mean of RDE Gene number**Supplementary figure 4A**Sliding mean of RDE FOS, TGFB3 14q11 14q12 14q13 14q21-22 14q23 14q24 14q31 14q32 Gene number**Supplementary figure 4B**Sliding mean of RDE ALDH6A1 TGFB3 KIAA1737 FOS ZADH1 C14orf44 Gene number**Supplementary figure 5A**Amsterdam 16q HUMAC Huang S2003 Stockholm 1.1 Uppsala GINS2 S2006 PRMT7 Rotterdam 1.08 1.06 Sliding mean of RDE 1.04 1.02 1 0.98 16q11-12 16q13 q21 16q22 16q23 16q24 0.96 0 100 200 300 400 500 600 Gene number**Supplementary figure 5B**PRMT7 CDH3 Sliding mean of RDE CDH1 Gene number**Supplementary figure 5C**GINS2 SL7A5 MVD CDT1 FANCA Sliding mean of RDE Gene number**Supplementary figure 6A**Survivin, TK1 Sliding mean of RDE 17q11 17q12 17q21 17q22 17q23 17q24 17q25 Gene number**Supplementary figure 6B**HER2 Sliding mean of RDE Gene number**Supplementary figure 6C**Amsterdam 17q21-23 HUMAC EPN3 Huang ABCC3 S2003 DGKE Stockholm 1.8 Uppsala S2006 Rotterdam 1.6 1.4 Sliding mean of RDE 1.2 1 0.8 0.6 0.4 0 20 40 60 80 100 120 140 160 Gene number**Supplementary figure 6D**LLGL2 RECQL5 GALK1 TK1 survivin Sliding mean of RDE Gene number**Supplementary figure 7A**E2F1 NCOA3 AURKA ZNF217 Sliding mean of RDE 20q11 20q12 20q13 Gene number**Supplementary figure 7B**E2F1 EIF2S2 MAPRE1 NCOA6 Sliding mean of RDE Gene number**Supplementary figure 7C**SLC2A10 NCOA3 KCNG1 CSE1L ZNF217 AURKA Sliding mean of RDE Gene number

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