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14 Supplementary Table 1 a C ategory G enes in C ategory % G enes in C ategory G enes in L is t in C ategory % G enes in L is t in C ategory P -V alue G O:6952: defens e res pons e E -09 G O:9607: res pons e to biotic s timulus E -09 G O:6955: immune res pons e E -07 G O:6935: chemotaxis E -07 G O:6898: receptor mediated endocytos is E -05 G O:50896: res pons e to s timulus E -05 G O:50874: organis mal phys iological proces s E -05 G O:9605: res pons e to external s timulus E -05 G O:42221: res pons e to chemical s timulus E -05 G O:9613: res pons e to pes t, pathogen or paras ite G O:43207: res pons e to external biotic s timulus G O:9628: res pons e to abiotic s timulus G O:6956: complement activation G O:6959: humoral immune res pons e G O:8361: regulation of cell s ize G O:7585: res piratory gas eous exchange G O:1701: embryonic development G O:6954: inflammatory res pons e G O:1558: regulation of cell growth b Interferon S timulated R es pons e E lement S equence Dis tance E xpected F requency Obs erved F requency G enes Analys ed P -value AG T T T C NNC NY E -09 AG T T T C NNC NY E -09 AG T T T C NNC NY E -09 AG T T T C NNC NY E -09 Supplementary Figure 1 Global gene changes observed in highly metastatic primary tumors versus bone metastases. (a) Top 20 most significant gene ontologies. Highlighted in grey are ontologies related to immune regulation. (b) Frequency that interferon stimulated response element (ISRE) was observed in untranslated upstream regions of genes significantly altered between primary tumors and metastases that were in immune related ontologies, in a preliminary analysis of all known promoter regions upstream of ORFs. This result lead to analysis of the dataset with the INTERFEROME analysis package. Nature Medicine doi: /nm.2830
15 Supplementary Table 2 ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG ENSMUSG Genes list identifying those genes identified as statistically suppressed (p>0.05, fold change >-2) in metastasized tissue and represented within the Interferome as Interferon regulated genes where probes could be unambiguously mapped to Ensembl v59 gene identifiers. Nature Medicine doi: /nm.2830
16 Supplementary Table 3 Gene Fold change P value Irf Stat Irf Stat Suppression of Irf7 in bone metastases is accompanied by decreased expression of the ISGF3 complex. Fold change represents decreased expression (as measured by Affymetrix microarray signal) in tumor cells purified from bone metastases compared to matched primary tumors (n=4). Nature Medicine doi: /nm.2830
17 Supplementary Table 4 Normal Breast Primary Tumor Distant Metastases IRF7 positive IRF7 negative Total IRF7 expression in normal human breast, primary tumors and distant metastases. Archived, paraffin embedded sections of normal breast, primary breast tumors and matched metastases (including 7 bone metastases) were evaluated for IRF7 expression using immunohistochemistry. There was a significant reduction in IRF7 expression in metastases compared to the primary tumor (Fisher s exact test, p<0.04). Nature Medicine doi: /nm.2830
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