#################################################### #This is the Cancer-frequency.NA file. #Commented lines (#) must be deleted before use. #You must change the extension from .txt to .NA before importing with Cytoscape. #This file attributes Cancers (nodes) with their frequency. ####################Save this part in file and convert 54,4% to 0.54############################## Cancer Altered of cases Serous Ovarian Cancer (TCGA) 54,40% Bladder Urothelial Carcinoma (TCGA, Provisional) 44,70% Lung Squamous Cell Carcinoma (TCGA, Provisional) 41,60% Cervical Squamous Cell Carcinoma (TCGA, Provisional) 36,10% Colon and Rectum Adenocarcinoma (TCGA, Provisional 35,80% Breast Invasive Carcinoma (TCGA, Provisional) 31,90% Lung Adenocarcinoma (TCGA, Provisional) 29,00% Head and Neck Squamous Cell Carcinoma (TCGA, Provisional) 26,70% Stomach Adenocarcinoma (TCGA, Provisional) 26,50% Sarcoma (MSKCC/Broad) 24,80% Liver Hepatocellular Carcinoma (TCGA, Provisional) 20,80% Brain Lower Grade Glioma (TCGA, Provisional) 12,50% Prostate Adenocarcinoma (TCGA, Provisional) 12,20% Uterine Corpus Endometrioid Carcinoma (TCGA, Provisional) 10,80% Prostate Cancer (MSKCC) 8,20% Glioblastoma (TCGA) 7,40% Kidney Renal Clear Cell Carcinoma (TCGA, Provisional) 7,30% Pancreatic Adenocarcinoma (TCGA, Provisional) 7,10% Kidney Renal Papillary Cell Carcinoma (TCGA, Provisional) 7,00% Thyroid Carcinoma (TCGA, Provisional) . 2,40% ###########The following part exist yet in correlation+Cancer.txt file########################### ###########Save this part in an other file and convert comma to point############################ #This is the second part of the correlation+Cancer.txt file . #Commented lines (#) must be deleted before use. #You must change the extension from .txt to .EA before importing with Cytoscape. #This file attributes values to interactions (Edges). Thers is two types of interactions: gene-#gene and gene-cancer. #This part existe in the correlation+Cancer.txt file ##################################### Serous Ovarian Cancer (TCGA)/All Complete Tumors: (316) PERCENT_CASES_ALTERED Ovarian_C (class=java.lang.Double) TF +%28pp%29+ Ovarian_C = 0,92 PPBP +%28pp%29+ Ovarian_C = 0,91 CFHR2 +%28pp%29+ Ovarian_C = 0,896 CRP +%28pp%29+ Ovarian_C = 0,886 CFHR1 +%28pp%29+ Ovarian_C = 0,883 RBP4 +%28pp%29+ Ovarian_C = 0,877 PRAP1 +%28pp%29+ Ovarian_C = 0,858 ADH4 +%28pp%29+ Ovarian_C = 0,832 LGALS3BP +%28pp%29+ Ovarian_C = 0,829 COMP +%28pp%29+ Ovarian_C = 0,797 YWHAZ +%28pp%29+ Ovarian_C = 0,491 TFRC +%28pp%29+ Ovarian_C = 0,326 TPM4 +%28pp%29+ Ovarian_C = 0,253 VCP +%28pp%29+ Ovarian_C = 0,168 S100A8 +%28pp%29+ Ovarian_C = 0,161 HSPG2 +%28pp%29+ Ovarian_C = 0,155 PZP +%28pp%29+ Ovarian_C = 0,149 ACTB +%28pp%29+ Ovarian_C = 0,142 RAP1A +%28pp%29+ Ovarian_C = 0,142 BPIFB1 +%28pp%29+ Ovarian_C = 0,092 ACTN1 +%28pp%29+ Ovarian_C = 0,085 GC +%28pp%29+ Ovarian_C = 0,063 ORM2 +%28pp%29+ Ovarian_C = 0,063 KLKB1 +%28pp%29+ Ovarian_C = 0,057 ITIH3 +%28pp%29+ Ovarian_C = 0,051 HBA1 +%28pp%29+ Ovarian_C = 0 IGHD +%28pp%29+ Ovarian_C = 0 GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 178 samples Lunch.Sq_C (class=java.lang.Double) ADH4 +%28pp%29+ Lunch.Sq_C = 0,989 CFHR2 +%28pp%29+ Lunch.Sq_C = 0,983 PPBP +%28pp%29+ Lunch.Sq_C = 0,983 PRAP1 +%28pp%29+ Lunch.Sq_C = 0,983 CRP +%28pp%29+ Lunch.Sq_C = 0,966 HBA1 +%28pp%29+ Lunch.Sq_C = 0,961 TF +%28pp%29+ Lunch.Sq_C = 0,938 COMP +%28pp%29+ Lunch.Sq_C = 0,921 RBP4 +%28pp%29+ Lunch.Sq_C = 0,921 CFHR1 +%28pp%29+ Lunch.Sq_C = 0,854 LGALS3BP +%28pp%29+ Lunch.Sq_C = 0,803 TFRC +%28pp%29+ Lunch.Sq_C = 0,612 ACTB +%28pp%29+ Lunch.Sq_C = 0,264 YWHAZ +%28pp%29+ Lunch.Sq_C = 0,242 VCP +%28pp%29+ Lunch.Sq_C = 0,23 TPM4 +%28pp%29+ Lunch.Sq_C = 0,146 ACTN1 +%28pp%29+ Lunch.Sq_C = 0,135 RAP1A +%28pp%29+ Lunch.Sq_C = 0,129 ORM2 +%28pp%29+ Lunch.Sq_C = 0,101 PZP +%28pp%29+ Lunch.Sq_C = 0,101 KLKB1 +%28pp%29+ Lunch.Sq_C = 0,096 HSPG2 +%28pp%29+ Lunch.Sq_C = 0,09 ITIH3 +%28pp%29+ Lunch.Sq_C = 0,084 S100A8 +%28pp%29+ Lunch.Sq_C = 0,073 BPIFB1 +%28pp%29+ Lunch.Sq_C = 0,056 GC +%28pp%29+ Lunch.Sq_C = 0,034 IGHD +%28pp%29+ Lunch.Sq_C = 0 GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 193 samples Colon_C (class=java.lang.Double) CRP +%28pp%29+ Colon_C = 0,995 PPBP +%28pp%29+ Colon_C = 0,984 TF +%28pp%29+ Colon_C = 0,948 CFHR1 +%28pp%29+ Colon_C = 0,933 COMP +%28pp%29+ Colon_C = 0,933 ADH4 +%28pp%29+ Colon_C = 0,912 HBA1 +%28pp%29+ Colon_C = 0,896 RBP4 +%28pp%29+ Colon_C = 0,886 PRAP1 +%28pp%29+ Colon_C = 0,881 LGALS3BP +%28pp%29+ Colon_C = 0,86 YWHAZ +%28pp%29+ Colon_C = 0,326 TFRC +%28pp%29+ Colon_C = 0,192 VCP +%28pp%29+ Colon_C = 0,187 TPM4 +%28pp%29+ Colon_C = 0,166 RAP1A +%28pp%29+ Colon_C = 0,145 HSPG2 +%28pp%29+ Colon_C = 0,119 ACTN1 +%28pp%29+ Colon_C = 0,109 ACTB +%28pp%29+ Colon_C = 0,088 KLKB1 +%28pp%29+ Colon_C = 0,083 PZP +%28pp%29+ Colon_C = 0,078 ITIH3 +%28pp%29+ Colon_C = 0,067 ORM2 +%28pp%29+ Colon_C = 0,052 S100A8 +%28pp%29+ Colon_C = 0,052 BPIFB1 +%28pp%29+ Colon_C = 0,031 GC +%28pp%29+ Colon_C = 0,031 CFHR2 +%28pp%29+ Colon_C = 0 IGHD +%28pp%29+ Colon_C = 0 GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 320 samples Breast_C (class=java.lang.Double) CFHR2 +%28pp%29+ Breast_C = 0,991 PPBP +%28pp%29+ Breast_C = 0,978 TF +%28pp%29+ Breast_C = 0,969 ADH4 +%28pp%29+ Breast_C = 0,962 PRAP1 +%28pp%29+ Breast_C = 0,941 HBA1 +%28pp%29+ Breast_C = 0,925 CRP +%28pp%29+ Breast_C = 0,919 RBP4 +%28pp%29+ Breast_C = 0,919 COMP +%28pp%29+ Breast_C = 0,903 CFHR1 +%28pp%29+ Breast_C = 0,862 LGALS3BP +%28pp%29+ Breast_C = 0,781 YWHAZ +%28pp%29+ Breast_C = 0,441 ACTB +%28pp%29+ Breast_C = 0,194 TFRC +%28pp%29+ Breast_C = 0,194 TPM4 +%28pp%29+ Breast_C = 0,159 VCP +%28pp%29+ Breast_C = 0,159 ACTN1 +%28pp%29+ Breast_C = 0,141 HSPG2 +%28pp%29+ Breast_C = 0,131 RAP1A +%28pp%29+ Breast_C = 0,122 KLKB1 +%28pp%29+ Breast_C = 0,094 PZP +%28pp%29+ Breast_C = 0,084 S100A8 +%28pp%29+ Breast_C = 0,072 ITIH3 +%28pp%29+ Breast_C = 0,056 BPIFB1 +%28pp%29+ Breast_C = 0,053 ORM2 +%28pp%29+ Breast_C = 0,022 GC +%28pp%29+ Breast_C = 0 IGHD +%28pp%29+ Breast_C = 0 GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 85 samples Prostate_C (class=java.lang.Double) LGALS3BP +%28pp%29+ Prostate_C = 0,953 RBP4 +%28pp%29+ Prostate_C = 0,929 TF +%28pp%29+ Prostate_C = 0,929 COMP +%28pp%29+ Prostate_C = 0,882 CFHR1 +%28pp%29+ Prostate_C = 0,871 ADH4 +%28pp%29+ Prostate_C = 0,859 CRP +%28pp%29+ Prostate_C = 0,776 HBA1 +%28pp%29+ Prostate_C = 0,776 PRAP1 +%28pp%29+ Prostate_C = 0,776 PPBP +%28pp%29+ Prostate_C = 0,765 CFHR2 +%28pp%29+ Prostate_C = 0,624 S100A8 +%28pp%29+ Prostate_C = 0,271 TFRC +%28pp%29+ Prostate_C = 0,271 GC +%28pp%29+ Prostate_C = 0,259 BPIFB1 +%28pp%29+ Prostate_C = 0,247 ITIH3 +%28pp%29+ Prostate_C = 0,235 YWHAZ +%28pp%29+ Prostate_C = 0,188 KLKB1 +%28pp%29+ Prostate_C = 0,153 PZP +%28pp%29+ Prostate_C = 0,141 VCP +%28pp%29+ Prostate_C = 0,141 ORM2 +%28pp%29+ Prostate_C = 0,106 RAP1A +%28pp%29+ Prostate_C = 0,071 TPM4 +%28pp%29+ Prostate_C = 0,071 ACTB +%28pp%29+ Prostate_C = 0,035 ACTN1 +%28pp%29+ Prostate_C = 0 HSPG2 +%28pp%29+ Prostate_C = 0 IGHD +%28pp%29+ Prostate_C = 0 GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 122 samples Glioblastoma_C (class=java.lang.Double) CFHR2 +%28pp%29+ Glioblastoma_C = 0,934 ADH4 +%28pp%29+ Glioblastoma_C = 0,877 CFHR1 +%28pp%29+ Glioblastoma_C = 0,861 RBP4 +%28pp%29+ Glioblastoma_C = 0,861 CRP +%28pp%29+ Glioblastoma_C = 0,852 PPBP +%28pp%29+ Glioblastoma_C = 0,836 TF +%28pp%29+ Glioblastoma_C = 0,82 COMP +%28pp%29+ Glioblastoma_C = 0,795 PRAP1 +%28pp%29+ Glioblastoma_C = 0,787 LGALS3BP +%28pp%29+ Glioblastoma_C = 0,738 TPM4 +%28pp%29+ Glioblastoma_C = 0,361 HSPG2 +%28pp%29+ Glioblastoma_C = 0,18 ITIH3 +%28pp%29+ Glioblastoma_C = 0,164 S100A8 +%28pp%29+ Glioblastoma_C = 0,164 VCP +%28pp%29+ Glioblastoma_C = 0,164 KLKB1 +%28pp%29+ Glioblastoma_C = 0,156 ACTN1 +%28pp%29+ Glioblastoma_C = 0,148 PZP +%28pp%29+ Glioblastoma_C = 0,139 BPIFB1 +%28pp%29+ Glioblastoma_C = 0,131 ACTB +%28pp%29+ Glioblastoma_C = 0,082 TFRC +%28pp%29+ Glioblastoma_C = 0,066 YWHAZ +%28pp%29+ Glioblastoma_C = 0,066 ORM2 +%28pp%29+ Glioblastoma_C = 0,057 RAP1A +%28pp%29+ Glioblastoma_C = 0,041 GC +%28pp%29+ Glioblastoma_C = 0,025 HBA1 +%28pp%29+ Glioblastoma_C = 0 IGHD +%28pp%29+ Glioblastoma_C = 0 Kidney Renal Clear Cell Carcinoma (TCGA, Provisional) GENE_SYMBOL NUM_CASES_ALTERED PERCENT_CASES_ALTERED 368 samples Kidney_C (class=java.lang.Double) ADH4 +%28pp%29+ Kidney_C = 0,997 CFHR2 +%28pp%29+ Kidney_C = 0,984 CRP +%28pp%29+ Kidney_C = 0,978 TF +%28pp%29+ Kidney_C = 0,973 PPBP +%28pp%29+ Kidney_C = 0,962 COMP +%28pp%29+ Kidney_C = 0,94 HBA1 +%28pp%29+ Kidney_C = 0,938 RBP4 +%28pp%29+ Kidney_C = 0,921 PRAP1 +%28pp%29+ Kidney_C = 0,908 CFHR1 +%28pp%29+ Kidney_C = 0,87 LGALS3BP +%28pp%29+ Kidney_C = 0,818 ACTB +%28pp%29+ Kidney_C = 0,16 TFRC +%28pp%29+ Kidney_C = 0,158 TPM4 +%28pp%29+ Kidney_C = 0,152 ACTN1 +%28pp%29+ Kidney_C = 0,147 YWHAZ +%28pp%29+ Kidney_C = 0,147 VCP +%28pp%29+ Kidney_C = 0,13 ITIH3 +%28pp%29+ Kidney_C = 0,12 BPIFB1 +%28pp%29+ Kidney_C = 0,114 HSPG2 +%28pp%29+ Kidney_C = 0,109 KLKB1 +%28pp%29+ Kidney_C = 0,101 PZP +%28pp%29+ Kidney_C = 0,084 RAP1A +%28pp%29+ Kidney_C = 0,082 S100A8 +%28pp%29+ Kidney_C = 0,049 GC +%28pp%29+ Kidney_C = 0,041 ORM2 +%28pp%29+ Kidney_C = 0,014 IGHD +%28pp%29+ Kidney_C = 0