
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/ClinicalAnalysisAllGenes_new.13.3873/ClinicalAnalysisAllGenes.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/ClinicalAnalysisAllGenes_new.13.3873/", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/PANCAN12-TP/2664952/0.GDAC_mRNA_Preprocess_Median.Finished/PANCAN12-TP.medianexp.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/PANCAN12-TP/2589031/1.GDAC_clinicalDataPicker.Finished/PANCAN12-TP.clin.merged.picked.txt", "-fV=ALL", "-fG=", "-fS=", "-fF=ALL", "-OT=", "-iX=")
[1] "ok3"

nSamples in clinical file=4889, in expression file=1604, common to both=1596
Number of genes in original expression dataset=17814
[1] "ALL"
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                                      
 [2] "DAYSTODEATH"                                       
 [3] "DAYSTOLASTFOLLOWUP"                                
 [4] "VITALSTATUS"                                       
 [5] "DCCUPLOADDATE"                                     
 [6] "PRIMARYSITEOFDESEASE"                              
 [7] "GENDER"                                            
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"                  
 [9] "DAYSTOLASTKNOWNALIVE"                              
[10] "RADIATIONTHERAPY"                                  
[11] "KARNOFSKYPERFORMANCESCORE"                         
[12] "EXAMINATIONS.EXAMINATION.KARNOFSKYPERFORMANCESCORE"
[13] "HISTOLOGICALTYPE"                                  
[14] "TUMORGRADE"                                        
[15] "PATHOLOGICSPREAD(PT)"                              
[16] "PATHOLOGICSPREAD(PN)"                              
[17] "PATHOLOGICSPREAD(M)"                               
[18] "TUMORSTAGE"                                        
[19] "PATIENTTUMORRECURRENCESTATUS"                      
[20] "DAYSTOTUMORRECURRENCE"                             
[21] "CHEMOTHERAPY"                                      
[22] "RADIATIONS.RADIATION.REGIMENINDICATION"            
[23] "NUMBERPACKYEARSSMOKED"                             
[24] "STOPPEDSMOKINGYEAR"                                
[25] "TOBACCOSMOKINGHISTORYINDICATOR"                    
[26] "YEAROFTOBACCOSMOKINGONSET"                         
[27] "DISTANT.METASTASIS"                                
[28] "LYMPH.NODE.METASTASIS"                             
[29] "COMPLETENESS.OF.RESECTION"                         
[30] "NUMBER.OF.LYMPH.NODES"                             
[31] "TUMOR.STAGECODE"                                   
[32] "NEOPLASM.DISEASESTAGE"                             
[33] "BATCHNUMBER"                                       

Input Data has 33 rows and 1596 columns.

[1] "Batch" "33"   
[1] "Last Follow UP"
TCGA-A1-A0SD TCGA-A1-A0SE TCGA-A1-A0SH TCGA-A1-A0SJ TCGA-A1-A0SK TCGA-A1-A0SM 
         437         1320         1437          426           NA          242 
TCGA-A1-A0SO TCGA-A1-A0SP TCGA-A2-A04N TCGA-A2-A04P TCGA-A2-A04Q TCGA-A2-A04R 
         852          583         3153           NA         1275         2364 
TCGA-A2-A04T TCGA-A2-A04U TCGA-A2-A04V TCGA-A2-A04W TCGA-A2-A04X TCGA-A2-A04Y 
        1950          670           NA         1918         1349          763 
TCGA-A2-A0CL TCGA-A2-A0CM TCGA-A2-A0CP TCGA-A2-A0CQ TCGA-A2-A0CS TCGA-A2-A0CT 
        1827           NA         2495         2392         2298         1917 
TCGA-A2-A0CU TCGA-A2-A0CV TCGA-A2-A0CW TCGA-A2-A0CX TCGA-A2-A0CY TCGA-A2-A0CZ 
          NA         1870         1750         1303         1288         1338 
TCGA-A2-A0D0 TCGA-A2-A0D1 TCGA-A2-A0D2 TCGA-A2-A0D3 TCGA-A2-A0D4 TCGA-A2-A0EM 
         643          786          761          736          496         2757 
TCGA-A2-A0EN TCGA-A2-A0EO TCGA-A2-A0EQ TCGA-A2-A0ER TCGA-A2-A0ES TCGA-A2-A0ET 
        2515         2181         2053         1902         1001          807 
TCGA-A2-A0EU TCGA-A2-A0EV TCGA-A2-A0EW TCGA-A2-A0EX TCGA-A2-A0EY TCGA-A2-A0ST 
         733          545          770          549          485         1643 
TCGA-A2-A0SU TCGA-A2-A0SV TCGA-A2-A0SW TCGA-A2-A0SX TCGA-A2-A0SY TCGA-A2-A0T0 
        1351           NA           NA         1288         1154          337 
TCGA-A2-A0T1 TCGA-A2-A0T2 TCGA-A2-A0T3 TCGA-A2-A0T4 TCGA-A2-A0T5 TCGA-A2-A0T6 
         322           NA          456          395          321          344 
TCGA-A2-A0T7 TCGA-A2-A0YC TCGA-A2-A0YD TCGA-A2-A0YE TCGA-A2-A0YF TCGA-A2-A0YG 
         397          643          550          252          289          404 
TCGA-A2-A0YH TCGA-A2-A0YI TCGA-A2-A0YJ TCGA-A2-A0YK TCGA-A2-A0YL TCGA-A2-A0YM 
         379          358          326          334          268          661 
TCGA-A2-A0YT TCGA-A7-A0CD TCGA-A7-A0CE TCGA-A7-A0CG TCGA-A7-A0CH TCGA-A7-A0CJ 
          NA          170          253          166          161          188 
TCGA-A7-A0D9 TCGA-A7-A0DA TCGA-A7-A0DB TCGA-A7-A13D TCGA-A7-A13E TCGA-A7-A13F 
         159          373          140          267          287          196 
TCGA-A8-A06N TCGA-A8-A06O TCGA-A8-A06P TCGA-A8-A06Q TCGA-A8-A06R TCGA-A8-A06T 
          NA          396          396           31          546         1249 
TCGA-A8-A06U TCGA-A8-A06X TCGA-A8-A06Y TCGA-A8-A06Z TCGA-A8-A075 TCGA-A8-A076 
          NA           NA          791           31          517         1641 
TCGA-A8-A079 TCGA-A8-A07B TCGA-A8-A07C TCGA-A8-A07E TCGA-A8-A07F TCGA-A8-A07G 
         274         1004          580          608          576          576 
TCGA-A8-A07I TCGA-A8-A07J TCGA-A8-A07L TCGA-A8-A07O TCGA-A8-A07P TCGA-A8-A07R 
         426          365          517          304          334          273 
TCGA-A8-A07S TCGA-A8-A07U TCGA-A8-A07W TCGA-A8-A07Z TCGA-A8-A081 TCGA-A8-A082 
         242          303          304          853           NA          549 
TCGA-A8-A083 TCGA-A8-A084 TCGA-A8-A085 TCGA-A8-A086 TCGA-A8-A08A TCGA-A8-A08B 
          NA          458         1124          396           30          702 
TCGA-A8-A08C TCGA-A8-A08F TCGA-A8-A08G TCGA-A8-A08H TCGA-A8-A08I TCGA-A8-A08J 
         607          549          606           NA          365           NA 
TCGA-A8-A08L TCGA-A8-A08O TCGA-A8-A08P TCGA-A8-A08R TCGA-A8-A08S TCGA-A8-A08T 
          NA          942          942           30          580         2830 
TCGA-A8-A08X TCGA-A8-A08Z TCGA-A8-A090 TCGA-A8-A091 TCGA-A8-A092 TCGA-A8-A093 
        1034         1217           NA          580          518          545 
TCGA-A8-A094 TCGA-A8-A095 TCGA-A8-A096 TCGA-A8-A097 TCGA-A8-A099 TCGA-A8-A09A 
          NA         1276           NA          365          304          304 
TCGA-A8-A09B TCGA-A8-A09C TCGA-A8-A09D TCGA-A8-A09E TCGA-A8-A09G TCGA-A8-A09I 
         365           31          396          942           NA         1006 
TCGA-A8-A09K TCGA-A8-A09M TCGA-A8-A09N TCGA-A8-A09Q TCGA-A8-A09R TCGA-A8-A09T 
         911          457           31          761          273          578 
TCGA-A8-A09V TCGA-A8-A09W TCGA-A8-A09X TCGA-A8-A09Z TCGA-A8-A0A1 TCGA-A8-A0A2 
         457           30           NA           NA          365          578 
TCGA-A8-A0A4 TCGA-A8-A0A6 TCGA-A8-A0A7 TCGA-A8-A0A9 TCGA-A8-A0AB TCGA-A8-A0AD 
         396          640           30          396          517         1157 
TCGA-AN-A03X TCGA-AN-A03Y TCGA-AN-A041 TCGA-AN-A046 TCGA-AN-A049 TCGA-AN-A04A 
          10           10            7           10           19           89 
TCGA-AN-A04C TCGA-AN-A04D TCGA-AN-A0AJ TCGA-AN-A0AK TCGA-AN-A0AL TCGA-AN-A0AM 
          54           52          243          223          197            5 
TCGA-AN-A0AR TCGA-AN-A0AS TCGA-AN-A0AT TCGA-AN-A0FD TCGA-AN-A0FF TCGA-AN-A0FJ 
           9            9           10          195          140          241 
TCGA-AN-A0FK TCGA-AN-A0FL TCGA-AN-A0FN TCGA-AN-A0FS TCGA-AN-A0FT TCGA-AN-A0FV 
         212          230          218          191          183           10 
TCGA-AN-A0FW TCGA-AN-A0FX TCGA-AN-A0FY TCGA-AN-A0FZ TCGA-AN-A0G0 TCGA-AN-A0XL 
          11           10           10           10           16           10 
TCGA-AN-A0XN TCGA-AN-A0XO TCGA-AN-A0XP TCGA-AN-A0XR TCGA-AN-A0XS TCGA-AN-A0XT 
          10          375            9           10           10           10 
TCGA-AN-A0XU TCGA-AN-A0XV TCGA-AN-A0XW TCGA-AO-A03L TCGA-AO-A03M TCGA-AO-A03N 
          10          162          170         2442         1455         1645 
TCGA-AO-A03O TCGA-AO-A03P TCGA-AO-A03R TCGA-AO-A03T TCGA-AO-A03U TCGA-AO-A03V 
          NA         2576         1707         1187           NA          886 
TCGA-AO-A0J2 TCGA-AO-A0J3 TCGA-AO-A0J4 TCGA-AO-A0J5 TCGA-AO-A0J6 TCGA-AO-A0J7 
         585          302          294          735          775          260 
TCGA-AO-A0J8 TCGA-AO-A0J9 TCGA-AO-A0JA TCGA-AO-A0JB TCGA-AO-A0JC TCGA-AO-A0JD 
         277         1255          346         1150         1547         1813 
TCGA-AO-A0JE TCGA-AO-A0JF TCGA-AO-A0JG TCGA-AO-A0JI TCGA-AO-A0JJ TCGA-AO-A0JL 
        1965          354          449         1172         1512         1319 
TCGA-AO-A0JM TCGA-AO-A124 TCGA-AO-A125 TCGA-AO-A126 TCGA-AO-A128 TCGA-AO-A129 
        1826         3119         3018         2850         2877         2923 
TCGA-AO-A12A TCGA-AO-A12B TCGA-AO-A12C TCGA-AO-A12D TCGA-AO-A12E TCGA-AO-A12F 
        2754         2359         1993         1948         1742         1471 
TCGA-AO-A12G TCGA-AO-A12H TCGA-AQ-A04H TCGA-AQ-A04J TCGA-AQ-A04L TCGA-AR-A0TP 
        1265          862          439          159         3344         2392 
TCGA-AR-A0TQ TCGA-AR-A0TR TCGA-AR-A0TS TCGA-AR-A0TT TCGA-AR-A0TU TCGA-AR-A0TV 
        1500           NA         1138         1679          360          904 
TCGA-AR-A0TW TCGA-AR-A0TX TCGA-AR-A0TY TCGA-AR-A0TZ TCGA-AR-A0U0 TCGA-AR-A0U1 
         739           15           NA         1313            8          185 
TCGA-AR-A0U2 TCGA-AR-A0U3 TCGA-AR-A0U4 TCGA-AR-A1AH TCGA-AR-A1AI TCGA-AR-A1AJ 
          NA         2263         1627         2298         1881         1604 
TCGA-AR-A1AK TCGA-AR-A1AL TCGA-AR-A1AN TCGA-AR-A1AO TCGA-AR-A1AP TCGA-AR-A1AQ 
        1558         1485         1329         1324         1215         1309 
TCGA-AR-A1AR TCGA-AR-A1AS TCGA-AR-A1AT TCGA-AR-A1AU TCGA-AR-A1AV TCGA-AR-A1AW 
          NA         1242           NA         1409         1295         1072 
TCGA-AR-A1AX TCGA-AR-A1AY TCGA-B6-A0I2 TCGA-B6-A0I5 TCGA-B6-A0I6 TCGA-B6-A0I8 
        1103          614         3826         4549           NA           NA 
TCGA-B6-A0I9 TCGA-B6-A0IA TCGA-B6-A0IB TCGA-B6-A0IC TCGA-B6-A0IE TCGA-B6-A0IG 
          NA         6718           NA           NA           NA           NA 
TCGA-B6-A0IH TCGA-B6-A0IJ TCGA-B6-A0IK TCGA-B6-A0IM TCGA-B6-A0IN TCGA-B6-A0IO 
          NA         5383           NA         3836           NA         3350 
TCGA-B6-A0IP TCGA-B6-A0IQ TCGA-B6-A0RE TCGA-B6-A0RG TCGA-B6-A0RH TCGA-B6-A0RI 
        3374         3871         6434         2082         5748         6795 
TCGA-B6-A0RL TCGA-B6-A0RM TCGA-B6-A0RN TCGA-B6-A0RO TCGA-B6-A0RP TCGA-B6-A0RQ 
          NA           NA         5261         4928           NA           NA 
TCGA-B6-A0RS TCGA-B6-A0RT TCGA-B6-A0RU TCGA-B6-A0RV TCGA-B6-A0WS TCGA-B6-A0WT 
          NA         2721         3991         4788           NA         5396 
TCGA-B6-A0WV TCGA-B6-A0WW TCGA-B6-A0WX TCGA-B6-A0WY TCGA-B6-A0WZ TCGA-B6-A0X0 
          NA          546           NA           NA         3941           NA 
TCGA-B6-A0X1 TCGA-B6-A0X4 TCGA-B6-A0X5 TCGA-B6-A0X7 TCGA-BH-A0AU TCGA-BH-A0AV 
        5671           NA           NA           NA          746         1180 
TCGA-BH-A0AW TCGA-BH-A0AY TCGA-BH-A0AZ TCGA-BH-A0B0 TCGA-BH-A0B1 TCGA-BH-A0B3 
         622          777          867         1427         1148         1203 
TCGA-BH-A0B4 TCGA-BH-A0B5 TCGA-BH-A0B7 TCGA-BH-A0B8 TCGA-BH-A0B9 TCGA-BH-A0BA 
        1191         1471         1733         1569         1572         1132 
TCGA-BH-A0BC TCGA-BH-A0BD TCGA-BH-A0BF TCGA-BH-A0BG TCGA-BH-A0BJ TCGA-BH-A0BL 
         974          554          781          756          660         1339 
TCGA-BH-A0BM TCGA-BH-A0BO TCGA-BH-A0BP TCGA-BH-A0BQ TCGA-BH-A0BR TCGA-BH-A0BS 
        1117         1085         1481          826         1632         1640 
TCGA-BH-A0BT TCGA-BH-A0BV TCGA-BH-A0BW TCGA-BH-A0BZ TCGA-BH-A0C0 TCGA-BH-A0C1 
        1386         1519          355         1492         1270         1338 
TCGA-BH-A0C3 TCGA-BH-A0C7 TCGA-BH-A0DD TCGA-BH-A0DE TCGA-BH-A0DG TCGA-BH-A0DH 
        1464         1305         1393          948          713         1156 
TCGA-BH-A0DI TCGA-BH-A0DK TCGA-BH-A0DL TCGA-BH-A0DO TCGA-BH-A0DP TCGA-BH-A0DQ 
         673          423         1467          525          476           98 
TCGA-BH-A0DS TCGA-BH-A0DT TCGA-BH-A0DX TCGA-BH-A0DZ TCGA-BH-A0E0 TCGA-BH-A0E1 
          77         1170         1442          495          133          477 
TCGA-BH-A0E2 TCGA-BH-A0E6 TCGA-BH-A0E7 TCGA-BH-A0E9 TCGA-BH-A0EA TCGA-BH-A0EB 
         376          292         1362         1405           NA          745 
TCGA-BH-A0EE TCGA-BH-A0EI TCGA-BH-A0GY TCGA-BH-A0GZ TCGA-BH-A0H0 TCGA-BH-A0H3 
         943          743          917          328          461         1149 
TCGA-BH-A0H5 TCGA-BH-A0H6 TCGA-BH-A0H7 TCGA-BH-A0H9 TCGA-BH-A0HA TCGA-BH-A0HB 
        1080          747          701         1247          856          806 
TCGA-BH-A0HF TCGA-BH-A0HI TCGA-BH-A0HK TCGA-BH-A0HO TCGA-BH-A0HP TCGA-BH-A0HQ 
         727          619          178           76          414         1121 
TCGA-BH-A0HU TCGA-BH-A0HW TCGA-BH-A0HX TCGA-BH-A0HY TCGA-BH-A0RX TCGA-BH-A0W3 
         392         1560          829          867          170          180 
TCGA-BH-A0W4 TCGA-BH-A0W5 TCGA-BH-A0W7 TCGA-BH-A0WA TCGA-BH-A18F TCGA-BH-A18G 
         175          543          558          372          268           61 
TCGA-BH-A18H TCGA-BH-A18I TCGA-BH-A18J TCGA-BH-A18K TCGA-BH-A18L TCGA-BH-A18M 
          NA          220           NA           NA           NA           NA 
TCGA-BH-A18N TCGA-BH-A18P TCGA-BH-A18Q TCGA-BH-A18R TCGA-BH-A18S TCGA-BH-A18T 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A18U TCGA-BH-A18V TCGA-BH-A1EO TCGA-BH-A1ES TCGA-BH-A1ET TCGA-BH-A1EU 
          NA           NA           NA           NA           NA           NA 
TCGA-BH-A1EV TCGA-BH-A1EW TCGA-BH-A1F0 TCGA-C8-A12K TCGA-C8-A12L TCGA-C8-A12M 
          NA           NA           NA           NA           NA           NA 
TCGA-C8-A12N TCGA-C8-A12O TCGA-C8-A12P TCGA-C8-A12Q TCGA-C8-A12T TCGA-C8-A12U 
          NA           NA           NA           NA           NA           NA 
TCGA-C8-A12V TCGA-C8-A12W TCGA-C8-A12X TCGA-C8-A12Y TCGA-C8-A12Z TCGA-C8-A130 
          NA           NA           NA           NA           NA           NA 
TCGA-C8-A131 TCGA-C8-A132 TCGA-C8-A133 TCGA-C8-A134 TCGA-C8-A135 TCGA-C8-A137 
          NA           NA           NA           NA           NA            3 
TCGA-C8-A138 TCGA-C8-A1HF TCGA-C8-A1HG TCGA-C8-A1HI TCGA-C8-A1HL TCGA-C8-A1HM 
           7           NA           NA            2            2            6 
TCGA-C8-A1HN TCGA-D8-A13Y TCGA-D8-A13Z TCGA-D8-A140 TCGA-D8-A141 TCGA-D8-A142 
           2          264          210           27          113           61 
TCGA-D8-A143 TCGA-D8-A145 TCGA-D8-A146 TCGA-D8-A147 TCGA-E2-A105 TCGA-E2-A106 
         172           49          344            2         1163         1555 
TCGA-E2-A107 TCGA-E2-A108 TCGA-E2-A109 TCGA-E2-A10A TCGA-E2-A10B TCGA-E2-A10C 
         763          124         1172          352          748          853 
TCGA-E2-A10E TCGA-E2-A10F TCGA-E2-A14N TCGA-E2-A14O TCGA-E2-A14P TCGA-E2-A14Q 
         418          360         1350         1172          487          974 
TCGA-E2-A14R TCGA-E2-A14S TCGA-E2-A14T TCGA-E2-A14V TCGA-E2-A14W TCGA-E2-A14X 
         845          834          890          748          833          692 
TCGA-E2-A14Y TCGA-E2-A14Z TCGA-E2-A150 TCGA-E2-A152 TCGA-E2-A153 TCGA-E2-A154 
         688          518          591          588          586          325 
TCGA-E2-A155 TCGA-E2-A156 TCGA-E2-A158 TCGA-E2-A159 TCGA-E2-A15A TCGA-E2-A15C 
         553          481          450          515          502          496 
TCGA-E2-A15D TCGA-E2-A15E TCGA-E2-A15F TCGA-E2-A15G TCGA-E2-A15H TCGA-E2-A15I 
         315          517          468          315           42          411 
TCGA-E2-A15J TCGA-E2-A15K TCGA-E2-A15L TCGA-E2-A15M TCGA-E2-A15O TCGA-E2-A15P 
         463           34          331          234          395          315 
TCGA-E2-A15R TCGA-E2-A15S TCGA-E2-A15T TCGA-E2-A1AZ TCGA-E2-A1B0 TCGA-E2-A1B1 
         330          274          267         1964         1271         1361 
TCGA-E2-A1B4 TCGA-E2-A1B5 TCGA-E2-A1B6 TCGA-E2-A1BC TCGA-E2-A1BD TCGA-A6-2670 
         911          774          338          297          317          423 
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2683 
         503          523          447          541          437          472 
TCGA-A6-3807 TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 TCGA-AA-3514 TCGA-AA-3516 
         332          278          313          246           NA           NA 
TCGA-AA-3517 TCGA-AA-3518 TCGA-AA-3519 TCGA-AA-3520 TCGA-AA-3521 TCGA-AA-3522 
          NA           31           NA           NA           NA           NA 
TCGA-AA-3524 TCGA-AA-3525 TCGA-AA-3526 TCGA-AA-3527 TCGA-AA-3529 TCGA-AA-3530 
          NA           NA           30           NA           NA           NA 
TCGA-AA-3531 TCGA-AA-3532 TCGA-AA-3534 TCGA-AA-3538 TCGA-AA-3542 TCGA-AA-3543 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3544 TCGA-AA-3548 TCGA-AA-3549 TCGA-AA-3552 TCGA-AA-3553 TCGA-AA-3554 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3555 TCGA-AA-3556 TCGA-AA-3558 TCGA-AA-3560 TCGA-AA-3561 TCGA-AA-3562 
          30           NA           NA           NA           NA           31 
TCGA-AA-3664 TCGA-AA-3666 TCGA-AA-3667 TCGA-AA-3672 TCGA-AA-3673 TCGA-AA-3675 
          NA           31           NA           NA           NA           31 
TCGA-AA-3678 TCGA-AA-3679 TCGA-AA-3680 TCGA-AA-3681 TCGA-AA-3684 TCGA-AA-3685 
          NA           30           NA           NA           NA           30 
TCGA-AA-3688 TCGA-AA-3692 TCGA-AA-3693 TCGA-AA-3695 TCGA-AA-3696 TCGA-AA-3710 
          NA           NA           NA           NA           NA           31 
TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3812 TCGA-AA-3814 TCGA-AA-3815 TCGA-AA-3818 
          30           30           NA           NA           NA           NA 
TCGA-AA-3819 TCGA-AA-3821 TCGA-AA-3831 TCGA-AA-3833 TCGA-AA-3837 TCGA-AA-3841 
          NA           NA           NA           NA           31           NA 
TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3845 TCGA-AA-3846 TCGA-AA-3848 TCGA-AA-3850 
          31           28           NA           30           30           NA 
TCGA-AA-3851 TCGA-AA-3852 TCGA-AA-3854 TCGA-AA-3855 TCGA-AA-3856 TCGA-AA-3858 
          NA           NA           31           NA           NA           NA 
TCGA-AA-3860 TCGA-AA-3861 TCGA-AA-3862 TCGA-AA-3864 TCGA-AA-3866 TCGA-AA-3867 
          NA           NA           31           NA           NA           NA 
TCGA-AA-3869 TCGA-AA-3870 TCGA-AA-3872 TCGA-AA-3875 TCGA-AA-3877 TCGA-AA-3930 
          NA           NA           NA           NA           30           NA 
TCGA-AA-3939 TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 
          30           31           30           30           31           31 
TCGA-AA-3955 TCGA-AA-3956 TCGA-AA-3966 TCGA-AA-3968 TCGA-AA-3970 TCGA-AA-3971 
          NA           NA           31           NA           NA           NA 
TCGA-AA-3972 TCGA-AA-3973 TCGA-AA-3975 TCGA-AA-3976 TCGA-AA-3977 TCGA-AA-3979 
          NA           NA           30           NA           31           NA 
TCGA-AA-3980 TCGA-AA-3982 TCGA-AA-3984 TCGA-AA-3986 TCGA-AA-3989 TCGA-AA-3994 
          NA           NA           NA           30           NA           NA 
TCGA-AA-A004 TCGA-AA-A00A TCGA-AA-A00D TCGA-AA-A00E TCGA-AA-A00F TCGA-AA-A00J 
         424          548          578          913         1035          548 
TCGA-AA-A00K TCGA-AA-A00L TCGA-AA-A00N TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00R 
         548          517           NA          822          822           30 
TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C 
         517          456          669          638          457          457 
TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01K TCGA-AA-A01Q 
          30          396          365          365          396           31 
TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J 
        1188         1580           89         1215           61          153 
TCGA-AA-A02R TCGA-AA-A02W TCGA-AY-4070 TCGA-AY-4071 TCGA-A3-3306 TCGA-A3-3307 
         670         1246          496           29         1120         1436 
TCGA-A3-3308 TCGA-A3-3311 TCGA-A3-3313 TCGA-A3-3316 TCGA-A3-3317 TCGA-A3-3319 
          16         1190          735         1493         1491         1130 
TCGA-A3-3320 TCGA-A3-3322 TCGA-A3-3323 TCGA-A3-3324 TCGA-A3-3325 TCGA-A3-3326 
        1508         1477         1105         1186          751         1137 
TCGA-A3-3328 TCGA-A3-3329 TCGA-A3-3331 TCGA-A3-3335 TCGA-A3-3336 TCGA-A3-3343 
         785          706         1485          664         1043          944 
TCGA-A3-3346 TCGA-A3-3347 TCGA-A3-3349 TCGA-A3-3351 TCGA-A3-3352 TCGA-A3-3359 
         137         1097         1385          910          561         1286 
TCGA-A3-3362 TCGA-A3-3363 TCGA-A3-3365 TCGA-A3-3372 TCGA-A3-3374 TCGA-A3-3378 
        1559          319          872          735         1313          630 
TCGA-A3-3380 TCGA-A3-3382 TCGA-A3-3383 TCGA-AK-3426 TCGA-AK-3427 TCGA-AK-3440 
         567          574          861          884         2566         1744 
TCGA-AK-3443 TCGA-AK-3444 TCGA-AK-3447 TCGA-AK-3453 TCGA-AK-3455 TCGA-AK-3456 
        1423         1471         1217         1190          683           46 
TCGA-AK-3465 TCGA-AS-3777 TCGA-AS-3778 TCGA-B2-3923 TCGA-B2-3924 TCGA-B2-4098 
         369           40           NA          178          194           50 
TCGA-B2-4099 TCGA-B2-4102 TCGA-B8-4143 TCGA-B8-4148 TCGA-B8-4151 TCGA-B8-4154 
         110           15          709          379          279          255 
TCGA-B8-4619 TCGA-B8-4620 TCGA-BP-4161 TCGA-BP-4162 TCGA-BP-4163 TCGA-BP-4164 
          19          226         2746         3074         2839          992 
TCGA-BP-4167 TCGA-CJ-4634 TCGA-CJ-4636 TCGA-CJ-4637 TCGA-CJ-4638 TCGA-CJ-4639 
        2718         1820         1924         2227          431         2308 
TCGA-CJ-4640 TCGA-CJ-4641 TCGA-CJ-4643 TCGA-CJ-4644 TCGA-05-4244 TCGA-05-4249 
        1998         1661         1792          336           NA         1158 
TCGA-05-4250 TCGA-35-3615 TCGA-35-4122 TCGA-35-4123 TCGA-44-2655 TCGA-44-2656 
         121           14          224          181          574          581 
TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2662 TCGA-44-2665 TCGA-44-2666 
         400          529          103          480          400           97 
TCGA-44-2668 TCGA-44-3398 TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-55-1592 
         246          253          196          189          140          701 
TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
        1178         1479         1374         1728          628         1189 
TCGA-64-1680 TCGA-67-3770 TCGA-67-3771 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
        1126           30           60           18           62           18 
TCGA-18-3406 TCGA-18-3407 TCGA-18-3408 TCGA-18-3409 TCGA-18-3410 TCGA-18-3411 
         370          136         2466         2417          146         1415 
TCGA-18-3412 TCGA-18-3414 TCGA-18-3415 TCGA-18-3416 TCGA-18-3417 TCGA-18-3419 
         345          396         1810          862          758           49 
TCGA-18-3421 TCGA-18-4083 TCGA-18-4086 TCGA-21-1070 TCGA-21-1071 TCGA-21-1072 
        1331          187           85         3516         1426         3016 
TCGA-21-1075 TCGA-21-1076 TCGA-21-1077 TCGA-21-1078 TCGA-21-1079 TCGA-21-1080 
        2133         1852         1058          473          964         3724 
TCGA-21-1081 TCGA-21-1082 TCGA-21-1083 TCGA-22-0940 TCGA-22-0944 TCGA-22-1000 
         283         3644          267          608          223          454 
TCGA-22-1002 TCGA-22-1005 TCGA-22-1011 TCGA-22-1012 TCGA-22-1016 TCGA-22-1017 
         131         1953           53          429          822         1485 
TCGA-22-4591 TCGA-22-4594 TCGA-22-4595 TCGA-22-4596 TCGA-22-4599 TCGA-22-4601 
         622         1470          734           17         1161         1057 
TCGA-22-4604 TCGA-22-4607 TCGA-22-4613 TCGA-33-4532 TCGA-33-4533 TCGA-33-4538 
         399          587          358         2524         3469         2979 
TCGA-33-4547 TCGA-33-4566 TCGA-33-4582 TCGA-33-4589 TCGA-34-2596 TCGA-34-2600 
        1311         5286         3149          334           80         1874 
TCGA-34-2604 TCGA-34-2605 TCGA-34-2608 TCGA-34-2609 TCGA-34-5240 TCGA-34-5241 
         958          881          999          950          235          428 
TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 
         120           13           12          199          246          227 
TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-39-5011 TCGA-39-5016 TCGA-39-5021 
         238          207           12         1454         2253         2086 
TCGA-39-5029 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 TCGA-39-5037 
         740           59         1107          474         1084           24 
TCGA-43-2576 TCGA-43-2578 TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 TCGA-46-3765 
         556          550          399          352          573           NA 
TCGA-46-3766 TCGA-46-3767 TCGA-46-3768 TCGA-46-3769 TCGA-51-4079 TCGA-51-4080 
          NA           NA           NA           NA           12           12 
TCGA-51-4081 TCGA-56-1622 TCGA-60-2695 TCGA-60-2696 TCGA-60-2698 TCGA-60-2706 
          63          880          473          109          311         2500 
TCGA-60-2707 TCGA-60-2708 TCGA-60-2710 TCGA-60-2711 TCGA-60-2712 TCGA-60-2713 
         660         2082         1685          888          274         1456 
TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 
         512         1075         1181          931           96          793 
TCGA-60-2722 TCGA-60-2723 TCGA-60-2724 TCGA-60-2725 TCGA-60-2726 TCGA-63-5128 
         733          693           37          719          358           NA 
TCGA-63-5131 TCGA-66-2727 TCGA-66-2734 TCGA-66-2737 TCGA-66-2742 TCGA-66-2744 
          NA          516         1311           61          641           30 
TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2758 
          31           61           28           30           30          638 
TCGA-66-2759 TCGA-66-2763 TCGA-66-2765 TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 
         761           30           61           31           61           61 
TCGA-66-2769 TCGA-66-2770 TCGA-66-2771 TCGA-66-2773 TCGA-66-2777 TCGA-66-2778 
         215          700          578           92           61          578 
TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 
         366          121          365          759           59          790 
TCGA-66-2787 TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 TCGA-66-2792 
        1217          699          123          699          153          913 
TCGA-66-2793 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-04-1331 TCGA-04-1332 
         306         1645          122         1492         1224         1247 
TCGA-04-1335 TCGA-04-1336 TCGA-04-1337 TCGA-04-1338 TCGA-04-1341 TCGA-04-1342 
          55         1495           61         1418           NA          563 
TCGA-04-1343 TCGA-04-1346 TCGA-04-1347 TCGA-04-1348 TCGA-04-1349 TCGA-04-1350 
         361         1992         1918         1483          656         1946 
TCGA-04-1351 TCGA-04-1356 TCGA-04-1357 TCGA-04-1360 TCGA-04-1361 TCGA-04-1362 
        1991         1499           NA           NA          989         1348 
TCGA-04-1364 TCGA-04-1365 TCGA-04-1367 TCGA-04-1369 TCGA-04-1371 TCGA-04-1514 
        1024         2328         2174          642         2505         1720 
TCGA-04-1516 TCGA-04-1517 TCGA-04-1519 TCGA-04-1525 TCGA-04-1530 TCGA-04-1536 
        1265          608           NA         1167         3622          884 
TCGA-04-1542 TCGA-04-1638 TCGA-04-1644 TCGA-04-1646 TCGA-04-1648 TCGA-04-1649 
        2561         1685         1487          848          871         1966 
TCGA-04-1651 TCGA-04-1652 TCGA-04-1654 TCGA-04-1655 TCGA-09-1659 TCGA-09-1661 
        1102          969         1451         1379          303         1169 
TCGA-09-1662 TCGA-09-1664 TCGA-09-1665 TCGA-09-1666 TCGA-09-1667 TCGA-09-1668 
        2717         2278         1265         1751         1882         1684 
TCGA-09-1669 TCGA-09-1670 TCGA-09-1672 TCGA-09-1673 TCGA-09-1674 TCGA-09-1675 
         927          547          178           92          260         2967 
TCGA-09-2043 TCGA-09-2044 TCGA-09-2045 TCGA-09-2048 TCGA-09-2049 TCGA-09-2050 
         187          186         1069          137         3418         2163 
TCGA-09-2051 TCGA-09-2053 TCGA-09-2054 TCGA-09-2055 TCGA-09-2056 TCGA-10-0925 
        1919         1209          636          819          379         1652 
TCGA-10-0926 TCGA-10-0927 TCGA-10-0928 TCGA-10-0930 TCGA-10-0931 TCGA-10-0933 
         788         2478          562         1011          982          356 
TCGA-10-0934 TCGA-10-0935 TCGA-10-0936 TCGA-10-0937 TCGA-10-0938 TCGA-13-0720 
         118         1077         1089          460          604         1355 
TCGA-13-0751 TCGA-13-0755 TCGA-13-0765 TCGA-13-0766 TCGA-13-0797 TCGA-13-0799 
        1678           75          869          651          265          237 
TCGA-13-0807 TCGA-13-0883 TCGA-13-0884 TCGA-13-0885 TCGA-13-0886 TCGA-13-0887 
         414         2096         3260         2780         2259         2027 
TCGA-13-0888 TCGA-13-0889 TCGA-13-0890 TCGA-13-0891 TCGA-13-0893 TCGA-13-0894 
        2141         1880         2068         2099         1319         1509 
TCGA-13-0897 TCGA-13-0899 TCGA-13-0900 TCGA-13-0901 TCGA-13-0903 TCGA-13-0904 
        1748         1708         1736          589         1441         1470 
TCGA-13-0905 TCGA-13-0906 TCGA-13-0908 TCGA-13-0910 TCGA-13-0911 TCGA-13-0912 
        1455         1367         1364         1128          842         1036 
TCGA-13-0913 TCGA-13-0916 TCGA-13-0919 TCGA-13-0920 TCGA-13-0921 TCGA-13-0923 
         912          643          453          420          141          195 
TCGA-13-0924 TCGA-13-1403 TCGA-13-1404 TCGA-13-1405 TCGA-13-1407 TCGA-13-1408 
         185          331          201          224          184          180 
TCGA-13-1409 TCGA-13-1410 TCGA-13-1411 TCGA-13-1412 TCGA-13-1477 TCGA-13-1481 
         208          143          128          162         1661         2648 
TCGA-13-1482 TCGA-13-1483 TCGA-13-1484 TCGA-13-1485 TCGA-13-1487 TCGA-13-1488 
        1877          894         2982          629          681         2154 
TCGA-13-1489 TCGA-13-1491 TCGA-13-1492 TCGA-13-1494 TCGA-13-1495 TCGA-13-1496 
        2521         1595         2237         1161         1497          129 
TCGA-13-1497 TCGA-13-1498 TCGA-13-1499 TCGA-13-1500 TCGA-13-1501 TCGA-13-1504 
        1652         1144         1167          425          999          504 
TCGA-13-1505 TCGA-13-1506 TCGA-13-1507 TCGA-13-1509 TCGA-13-1510 TCGA-13-1511 
         128          134          145          126           78          118 
TCGA-13-1512 TCGA-13-2057 TCGA-13-2059 TCGA-13-2060 TCGA-13-2061 TCGA-13-2065 
          94          433          372          261          328          266 
TCGA-13-2066 TCGA-13-2071 TCGA-20-0987 TCGA-20-0990 TCGA-20-0991 TCGA-20-0996 
         295          191          701          789          797         2196 
TCGA-20-1682 TCGA-20-1683 TCGA-20-1684 TCGA-20-1685 TCGA-20-1686 TCGA-20-1687 
         836          772          580          507           89           81 
TCGA-23-1021 TCGA-23-1022 TCGA-23-1023 TCGA-23-1024 TCGA-23-1026 TCGA-23-1027 
        1446         1293         1233          468          816          965 
TCGA-23-1028 TCGA-23-1029 TCGA-23-1030 TCGA-23-1031 TCGA-23-1032 TCGA-23-1107 
        1503          268          885          574           68            9 
TCGA-23-1109 TCGA-23-1110 TCGA-23-1111 TCGA-23-1113 TCGA-23-1114 TCGA-23-1116 
        1562         1658           98          949         2089          139 
TCGA-23-1117 TCGA-23-1118 TCGA-23-1119 TCGA-23-1120 TCGA-23-1121 TCGA-23-1122 
        1013         2616         3953          130          194         1189 
TCGA-23-1123 TCGA-23-1124 TCGA-23-1809 TCGA-23-2072 TCGA-23-2077 TCGA-23-2078 
        1018         1768           16          759         3525         2661 
TCGA-23-2079 TCGA-23-2081 TCGA-23-2084 TCGA-23-2641 TCGA-23-2643 TCGA-23-2645 
        2788         2342         1516           84          143          137 
TCGA-23-2647 TCGA-23-2649 TCGA-24-0966 TCGA-24-0968 TCGA-24-0970 TCGA-24-0975 
         135          116          232          597          354          663 
TCGA-24-0979 TCGA-24-0980 TCGA-24-0982 TCGA-24-1103 TCGA-24-1104 TCGA-24-1105 
        1264          233          679         1645         1933         1442 
TCGA-24-1413 TCGA-24-1416 TCGA-24-1417 TCGA-24-1418 TCGA-24-1419 TCGA-24-1422 
         192          194          238          243          239           23 
TCGA-24-1423 TCGA-24-1424 TCGA-24-1425 TCGA-24-1426 TCGA-24-1427 TCGA-24-1428 
         190          183          181          163          146          528 
TCGA-24-1430 TCGA-24-1431 TCGA-24-1434 TCGA-24-1435 TCGA-24-1436 TCGA-24-1463 
         862          583          568         1324          260         2218 
TCGA-24-1464 TCGA-24-1466 TCGA-24-1467 TCGA-24-1469 TCGA-24-1470 TCGA-24-1471 
         379         1373         3224          277          104           36 
TCGA-24-1474 TCGA-24-1544 TCGA-24-1545 TCGA-24-1546 TCGA-24-1548 TCGA-24-1549 
         675          820         1745         1955          493         1721 
TCGA-24-1550 TCGA-24-1551 TCGA-24-1552 TCGA-24-1553 TCGA-24-1555 TCGA-24-1556 
        1249         1579         1259         1767         2692         2148 
TCGA-24-1557 TCGA-24-1558 TCGA-24-1560 TCGA-24-1562 TCGA-24-1563 TCGA-24-1564 
        1213          594         1341         1384         1451          787 
TCGA-24-1565 TCGA-24-1567 TCGA-24-1603 TCGA-24-1604 TCGA-24-1614 TCGA-24-1616 
         312          524         2742         2687         1470         1163 
TCGA-24-1842 TCGA-24-1843 TCGA-24-1844 TCGA-24-1845 TCGA-24-1846 TCGA-24-1847 
         253          106          113          116          133          343 
TCGA-24-1849 TCGA-24-1850 TCGA-24-1920 TCGA-24-1923 TCGA-24-1924 TCGA-24-1927 
         175          167          298          689          919          499 
TCGA-24-1928 TCGA-24-1930 TCGA-24-2019 TCGA-24-2020 TCGA-24-2023 TCGA-24-2024 
         336         2467          148         4623         1364         1769 
TCGA-24-2026 TCGA-24-2027 TCGA-24-2029 TCGA-24-2030 TCGA-24-2033 TCGA-24-2035 
        1059         3336          439         1641          562          857 
TCGA-24-2036 TCGA-24-2038 TCGA-24-2254 TCGA-24-2260 TCGA-24-2261 TCGA-24-2262 
        1947         1353         1736         1100           24           11 
TCGA-24-2267 TCGA-24-2271 TCGA-24-2280 TCGA-24-2281 TCGA-24-2288 TCGA-24-2289 
        1446          962         2143         1356           25         2049 
TCGA-24-2290 TCGA-24-2293 TCGA-24-2295 TCGA-24-2297 TCGA-24-2298 TCGA-25-1312 
        1102          506         1007         1699         1620           31 
TCGA-25-1313 TCGA-25-1314 TCGA-25-1315 TCGA-25-1316 TCGA-25-1317 TCGA-25-1318 
         819          973         1553         1126           31         1064 
TCGA-25-1319 TCGA-25-1320 TCGA-25-1321 TCGA-25-1322 TCGA-25-1323 TCGA-25-1324 
        1977         1124         1033           91          365         1035 
TCGA-25-1325 TCGA-25-1326 TCGA-25-1328 TCGA-25-1329 TCGA-25-1623 TCGA-25-1625 
         976          944         1979           90          565          548 
TCGA-25-1626 TCGA-25-1627 TCGA-25-1628 TCGA-25-1630 TCGA-25-1631 TCGA-25-1632 
         480           11          626          239            9         1732 
TCGA-25-1633 TCGA-25-1634 TCGA-25-1635 TCGA-25-1870 TCGA-25-1871 TCGA-25-1877 
        1843         1081         1558          454          760          549 
TCGA-25-1878 TCGA-25-2042 TCGA-25-2390 TCGA-25-2391 TCGA-25-2392 TCGA-25-2393 
        2587          396           NA         1492           31         1157 
TCGA-25-2396 TCGA-25-2397 TCGA-25-2398 TCGA-25-2399 TCGA-25-2400 TCGA-25-2401 
          92          365         1369          608         1278           90 
TCGA-25-2404 TCGA-25-2408 TCGA-25-2409 TCGA-29-1688 TCGA-29-1690 TCGA-29-1691 
         882          942          820         2399         1360         1435 
TCGA-29-1693 TCGA-29-1694 TCGA-29-1695 TCGA-29-1696 TCGA-29-1697 TCGA-29-1698 
        3095         1172           24         1025          948         2077 
TCGA-29-1699 TCGA-29-1701 TCGA-29-1702 TCGA-29-1703 TCGA-29-1705 TCGA-29-1707 
          16          514          567         1815          555         1276 
TCGA-29-1710 TCGA-29-1711 TCGA-29-1761 TCGA-29-1762 TCGA-29-1763 TCGA-29-1764 
         889         1053          517         2606         2031         1914 
TCGA-29-1766 TCGA-29-1768 TCGA-29-1769 TCGA-29-1770 TCGA-29-1771 TCGA-29-1774 
        1189          950          699          741          685          526 
TCGA-29-1775 TCGA-29-1776 TCGA-29-1777 TCGA-29-1778 TCGA-29-1781 TCGA-29-1783 
         376          360          374          454          254          219 
TCGA-29-1784 TCGA-29-1785 TCGA-29-2414 TCGA-29-2425 TCGA-29-2427 TCGA-29-2428 
         163         1053         2621         1977         1900         1372 
TCGA-29-2429 TCGA-29-2431 TCGA-29-2432 TCGA-29-2434 TCGA-29-2436 TCGA-30-1714 
         148         1285          360          349          297         1158 
TCGA-30-1718 TCGA-30-1853 TCGA-30-1855 TCGA-30-1856 TCGA-30-1857 TCGA-30-1859 
        1579         1103           75          477            8         1462 
TCGA-30-1860 TCGA-30-1861 TCGA-30-1862 TCGA-30-1866 TCGA-30-1867 TCGA-30-1880 
        1366         1058          185         1114           36         1751 
TCGA-30-1887 TCGA-30-1891 TCGA-30-1892 TCGA-31-1944 TCGA-31-1946 TCGA-31-1950 
         738          914         1484         1386          918          571 
TCGA-31-1951 TCGA-31-1953 TCGA-31-1955 TCGA-31-1956 TCGA-31-1959 TCGA-36-1568 
         683          204         1293         1341           66          874 
TCGA-36-1569 TCGA-36-1570 TCGA-36-1571 TCGA-36-1574 TCGA-36-1575 TCGA-36-1576 
         884          655          695          686          260          914 
TCGA-36-1577 TCGA-36-1578 TCGA-36-1580 TCGA-36-1581 TCGA-36-2529 TCGA-36-2530 
         783          847          737          751         1066         1004 
TCGA-36-2532 TCGA-36-2533 TCGA-36-2534 TCGA-36-2537 TCGA-36-2538 TCGA-36-2540 
         897           NA          906          788          763          724 
TCGA-36-2542 TCGA-36-2543 TCGA-36-2544 TCGA-36-2545 TCGA-36-2547 TCGA-36-2548 
         657           68          638          557          624          431 
TCGA-36-2549 TCGA-36-2551 TCGA-36-2552 TCGA-42-2582 TCGA-42-2587 TCGA-42-2588 
         184          491          349          435          276          287 
TCGA-42-2589 TCGA-42-2590 TCGA-42-2591 TCGA-42-2593 TCGA-57-1582 TCGA-57-1583 
         230          227          232           NA          731          346 
TCGA-57-1584 TCGA-57-1585 TCGA-57-1586 TCGA-57-1992 TCGA-57-1993 TCGA-57-1994 
         643           53          679          881          762          761 
TCGA-59-2348 TCGA-59-2349 TCGA-59-2350 TCGA-59-2351 TCGA-59-2352 TCGA-59-2354 
        5480         2437          679         3532          286         1046 
TCGA-59-2355 TCGA-59-2363 TCGA-59-2372 TCGA-61-1721 TCGA-61-1722 TCGA-61-1724 
          65          164         1362          338          245          637 
TCGA-61-1725 TCGA-61-1727 TCGA-61-1728 TCGA-61-1730 TCGA-61-1733 TCGA-61-1734 
         955          564          848          132          966          866 
TCGA-61-1736 TCGA-61-1737 TCGA-61-1738 TCGA-61-1740 TCGA-61-1741 TCGA-61-1743 
        1484         1364         1089           74         1024         1329 
TCGA-61-1895 TCGA-61-1899 TCGA-61-1900 TCGA-61-1901 TCGA-61-1903 TCGA-61-1904 
          43          256          176          347          396          276 
TCGA-61-1906 TCGA-61-1907 TCGA-61-1910 TCGA-61-1911 TCGA-61-1913 TCGA-61-1914 
        1038          952         1126         1292         1488         1721 
TCGA-61-1915 TCGA-61-1917 TCGA-61-1918 TCGA-61-1919 TCGA-61-1995 TCGA-61-1998 
        2060         1321          479         1161           60          168 
TCGA-61-2000 TCGA-61-2002 TCGA-61-2003 TCGA-61-2008 TCGA-61-2009 TCGA-61-2012 
         441          547          121          931         1212          932 
TCGA-61-2016 TCGA-61-2017 TCGA-61-2018 TCGA-61-2087 TCGA-61-2088 TCGA-61-2092 
          36         1398         1381          146          145         1573 
TCGA-61-2094 TCGA-61-2095 TCGA-61-2096 TCGA-61-2097 TCGA-61-2098 TCGA-61-2101 
        2182         1875         1776         1844         1992         1688 
TCGA-61-2102 TCGA-61-2104 TCGA-61-2109 TCGA-61-2110 TCGA-61-2111 TCGA-61-2113 
         197         2337          629         1354         3824          676 
TCGA-61-2612 TCGA-61-2613 TCGA-61-2614 TCGA-AF-2689 TCGA-AF-2691 TCGA-AF-2692 
         193          945          261          482          323          412 
TCGA-AF-3400 TCGA-AF-3913 TCGA-AG-3574 TCGA-AG-3575 TCGA-AG-3578 TCGA-AG-3580 
         387          316           NA           NA           NA           NA 
TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3584 TCGA-AG-3586 TCGA-AG-3587 
          31           31           61           NA           NA           31 
TCGA-AG-3593 TCGA-AG-3594 TCGA-AG-3598 TCGA-AG-3599 TCGA-AG-3600 TCGA-AG-3601 
          NA           NA           NA           30           NA           NA 
TCGA-AG-3602 TCGA-AG-3605 TCGA-AG-3608 TCGA-AG-3609 TCGA-AG-3611 TCGA-AG-3612 
          NA           NA           NA           NA           NA           NA 
TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-3728 TCGA-AG-3878 TCGA-AG-3881 TCGA-AG-3882 
          31           29           NA           30           NA           NA 
TCGA-AG-3883 TCGA-AG-3885 TCGA-AG-3887 TCGA-AG-3890 TCGA-AG-3892 TCGA-AG-3893 
          NA           NA           28           NA           31           30 
TCGA-AG-3894 TCGA-AG-3896 TCGA-AG-3898 TCGA-AG-3901 TCGA-AG-3902 TCGA-AG-3909 
          30           NA           NA           NA           NA           NA 
TCGA-AG-3999 TCGA-AG-4001 TCGA-AG-4005 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-4015 
          31           31           NA           31           31           NA 
TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00H TCGA-AG-A00Y TCGA-AG-A011 
         637          423          183          789          700          518 
TCGA-AG-A014 TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A01J TCGA-AG-A01L TCGA-AG-A01N 
         484          396           31           31          365          365 
TCGA-AG-A023 TCGA-AG-A025 TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02X TCGA-AG-A032 
        1581         1519           59         1184         1246         1156 
TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GE 
        4053         1079          790           NA          275         2717 
TCGA-A5-A0GH TCGA-A5-A0GM TCGA-A5-A0GP TCGA-A5-A0GU TCGA-AP-A051 TCGA-AP-A052 
        1671         1448         1087          495         2545           NA 
TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H 
         181           NA         2026         1198         1364          831 
TCGA-AP-A05J TCGA-AP-A05N TCGA-AP-A05P TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LD 
         639          239          260           NA         3443         2906 
TCGA-AP-A0LG TCGA-AP-A0LH TCGA-AP-A0LJ TCGA-AP-A0LN TCGA-AP-A0LT TCGA-AP-A0LV 
        1921           NA          965         1992         1185          385 
TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A05Z 
          NA          603          902         2078         2191         1413 
TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06B TCGA-AX-A06F 
        1075         1398         2024         1064         1639         1554 
TCGA-AX-A06J TCGA-AX-A0IW TCGA-AX-A0J1 TCGA-B5-A0JR TCGA-B5-A0JZ TCGA-B5-A0K0 
         913         1148         2004         1465          689          679 
TCGA-B5-A0K1 TCGA-B5-A0K4 TCGA-BG-A0LW TCGA-BG-A0MI TCGA-BK-A0C9 TCGA-BK-A0CC 
         746          466          194           NA          289          211 
Variable 1:'AGE':	nDistinctValues=63,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=389,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=918,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=23,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=283,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 12:'EXAMINATIONS.EXAMINATION.KARNOFSKYPERFORMANCESCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'HISTOLOGICAL.TYPE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.GRADE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'PATHOLOGY.T':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'PATHOLOGY.N':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'PATHOLOGICSPREAD(M)':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TUMOR.STAGE':	nDistinctValues=22,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'PATIENTTUMORRECURRENCESTATUS':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 20:'DAYSTOTUMORRECURRENCE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 21:'CHEMOTHERAPY':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 22:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 23:'NUMBERPACKYEARSSMOKED':	nDistinctValues=57,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 24:'STOPPEDSMOKINGYEAR':	nDistinctValues=38,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 25:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 26:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=40,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 27:'DISTANT.METASTASIS':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 28:'LYMPH.NODE.METASTASIS':	nDistinctValues=14,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 29:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 30:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=29,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 31:'TUMOR.STAGECODE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 32:'NEOPLASM.DISEASESTAGE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 33:'BATCH.NUMBER':	nDistinctValues=53,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "PRIMARY.SITE.OF.DISEASE"               
 [3] "GENDER"                                
 [4] "KARNOFSKY.PERFORMANCE.SCORE"           
 [5] "HISTOLOGICAL.TYPE"                     
 [6] "TUMOR.GRADE"                           
 [7] "PATHOLOGY.T"                           
 [8] "PATHOLOGY.N"                           
 [9] "PATHOLOGICSPREAD(M)"                   
[10] "TUMOR.STAGE"                           
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "NUMBERPACKYEARSSMOKED"                 
[13] "STOPPEDSMOKINGYEAR"                    
[14] "TOBACCOSMOKINGHISTORYINDICATOR"        
[15] "YEAROFTOBACCOSMOKINGONSET"             
[16] "DISTANT.METASTASIS"                    
[17] "LYMPH.NODE.METASTASIS"                 
[18] "COMPLETENESS.OF.RESECTION"             
[19] "NUMBER.OF.LYMPH.NODES"                 
[20] "TUMOR.STAGECODE"                       
[21] "NEOPLASM.DISEASESTAGE"                 
[1] "TUMOR.?STAGE" "10"           "20"          
[1] "stage2"
vv
  1   2   3   4  T1 T1A T1B T1C  T2 T2B  T3  T4 T4B T4D  TX 
206 164 512 121  21   1   8 103 311   1  59   6  13   1   3 
[1] "TUMOR.?GRADE" "6"           
[1] "PATHOLOGY.T" "6"          
[1] "PATHOLOGY.N" "7"          
Output Data has 1596 columns, 1 survival variables, and 20 non-survival variables.
                              D                 
            "D" "Time to Death"         "Month" 
KLHL14 
    36 
AGE, nv=63, binary=FALSE, numeric=TRUE
GREB1 
 3513 
PRIMARY.SITE.OF.DISEASE, nv=9, binary=FALSE, numeric=FALSE
KLHL14 
    36 
GENDER, nv=2, binary=FALSE, numeric=FALSE
 ESR1 
11558 
KARNOFSKY.PERFORMANCE.SCORE, nv=8, binary=FALSE, numeric=TRUE
PPP1R9A 
  11319 
HISTOLOGICAL.TYPE, nv=15, binary=FALSE, numeric=FALSE
KLHL14 
    36 
PATHOLOGY.T, nv=4, binary=FALSE, numeric=TRUE
C13ORF3 
  10910 
[1] "PATHOLOGY.T"
[1] "num to class table"
vv1
 T1  T2  T3  T4 
 92 179 180  29 
PATHOLOGY.N, nv=4, binary=FALSE, numeric=TRUE
TNFRSF10C 
    11586 
[1] "PATHOLOGY.N"
[1] "num to class table"
vv1
 N0  N1  N2  N3 
291  90  61   5 
PATHOLOGICSPREAD(M), nv=3, binary=FALSE, numeric=FALSE
KCNC2 
 9909 
TUMOR.STAGE, nv=4, binary=FALSE, numeric=TRUE
FGF18 
 8628 
[1] "TUMOR.STAGE"
[1] "num to class table"
vv1
Stage 1 Stage 2 Stage 3 Stage 4 
    206     164     512     121 
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
CYP3A5 
  9265 
NUMBERPACKYEARSSMOKED, nv=57, binary=FALSE, numeric=TRUE
 GNG8 
14507 
STOPPEDSMOKINGYEAR, nv=38, binary=FALSE, numeric=TRUE
RAI14 
 8067 
TOBACCOSMOKINGHISTORYINDICATOR, nv=4, binary=FALSE, numeric=FALSE
PSME4 
 3883 
YEAROFTOBACCOSMOKINGONSET, nv=40, binary=FALSE, numeric=TRUE
MMP10 
 7791 
DISTANT.METASTASIS, nv=4, binary=FALSE, numeric=FALSE
PAGE5 
10992 
LYMPH.NODE.METASTASIS, nv=14, binary=FALSE, numeric=FALSE
PIK3CA 
 15185 
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NPR1 
 184 
NUMBER.OF.LYMPH.NODES, nv=29, binary=FALSE, numeric=TRUE
DDX20 
10051 
TUMOR.STAGECODE, nv=4, binary=FALSE, numeric=TRUE
[1] "Clinical variable TUMOR.STAGECODE has too few non-missing values, n=0"
NEOPLASM.DISEASESTAGE, nv=11, binary=FALSE, numeric=FALSE
 NGFB 
14611 
> q(save="no")
