The clinical information for each TCGA tumor sample is stored in a xml file. Patient ID, tumor and treatment info are entries of the xml file. These xml files have been preprocessed for further analysis.
Clinical data for tier 1 clinical variables are generated.
Tumor.Feature | Date.Statistics |
---|---|
gender | dccuploaddate |
primarysiteofdesease | dateofbirth |
histologicaltype | dateofdeath |
tumorstage | dateoflastfollowup |
tumorgrade | dateoftumorrecurrence |
patienttumorrecurrencestatus | dateofinitialpathologicdiagnosis |
radiationtherapy | datelastknownalive |
neoadjuvanttherapy | vitalstatus |
pathologicspread(pt) | |
pathologicspread(pn) | |
karnofskyperformancescore |
Clinical.Variable | Statistics |
---|---|
age | mean: 66, std: 11 |
vitalstatus | 57 living, 23 deceased |
gender | 34 male, 46 female |
histologicaltype | 18 lung adenocarcinoma mixed subtype, 46 lung adenocarcinoma- not otherwise specified (nos), 1 lung mucinous adenocarcinoma, 2 mucinous (colloid) adenocarcinoma, 2 lung papillary adenocarcinoma, 3 lung acinar adenocarcinoma, 3 lung bronchioloalveolar carcinoma mucinous, 4 lung bronchioloalveolar carcinoma nonmucinous, 1 lung micropapillary adenocarcinoma |
tumorstage | 17 stage ia, 4 stage iv, 25 stage ib, 14 stage iiia, 7 stage iia, 8 stage iib, 2 stage iiib |
pathologicspread(pt) | 16 t1, 34 t2, 7 t3, 11 t2a, 4 t1b, 3 t4, 3 t2b, 1 t1a |
pathologicspread(pn) | 49 n0, 1 nx, 15 n2, 14 n1 |
Clinical.Variable | Sample_1 | Sample_2 | Sample_3 |
---|---|---|---|
yearstobirth | 70 | 56 | 67 |
daystodeath | NA | 244 | NA |
daystolastfollowup | NA | NA | NA |
vitalstatus | 0 | 1 | 0 |
dccuploaddate | 31-8-2012 | 31-8-2012 | 31-8-2012 |
1. Each xml file is converted to a tab-delimited text file by our R package.
2. All text files are aggregated into one big table by the Clinical_Aggregate_Tier1 pipeline. The 1st column of the table is the entry name of the xml file and the rest columns are the associated data for samples.
3. Data for the tier 1 clinical variables are extracted by the Clinical_Picker_Tier1 pipeline.
This is an experimental feature. The full results of the analysis summarized in this report can be downloaded from the TCGA Data Coordination Center.