mdanderson.org_COAD_MDA_RPPA_Core

Created By Kyle Ellrott kellrott
This archive contains the level 3 data of the 333 colon adenocarcinoma (COAD) samples of the TCGA project and 51 control samples normally used by the data generating center - the RPPA Core Lab at the University of Texas MD Anderson Cancer Center, Houston, TX. The data were loading corrected, meaning different samples have the same average total amount of proteins after this correction. The method is described as follows: 1)starting with the log2 raw protein concentration data, median-center the data of each slide; 2)from 1), calculate the median value for each sample; 3)subtract the medians in 2) from the raw concentration data of the corresponding sample. Users are free to try additional methods starting from the Level 2 data, such as median centering each sample, median polish, etc. The samples whose names start with "Mixed-Lysate", "MDA-MD", "Jurkat" are positive control samples. The mixed lysates are a pool of multiple cell lines. These samples could be used for batch effect correction or help evaluate data quality.

freeze: tcga_pancancer_v4
acronym: COAD
disease: cancer
species: Homo sapiens
fileType: genomicMatrix
platform: MDA_RPPA_Core
dataCenter: mdanderson.org
lastUpdate: 2011-11-18
tissueType: colon
dataSubType: RPPA
lastUpdated: 2011-11-18