Mesothelioma (MESO) Samples Report
Overview
Introduction

The Broad GDAC mirrors data from the DCC on a daily basis. Although all data is mirrored, not every sample is ingested into Firehose. There are three main mechanisms that filter samples to ensure that only the most scientifically relevant samples make it into our standard data and analyses runs. These three mechanisms are redactions, replicate filtering, and blacklisting. This report summarizes the data that is ingested into Firehose, describes the three filtering mechanisms, lists those samples that are removed, and gives all available annotations from the DCC's Annotation Manager.

Summary

There were 0 redactions, 0 replicate aliquots, 0 blacklisted aliquots, and 0 FFPE aliquots. The table below represents the sample counts for those samples that were ingested into firehose after filtering out redactions, replicates, and blacklisted data, and segregating FFPEs.

Table 1.  This table provides a breakdown of sample counts on a per sample type and, if applicable, per subtype basis. Each count is a link to a table containing a list of the samples that comprise that count and details pertaining to each individual sample (e.g. platform, sequencing center, etc.). Please note, there are usually multiple protocols per data type, so there are typically many more rows than the count implies.

Sample Type BCR Clinical CN LowP Methylation mRNA mRNASeq miR miRSeq RPPA MAF
TP 37 13 37 0 37 0 0 0 0 0 0
NB 37 13 37 0 0 0 0 0 0 0 0
Totals 37 13 37 0 37 0 0 0 0 0 0
MESO Primary Solid Tumor BCR Data

Table S1. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4NW Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4NY Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4NZ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O0 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O2 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O4 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O5 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O6 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O7 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4KX Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LI Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LJ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LV Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BL Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BS Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-NQ-A57I Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-NQ-A638 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BD Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BH Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7OY Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P0 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P3 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P6 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P8 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7PB Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
MESO Primary Solid Tumor Clinical Data

Table S2. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4O2 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4KX Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LI Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LJ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LV Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BL Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BS Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
MESO Primary Solid Tumor CN Data

Table S3. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4NW-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NW-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NW-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NW-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NW-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4NY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4NZ-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NZ-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NZ-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NZ-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NZ-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O2-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O2-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O2-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O2-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O2-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O4-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O4-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O4-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O4-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O4-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O5-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O5-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O5-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O5-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O5-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O6-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O6-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O6-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O6-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O6-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O7-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O7-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O7-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O7-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O7-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4KX-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4KX-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4KX-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4KX-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4KX-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LC-01A-31D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LC-01A-31D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LC-01A-31D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LC-01A-31D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LC-01A-31D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LI-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LI-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LI-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LI-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LI-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LJ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LJ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LJ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LJ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LJ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LV-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LV-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LV-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LV-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LV-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BL-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BL-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BL-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BL-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BL-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BN-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BN-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BN-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BN-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BN-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BS-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BS-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BS-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BS-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BS-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-NQ-A57I-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-NQ-A57I-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-NQ-A57I-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-NQ-A57I-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-NQ-A57I-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-NQ-A638-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-NQ-A638-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-NQ-A638-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-NQ-A638-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-NQ-A638-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LM-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LN-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LN-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LN-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LN-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LN-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LP-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LQ-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LR-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BC-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BC-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BC-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BC-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BC-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BD-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BD-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BD-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BD-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BD-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BH-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BH-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BH-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BH-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BH-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7OY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7OY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7OY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7OY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7OY-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P0-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P3-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P3-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P3-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P3-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P3-01A-12D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P6-01A-21D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P6-01A-21D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P6-01A-21D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P6-01A-21D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P6-01A-21D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P8-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P8-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P8-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P8-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P8-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7PB-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7PB-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7PB-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7PB-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7PB-01A-11D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
MESO Primary Solid Tumor Methylation Data

Table S4. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4NW-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4NY-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4NZ-01A-12D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O0-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O2-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O4-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O5-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O6-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-LK-A4O7-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4KX-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LC-01A-31D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LI-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LJ-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LM-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LP-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A4LV-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A6BL-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A6BN-01A-12D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A6BQ-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A6BR-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-MQ-A6BS-01A-12D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-NQ-A57I-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-NQ-A638-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SC-A6LM-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SC-A6LN-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SC-A6LP-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SC-A6LQ-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SC-A6LR-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SH-A7BC-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SH-A7BD-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-SH-A7BH-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7OY-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7P0-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7P3-01A-12D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7P6-01A-21D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7P8-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
TCGA-TS-A7PB-01A-11D-A34E-05 Illumina Infinium Human DNA Methylation 450 Johns Hopkins / University of Southern California 3 within_bioassay_data_set_function
MESO Blood Derived Normal BCR Data

Table S5. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4NW Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4NY Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4NZ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O0 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O2 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O4 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O5 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O6 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-LK-A4O7 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4KX Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LI Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LJ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A4LV Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BL Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-MQ-A6BS Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-NQ-A57I Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-NQ-A638 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SC-A6LR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BD Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-SH-A7BH Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7OY Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P0 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P3 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P6 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7P8 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
TCGA-TS-A7PB Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 biospecimen
MESO Blood Derived Normal Clinical Data

Table S6. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4O2 Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4KX Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LC Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LI Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LJ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LM Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LP Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A4LV Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BL Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BN Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BQ Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BR Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
TCGA-MQ-A6BS Biospecimen Metadata - Complete Set Nationwide Children's Hospital 1 clinical
MESO Blood Derived Normal CN Data

Table S7. 

TCGA Barcode Platform Center Data Level Protocol
TCGA-LK-A4NW-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NW-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NW-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NW-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NW-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4NY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4NZ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4NZ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4NZ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4NZ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4NZ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O2-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O2-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O2-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O2-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O2-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O4-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O4-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O4-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O4-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O4-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O5-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O5-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O5-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O5-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O5-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-LK-A4O7-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-LK-A4O7-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-LK-A4O7-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-LK-A4O7-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-LK-A4O7-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4KX-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4KX-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4KX-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4KX-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4KX-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LC-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LC-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LC-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LC-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LC-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LI-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LI-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LI-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LI-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LI-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LJ-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LJ-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LJ-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LJ-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LJ-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LM-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LM-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LM-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LM-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LM-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LP-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LP-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LP-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LP-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LP-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A4LV-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A4LV-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A4LV-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A4LV-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A4LV-10B-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BL-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BL-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BL-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BL-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BL-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-MQ-A6BS-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-MQ-A6BS-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-MQ-A6BS-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-MQ-A6BS-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-MQ-A6BS-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-NQ-A57I-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-NQ-A57I-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-NQ-A57I-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-NQ-A57I-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-NQ-A57I-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-NQ-A638-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-NQ-A638-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-NQ-A638-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-NQ-A638-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-NQ-A638-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LM-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LM-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LM-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LM-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LN-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LP-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LP-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LP-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LP-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LP-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LQ-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SC-A6LR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SC-A6LR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SC-A6LR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SC-A6LR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SC-A6LR-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BC-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BC-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BC-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BC-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BC-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BD-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BD-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BD-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BD-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BD-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-SH-A7BH-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-SH-A7BH-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-SH-A7BH-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-SH-A7BH-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-SH-A7BH-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7OY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7OY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7OY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7OY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7OY-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P0-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P3-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P3-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P3-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P3-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P3-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P6-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7P8-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7P8-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7P8-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7P8-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7P8-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19
TCGA-TS-A7PB-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 2 birdseed_genotype
TCGA-TS-A7PB-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg18
TCGA-TS-A7PB-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_hg19
TCGA-TS-A7PB-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg18
TCGA-TS-A7PB-10A-01D-A34B-01 Affymetrix Genome-Wide Human SNP Array 6.0 Broad Institute 3 segmented_scna_minus_germline_cnv_hg19

The sample type short letter codes in the table above are defined in the following list.

  • TP: Primary Solid Tumor

  • TR: Recurrent Solid Tumor

  • TB: Primary Blood Derived Cancer - Peripheral Blood

  • TAP: Additional - New Primary

  • TM: Metastatic

  • TAM: Additional Metastatic

  • NB: Blood Derived Normal

  • NT: Solid Tissue Normal

The following platforms are outdated and are not included in the counts depicted in the table above.

  • Agilent SurePrint G3 Human CGH Microarray Kit 1x1M

  • Agilent Human Genome CGH Microarray 244A

  • Agilent Human Genome CGH Custom Microarray 2x415K

  • Affymetrix Human Exon 1.0 ST Array

  • Illumina DNA Methylation OMA002 Cancer Panel I

  • Illumina DNA Methylation OMA003 Cancer Panel I

  • Illumina Human1M-Duo BeadChip

  • Illumina 550K Infinium HumanHap550 SNP Chip

Figure 1.  Get High-res Image This figure depicts the distribution of available data on a per participant basis.

Results
FFPE Cases
Additional Annotations from the DCC's Annotations Manager
Methods & Data
Redactions and Other Annotations

Annotation data was taken from theTCGA Data Portalusing the query string:

https://tcga-data.nci.nih.gov/annotations/resources/searchannotations/json?item=TCGA

Redaction information was generated by filtering for the annotationClassificationName "Redaction"

FFPE information was generated by filtering for "FFPE" in annotation note text

Additional FFPEs were garnered from clinical data

Remaining annotations were sorted into sections by annotationClassificationName

Preprocessors
mRNA Preprocessor

The mRNA preprocess median module chooses the matrix for the platform(Affymetrix HG U133, Affymetrix Exon Array and Agilent Gene Expression) with the largest number of samples.

mRNAseq Preprocessor

The mRNAseq preprocessor picks the "scaled_estimate" (RSEM) value from Illumina HiSeq/GA2 mRNAseq level_3 (v2) data set and makes the mRNAseq matrix with log2 transformed for the downstream analysis. If there are overlap samples between two different platforms, samples from illumina hiseq will be selected. The pipeline also creates the matrix with RPKM and log2 transform from HiSeq/GA2 mRNAseq level 3 (v1) data set.

miRseq Preprocessor

The miRseq preprocessor picks the "RPM" (reads per million miRNA precursor reads) from the Illumina HiSeq/GA miRseq Level_3 data set and makes the matrix with log2 transformed values.

Methylation Preprocessor

The methylation preprocessor filters methylation data for use in downstream pipelines. To learn more about this preprocessor, please visit the documentation.