TARGET Data Matrix

Last Updated: May 08, 2017

For all projects experimental methods please see the

TARGET Experimental Methods Page

Disease

Patient Data

Gene Expression

Copy Number

Methylation

miRNA

Sequence

Other

Acute Lymphoblastic Leukemia (ALL)

ALL Phase I

Clinical File
Sample Matrix

Affymetrix U133 Plus 2
DCC Open*

Affymetrix SNP 500k
DCC Open* DCC Controlled†

Whole Genome
View cases* FASTQ/BAM† DCC Controlled†

Whole Genome Lite
View cases* FASTQ/BAM†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Targeted Resequencing
Sequence Trace Linking Table† 125 Genes*

Kinome
Kinome Linking Table† 113 genes*

ALL Phase II

Clinical File
Sample Matrix

Affymetrix U133 Plus 2
DCC Open*

Affymetrix SNP 6.0
DCC Open* DCC Controlled†

NimbleGen HELP
DCC Open*

miRNA-seq
FASTQ/BAM† DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Acute Myeloid Leukemia (AML)

AML

Clinical File
Sample Matrix

Affymetrix Gene ST
DCC Open*

Affymetrix SNP 6.0
DCC Open* DCC Controlled†

Illumina Infinium 27k
DCC Open*

miRNA-seq
FASTQ/BAM† DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Targeted Resequencing
FASTQ/BAM† DCC Open* DCC Controlled†

Kidney Tumors

Wilms Tumor (WT)

Clinical File
Clinical File†
Sample Matrix

Affymetrix U133 Plus 2
DCC Open*

Affymetrix SNP 6.0
DCC Open* DCC Controlled†

Illumina Infinium 450k
DCC Open*

miRNA-seq
FASTQ/BAM† DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Targeted Resequencing
FASTQ/BAM† DCC Open* DCC Controlled†

Clear Cell Sarcoma of the Kidney (CCSK)

Clinical File
Clinical File†
Sample Matrix

Affymetrix U133 Plus 2
DCC Open*

Affymetrix SNP 6.0
DCC Open* DCC Controlled †

Illumina Infinium 450k
DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Rhabdoid Tumor (RT)

Clinical File
Clinical File†
Sample Matrix

mRNA-seq
FASTQ/BAM† DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Bisulfite-seq
FASTQ/BAM† DCC Open* DCC Controlled†

miRNA-seq
FASTQ/BAM† DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

ChIP-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Model Systems (MDLS)

NBL Model Systems

Clinical File

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

Pediatric Preclinical Testing Program (PPTP)

Sample Matrix

Agilent SurePrint G3; Affymetrix U133 Plus 2
DCC Open*

Affymetrix SNP6 Illumina Omni5
DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

Neuroblastoma (NBL)

NBL

Clinical File
Sample Matrix

Affymetrix Exon ST
DCC Open* DCC Controlled†

Illumina 550k SNP
DCC Open* DCC Controlled†

Illumina Infinium 450k
DCC Open*

miRNA-seq

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open* DCC Controlled†

Targeted Resequencing
FASTQ/BAM† DCC Open* DCC Controlled†

Targeted Resequencing
Sequence Trace Linking Table† 116 genes*

Osteosarcoma (OS)

Clinical File
Sample Matrix

Affymetrix Exon ST
DCC Open* DCC Controlled†

Affymetrix SNP 6.0
DCC Open* DCC Controlled†

Illumina Infinium 450k
DCC Open*

MegaPlex TaqMan
DCC Open*

Whole Genome
FASTQ/BAM† DCC Open* DCC Controlled†

Whole Exome
FASTQ/BAM† DCC Open* DCC Controlled†

mRNA-seq
FASTQ/BAM† DCC Open*

Projects and assays with available information or data are hyperlinked

ALL Phase I

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix U133 Plus 2

DCC Open*

Copy Number:

Affymetrix SNP 500k

DCC Open*
DCC Controlled†

Methylation:

MiRNA:

Sequence:

Whole Genome

View cases*
FASTQ/BAM†
DCC Controlled†

Whole Genome Lite

View cases*
FASTQ/BAM†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Targeted Resequencing

Sequence Trace Linking Table†
125 Genes*

Other:

Kinome

Kinome Linking Table†
113 genes*

ALL Phase II

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix U133 Plus 2

DCC Open*

Copy Number:

Affymetrix SNP 6.0

DCC Open*
DCC Controlled†

Methylation:

NimbleGen HELP

DCC Open*

MiRNA:

miRNA-seq

FASTQ/BAM†
DCC Open*

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

AML

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix Gene ST

DCC Open*

Copy Number:

Affymetrix SNP 6.0

DCC Open*
DCC Controlled†

Methylation:

Illumina Infinium 27k

DCC Open*

MiRNA:

miRNA-seq

FASTQ/BAM†
DCC Open*

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Targeted Resequencing

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

Wilms Tumor (WT)

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix U133 Plus 2

DCC Open*

Copy Number:

Affymetrix SNP 6.0

DCC Open*
DCC Controlled†

Methylation:

Illumina Infinium 450k

DCC Open*

MiRNA:

miRNA-seq

FASTQ/BAM†
DCC Open*

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Targeted Resequencing

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

Clear Cell Sarcoma of the Kidney (CCSK)

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix U133 Plus 2

DCC Open*

Copy Number:

Affymetrix SNP 6.0

DCC Open*
DCC Controlled †

Methylation:

Illumina Infinium 450k

DCC Open*

MiRNA:

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

Rhabdoid Tumor (RT)

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

mRNA-seq

FASTQ/BAM†
DCC Open*

Copy Number:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Methylation:

Bisulfite-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

MiRNA:

miRNA-seq

FASTQ/BAM†
DCC Open*

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

ChIP-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

NBL Model Systems

Patient Data:

Clinical File

Gene Expression:

Copy Number:

Methylation:

MiRNA:

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

Pediatric Preclinical Testing Program (PPTP)

Patient Data:

Sample Matrix

Gene Expression:

Agilent SurePrint G3; Affymetrix U133 Plus 2

DCC Open*

Copy Number:

Affymetrix SNP6 Illumina Omni5

DCC Open*
DCC Controlled†

Methylation:

MiRNA:

Sequence:

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

NBL

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix Exon ST

DCC Open*
DCC Controlled†

Copy Number:

Illumina 550k SNP

DCC Open*
DCC Controlled†

Methylation:

Illumina Infinium 450k

DCC Open*

MiRNA:

miRNA-seq

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*
DCC Controlled†

Targeted Resequencing

FASTQ/BAM†
DCC Open*
DCC Controlled†

Other:

Targeted Resequencing

Sequence Trace Linking Table†
116 genes*

Patient Data:

Clinical File

Sample Matrix

Gene Expression:

Affymetrix Exon ST

DCC Open*
DCC Controlled†

Copy Number:

Affymetrix SNP 6.0

DCC Open*
DCC Controlled†

Methylation:

Illumina Infinium 450k

DCC Open*

MiRNA:

MegaPlex TaqMan

DCC Open*

Sequence:

Whole Genome

FASTQ/BAM†
DCC Open*
DCC Controlled†

Whole Exome

FASTQ/BAM†
DCC Open*
DCC Controlled†

mRNA-seq

FASTQ/BAM†
DCC Open*

Other:

TARGET Data Legend
Blue: Public* Red: Protected† Black: Unavailable	All DCC Controlled† access links require an NIHEXT account All FASTQ/BAM† are controlled access links and require an eRA Commons account