Comprehensive analysis of the (epi)genome of pediatric atypical teratoid/rhabdoid tumours (AT/RTs)

Study ID	Alternative Stable ID	Type
EGAS00001001297		Other

Study ID

Alternative Stable ID

Type

EGAS00001001297

Other

Study Description

Whole exome sequencing of atypical teratoid /rhabdoid tumors (AT/RTs) revealed recurrent mutations only in SMARCB1, a gene involved in chromatin remodeling. However, preliminary data from our lab using gene expression and DNA methylation arrays shows that there are three distinct molecular subgroups of AT/RTs, suggesting that other molecular alterations underlying the development of these aggressive pediatric brain tumors must be found outside the coding genome or at the epigenomic level. Identification of these (epi)genomic alterations, which we intend to address in this project, may lead to novel treatment strategies for these tumors and reveal options for meaningful patient stratification.

Dataset ID	Description	Technology	Samples
EGAD00001001444	Atypical teratoid/rhabdoid tumor (ATRT) is one of the most common brain tumors in infants and young children. Although the prognosis of ATRT patients is poor, some patients respond very well to current treatments, suggesting inter-tumor molecular heterogeneity. To investigate this further, we genetically and epigenetically analyzed a large cohort of ATRTs (n = 170). Three distinct molecular subgroups of ATRTs, associated with differences in demographics, tumor location and type of SMARCB1 ... (Show More) Atypical teratoid/rhabdoid tumor (ATRT) is one of the most common brain tumors in infants and young children. Although the prognosis of ATRT patients is poor, some patients respond very well to current treatments, suggesting inter-tumor molecular heterogeneity. To investigate this further, we genetically and epigenetically analyzed a large cohort of ATRTs (n = 170). Three distinct molecular subgroups of ATRTs, associated with differences in demographics, tumor location and type of SMARCB1 alterations, were identified using DNA-methylation or gene expression analyses. Whole genome DNA- and RNA-sequencing found no other recurrent mutations explaining the differences between subgroups. However, whole genome bisulfite-sequencing and H3K27Ac ChI... (Read more)	Illumina HiSeq 2000,Illumina HiSeq 2500	55
EGAD00001002135	ChIPseq data of Atypical teratoid/rhabdoid tumors (ATRT) ChIPseq data of Atypical teratoid/rhabdoid tumors (ATRT)	Illumina HiSeq 2000,Illumina HiSeq 2500	15
EGAD00001002136	RNA sequencing data of Atypical teratoid/rhabdoid tumors (ATRT) RNA sequencing data of Atypical teratoid/rhabdoid tumors (ATRT)	Illumina HiSeq 2000	25
EGAD00001002137	WGBS data of Atypical teratoid/rhabdoid tumors (ATRT) WGBS data of Atypical teratoid/rhabdoid tumors (ATRT)	Illumina HiSeq 2000,Illumina HiSeq 2500	15
EGAD00001002138	WGS data of Atypical teratoid/rhabdoid tumors (ATRT) WGS data of Atypical teratoid/rhabdoid tumors (ATRT)	Illumina HiSeq 2000	36
EGAD00001003408	Chip-Seq sequencing data of Atypical teratoid/rhabdoid tumors (ATRT) Chip-Seq sequencing data of Atypical teratoid/rhabdoid tumors (ATRT)	Illumina HiSeq 2000	19

Dataset ID

Description

Technology

Samples

EGAD00001001444

Atypical teratoid/rhabdoid tumor (ATRT) is one of the most common brain tumors in infants and young children. Although the prognosis of ATRT patients is poor, some patients respond very well to current treatments, suggesting inter-tumor molecular heterogeneity. To investigate this further, we genetically and epigenetically analyzed a large cohort of ATRTs (n = 170). Three distinct molecular subgroups of ATRTs, associated with differences in demographics, tumor location and type of SMARCB1 ... (Show More)

Illumina HiSeq 2000,Illumina HiSeq 2500

EGAD00001002135

ChIPseq data of Atypical teratoid/rhabdoid tumors (ATRT)

Illumina HiSeq 2000,Illumina HiSeq 2500

EGAD00001002136

RNA sequencing data of Atypical teratoid/rhabdoid tumors (ATRT)

Illumina HiSeq 2000

EGAD00001002137

WGBS data of Atypical teratoid/rhabdoid tumors (ATRT)

Illumina HiSeq 2000,Illumina HiSeq 2500

EGAD00001002138

WGS data of Atypical teratoid/rhabdoid tumors (ATRT)