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Due to system maintenance, the application system, application review by the Data Access Committee will be unavailable during the following period.
Schedule: October 5th (Mon), 2026, 9:00 - October 7th (Wed), 2026, 15:00 (JST)
We apologize for any inconvenience this may cause and appreciate your understanding.

We are currently receiving a large number of applications for data submission, and the review process is taking longer than usual.We sincerely apologize for the delay and kindly ask for your understanding. When submitting an application, we would greatly appreciate it if you could allow sufficient time for the processing.

Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Dataset ID

JGAD000088

Type of data
SNP-chip for PBL
Methylation array for PBL
NGS (Exome) for PBL
NGS (RNA-seq) for PBL
Access criteria
Controlled-access (Type I)
Total data volume
193 GB
File formats
  • BAM
  • IDAT
  • CEL
  • CHP
Research
hum0035
Date published
2020-09-28
Date modified
2020-11-18
DDBJ Search
JGAD000088 (opens in a new tab)
JGA Study
JGAS000088 (opens in a new tab)

Analysis method

WES

Materials and participants
10 PBLs
  • Health status
    Mixed
  • Subject count
    10 (Individual)
  • Age group
    Child
Sample description
DNA extracted from tumor tissues and peripheral blood cells as non-tumor tissues
  • Tissue
    Peripheral blood
  • Tumor / normal
    Mixed
Sample provider
N/A
Experimental method
WES
Target
N/A
Reagent kit
SureSelect Human All Exon
Fragmentation
Ultrasonic fragmentation (Covaris S220)
Platform
Illumina HiSeq 2000
Illumina HiSeq 2500
Read type
Paired-end
Read length
75–108 bp
Reference genome
GRCh37
European Genome-phenome Archive Accession
EGAD00001000822 / EGAS00001000662 (PPB)
EGAD00001001105 / EGAS00001000884 (RMS)
Data use policy
NBDC data sharing policy (JGAP000001)

Genotyping by array

Materials and participants
10 PBLs
  • Health status
    Mixed
  • Subject count
    10 (Individual)
  • Age group
    Child
Sample description
DNAs extracted from neuroblastoma cell lines, HBL cell lines, tumor tissues of NB, HBL and pediatric germ cell tumors, and peripheral blood cells of NB as non-tumor tissues
  • Tissue
    Peripheral blood
  • Tumor / normal
    Mixed
Cell line
Hepatoblastoma cell line
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Reagent kit
CytoScan HD Kit
Platform
Affymetrix CytoScan HD
Analysis method
Copy Number for GeneChip software (CNAG) and allele-specific copy-number analysis using anonymous references (AsCNAR)
Variant count
CytoScan HD Array: 2,696,550 CNVs
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)

メチル化アレイ

Materials and participants
10 PBLs
  • Health status
    Affected
  • Subject count
    10 (Individual)
  • Age group
    Child
Sample description
DNAs extracted from tumor tissues of pancreatoblastoma, hepatoblastoma and pediatric germ cell tumors, and HBL cell lines
  • Tissue
    Liver, Pancreas
  • Tumor / normal
    Tumor
Cell line
Hepatoblastoma cell line
Sample provider
N/A
Experimental method
Methylation array
Target
N/A
Reagent kit
Infinium MethylationEPIC BeadChip Kit
Platform
Illumina Infinium MethylationEPIC
QC and filtering
N/A
Normalization
N/A
Analysis method
N/A
Probe count
450 (K probes raw data)
Data use policy
NBDC data sharing policy (JGAP000001)

RNA-seq

Materials and participants
10 PBLs
  • Health status
    Affected
  • Subject count
    10 (Individual)
  • Age group
    Child
Sample description
RNAs extracted from tumor tissues of pancreatoblastoma, hepatoblastoma, pediatric germ cell tumors and neuroblastoma, and HBL cell lines
  • Tumor / normal
    Tumor
Cell line
Hepatoblastoma cell line
Sample provider
N/A
Experimental method
RNA-seq
Target
N/A
Reagent kit
NEBNext Ultra RNA Library Prep Kit for Illumina
TruSeq RNA Library Prep Kit
Fragmentation
included in the above library construction kit
Platform
Illumina HiSeq 2500
Read type
Paired-end
Read length
108 bp
Reference genome
GRCh37
Data use policy
NBDC data sharing policy (JGAP000001)