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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)
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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

JGAD000046

Type of data
SNP-chip for NB
Target amplicon deep sequencing (NGS) for NB
Access criteria
Controlled-access (Type I)
Total data volume
34.8 GB
File formats
  • CEL
  • XLSX
Research
hum0035
Date published
2020-09-28
Date modified
2020-11-18
DDBJ Search
JGAD000046 (opens in a new tab)
JGA Study
JGAS000046 (opens in a new tab)

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
hum0035_500NB_ID.xlsxsample list used in the paper22.9 KB

Analysis method

Genotyping by array

Materials and participants
522 NBs (ICD10: C749) (*sample list used in the paper)
39 neuroblastoma cell lines
  • Health status
    Affected
  • Subject count
    561 (Mixed)
Disease
NBs (C749)
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
Neuroblastoma cell line
Sample provider
N/A
Experimental method
Genotyping by array
Target
N/A
Reagent kit
CytoScan HD Kit
Platform
Affymetrix CytoScan HD
Affymetrix GeneChip Human Mapping 250K Nsp Array
Analysis method
Copy Number for GeneChip software (CNAG) and allele-specific copy-number analysis using anonymous references (AsCNAR)
Variant count
GeneChip Human Mapping 250K Nsp Array: 262,264 CNVs
CytoScan HD Array: 2,696,550 CNVs
Phenotype data
Included
Data use policy
NBDC data sharing policy (JGAP000001)

Targeted DNA sequencing

Materials and participants
522 NBs (ICD10: C749)
  • Health status
    Affected
  • Subject count
    522 (Individual)
Disease
NBs (C749)
Sample description
DNAs extracted from neuroblastoma (tumor tissues)
  • Tumor / normal
    Tumor
Sample provider
N/A
Experimental method
Targeted DNA sequencing
Target
159 cases (NB_001~NB_159):
CHEK1, MRE11A, H2AFX, TP53, BRCA1, CHEK2, BARD1
500 cases (*see sample list):
ALK, MYCN, ATRX, ARID1A, ARID1B, PHOX2B, PTPN11, HRAS, KRAS, NRAS
Reagent kit
NEBNext Ultra DNA Library Prep Kit for Illumina
Fragmentation
Ultrasonic fragmentation (Covaris E220)
Platform
Illumina HiSeq 2000
Illumina MiSeq
Read type
Paired-end
Read length
100 bp
150 bp
Reference genome
GRCh37
Mapping
BWA
Analysis method
SAMtools
Data use policy
NBDC data sharing policy (JGAP000001)