DDBJ — DNA Data Bank of Japan

Overview

The DNA Data Bank of Japan (DDBJ) is Japan’s national nucleotide sequence database and the Asian partner in the International Nucleotide Sequence Database Collaboration (INSDC), alongside NCBI SRA (USA) and ENA / EMBL-EBI (Europe). DDBJ collects, annotates, and distributes nucleotide sequence data submitted by researchers worldwide, synchronising data daily with its INSDC partners so that a submission to any of the three databases is automatically available from all three.

DDBJ Services

DDBJ operates several specialised archives under a unified submission portal (D-way). The core DDBJ database archives annotated nucleotide sequences, equivalent to GenBank and ENA. DRA (DDBJ Sequence Read Archive) stores sequencing data at two levels: raw reads in FASTQ format as the direct sequencer output, and aligned reads in SAM-BAM-CRAM format after mapping to a reference genome. It is equivalent to NCBI SRA and ENA. GEA (Genomic Expression Archive) hosts functional genomics data including RNA-seq and microarray datasets, equivalent to NCBI GEO. JGA (Japanese Genotype-phenotype Archive) provides controlled-access storage for sensitive human genomic and phenotypic data, equivalent to EGA.

Connections

• Part of: INSDC (with NCBI SRA and ENA / EMBL-EBI; see https://www.insdc.org)
• Controlled-access equivalent: JGA (equivalent to EGA)
• Open-access expression data: GEA (equivalent to NCBI GEO)

Resources

• https://www.ddbj.nig.ac.jp
• https://ddbj.nig.ac.jp/resource/sra-submission (DRA submission)
• https://www.insdc.org (INSDC collaboration overview)