Evidence map›Paper›PMID 41277538›Full record

ArticleNucleic acids research2026

DDBJ update in 2025: system integration for global data-sharing including pathogen surveillance.

Takeshi Ara, Yuichi Kodama, Takatomo Fujisawa, Takehide Kosuge, Kyungbum Lee, Jun Mashima, Osamu Ogasawara, Yasuhiro Tanizawa, Tomoya Tanjo, Yasukazu Nakamura and 1 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Review
  2. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Takeshi AraBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0003-1754-2837
Yuichi KodamaBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0001-7691-9812
Takatomo FujisawaBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.
Takehide KosugeBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.
Kyungbum LeeBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.
Jun MashimaBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0003-4138-1893
Osamu OgasawaraBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0001-6001-3397
Yasuhiro TanizawaBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0002-6294-3309
Tomoya TanjoBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.
Yasukazu NakamuraBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0002-6782-5715
Masanori AritaBioinformation and DDBJ Center, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0001-6706-0487

Funding

Pathogen Data NetworkU24AI183840 · NIAID · SWISS INSTITUTE OF BIOINFORMATICS · PI Christophe Dessimoz, Sam Fo Halabi · 2024 to 2026
$9.1M
AMED JP20gm1010006AMED JP24jm0210113CRESTJapan Agency for Medical Research and DevelopmentJST JPMJCR1501JST JPMJGX23B0MEXTNational Institute of Allergy and Infectious DiseasesNEDONew Energy and Industrial Technology Development OrganizationNIAID NIH HHS U24 AI183840NIH HHS U24AI183840ROIS
6 · The paper itself

Abstract

The Bioinformation and DNA Data Bank of Japan Center (https://www.ddbj.nig.ac.jp/) continues to serve as a global core infrastructure for biological information as part of the International Nucleotide Sequence Database Collaboration. In 2024, we reinforced data quality and transparency through mandatory metadata standards, including sampling geolocation and date, aligning with international debates on Digital Sequence Information. Our repositories expanded across multiple omics layers, and our secure environment for analysis of personal genome provides tools and precomputed data on personal genomes archived at the Japanese Genotype-phenotype Archive. International collaboration was advanced through metadata harmonization with the Korea Bioinformation Center and the China National Genomics Data Center, which strengthened regional data resilience and integration. Inside Japan, we began a new collaboration with the Japan Institute of Health Security\, which facilitated the systematic release of pathogen genomes via the Pathogens.jp portal. To support these expanding activities, our high-performance computing infrastructure was renewed with 14 000 CPU cores, 50 PB Lustre storage, and newly deployed GPU nodes. These updates enable both AI-driven analyses and cost-efficient large-scale genome reanalysis.

Indexed as

Databases, GeneticDatabases, Nucleic AcidInformation DisseminationGenomicsHumansJapanMetadataSystems Integration

Identifiers

PMID41277538
PMCPMC12807687

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.