Evidence map›Paper›PMID 40335902›Full record

ArticleBMC genomics2025

JOB: Japan Omics Browser provides integrative visualization of multi-omics data.

Yugo Takahashi, Qingbo S Wang, Takanori Hasegawa, Ho Namkoong, Fumitaka Inoue, Koichi Fukunaga, Seiya Imoto, Satoru Miyano, Yukinori Okada, Japan COVID-19 Task Force

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

10 authors.

Yugo TakahashiFaculty of Medicine, Osaka University, Suita, Japan.
Qingbo S WangDepartment of Genome Informatics, Graduate School of Medicine, The University of Tokyo, Bunkyo, Tokyo, Japan. qingbow@m.u-tokyo.ac.jp.
Takanori HasegawaM&D Data Science Center, Institute of Integrated Research, Institute of Science Tokyo, Tokyo, Japan.
Ho NamkoongDepartment of Infectious Diseases, Keio University School of Medicine, Tokyo, Japan.
Fumitaka InoueInstitute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan.
Koichi FukunagaDivision of Pulmonary Medicine, Department of Medicine, Keio University School of Medicine, Tokyo, Japan.
Seiya ImotoDivision of Health Medical Intelligence, Human Genome Center, the Institute of Medical Science, the University of Tokyo, Tokyo, Japan.
Satoru MiyanoM&D Data Science Center, Institute of Integrated Research, Institute of Science Tokyo, Tokyo, Japan.
Yukinori OkadaDepartment of Genome Informatics, Graduate School of Medicine, The University of Tokyo, Bunkyo, Tokyo, Japan. yuki-okada@m.u-tokyo.ac.jp.
Japan COVID-19 Task Force

Funding

Japan Agency for Medical Research and Development JP23kk0305022, JP22ek0410075, JP23km0405211, JP23km0405217, JP23ek0109594, JP23ek0410113, JP223fa627002, JP223fa627010, JP233fa627011, JP23zf0127008JSPS KAKENHI 22H00476, 23K14233JST FOREST JPMJFR225YJST Moonshot R&D JPMJMS2021, JPMJMS2024
6 · The paper itself

Abstract

We present the Japan Omics Browser (JOB), which enables integrative analysis of human omics at different layers. JOB offers visualization of per-variant regulatory effects in the human blood at mRNA and protein level distinctively, quantified from statistical fine-mapping of mRNA-expression quantitative loci (eQTL) and protein QTLs (pQTLs) in 1,405 Japanese, together with fine-mapping results of 94 complex traits in UK Biobank. In addition, JOB shows per-tissue regulatory effect prediction score (EMS), trained via multi-task learning. Furthermore, validation scores from Massively Parallel Reporter Assay (MPRA) in two cell types are available for over 10,000 variants. JOB is publicly available at https://japan-omics.jp/ .

Indexed as

GenomicsSoftwareWeb BrowserDatabases, GeneticHumansJapanMultiomicsQuantitative Trait LociDatabaseeQTLFine-mappingIntegrative analysisMachine-learningMassively parallel reporter assayMulti-OmicspQTLRegulatory effectsWeb tool

Identifiers

PMID40335902
PMCPMC12057183

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.