JOB: Japan Omics Browser provides integrative visualization of multi-omics data
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...
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| Format: | Article |
| Language: | English |
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BMC
2025-05-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-025-11639-1 |
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| author | Yugo Takahashi Qingbo S. Wang Takanori Hasegawa Ho Namkoong Fumitaka Inoue Koichi Fukunaga Seiya Imoto Satoru Miyano Yukinori Okada Japan COVID-19 Task Force |
| author_facet | Yugo Takahashi Qingbo S. Wang Takanori Hasegawa Ho Namkoong Fumitaka Inoue Koichi Fukunaga Seiya Imoto Satoru Miyano Yukinori Okada Japan COVID-19 Task Force |
| author_sort | Yugo Takahashi |
| collection | DOAJ |
| description | 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/ . |
| format | Article |
| id | doaj-art-e0951a06f29e447f97fcf06489c94536 |
| institution | Kabale University |
| issn | 1471-2164 |
| language | English |
| publishDate | 2025-05-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj-art-e0951a06f29e447f97fcf06489c945362025-08-20T03:53:08ZengBMCBMC Genomics1471-21642025-05-0126111110.1186/s12864-025-11639-1JOB: Japan Omics Browser provides integrative visualization of multi-omics dataYugo Takahashi0Qingbo S. Wang1Takanori Hasegawa2Ho Namkoong3Fumitaka Inoue4Koichi Fukunaga5Seiya Imoto6Satoru Miyano7Yukinori Okada8Japan COVID-19 Task ForceFaculty of Medicine, Osaka UniversityDepartment of Genome Informatics, Graduate School of Medicine, The University of TokyoM&D Data Science Center, Institute of Integrated Research, Institute of Science TokyoDepartment of Infectious Diseases, Keio University School of MedicineInstitute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto UniversityDivision of Pulmonary Medicine, Department of Medicine, Keio University School of MedicineDivision of Health Medical Intelligence, Human Genome Center, the Institute of Medical Science, the University of TokyoM&D Data Science Center, Institute of Integrated Research, Institute of Science TokyoDepartment of Genome Informatics, Graduate School of Medicine, The University of TokyoAbstract 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/ .https://doi.org/10.1186/s12864-025-11639-1Multi-OmicsIntegrative analysisFine-mappingeQTLpQTLRegulatory effects |
| spellingShingle | Yugo Takahashi Qingbo S. Wang Takanori Hasegawa Ho Namkoong Fumitaka Inoue Koichi Fukunaga Seiya Imoto Satoru Miyano Yukinori Okada Japan COVID-19 Task Force JOB: Japan Omics Browser provides integrative visualization of multi-omics data BMC Genomics Multi-Omics Integrative analysis Fine-mapping eQTL pQTL Regulatory effects |
| title | JOB: Japan Omics Browser provides integrative visualization of multi-omics data |
| title_full | JOB: Japan Omics Browser provides integrative visualization of multi-omics data |
| title_fullStr | JOB: Japan Omics Browser provides integrative visualization of multi-omics data |
| title_full_unstemmed | JOB: Japan Omics Browser provides integrative visualization of multi-omics data |
| title_short | JOB: Japan Omics Browser provides integrative visualization of multi-omics data |
| title_sort | job japan omics browser provides integrative visualization of multi omics data |
| topic | Multi-Omics Integrative analysis Fine-mapping eQTL pQTL Regulatory effects |
| url | https://doi.org/10.1186/s12864-025-11639-1 |
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