Lab Activities
Laboratory for Integrative Genomics
Research Activities
Team Director
Jun Seita
The Laboratory for Integrated Genomics advances genomics and single-cell omics research while providing core facility functions for proteomics and flow cytometry. For single-cell transcriptomics, we handle the entire process end-to-end, from library preparation and sequencing of cell samples to generating data, and then processing this high-dimensional data through bioinformatics to make it interpretable. This includes elucidating the role of TLR7 responses in glomerular macrophages in glomerulonephritis caused by systemic lupus erythematosus (Tanaka et al. Int Immunol), cross-sectional and longitudinal multi-omics cohort analysis of atopic dermatitis (Fukushima-Nomura et al. Nat Commun), and the discovery that melanocyte stem cells and their niche cooperatively determine individual stem cell fates via antagonistic stress response pathways depending on the type of genotoxic damage incurred (Mohri et al. Nat Cell Biol).
Furthermore, the Non-Human Scientist Project, launched last year, which integrates reinforcement learning and world models—cutting-edge AI—with experimental automation, has steadily advanced the acquisition of foundational data and filed a patent application for its core algorithm.
The Advanced Multi-Omics Technology Division was established in April 2025. Proteomics activity is currently transitioning to the Proteomics Unit, and flow cytometry activity is transitioning to the Cell Function Analysis Support Unit. For details on activities in 2025, please refer to the respective unit pages within the Multi-Omics Infrastructure Division.
Dr. Seita gave an invited talk at the EU AI in Science Summit, Nov 3-4, 2025, Copenhagen
Recent Major Publications
Mohri Y, Nie J, Morinaga H, Kato T, Aoto T, Yamanashi T, Nanba D, Matsumura H, Kirino S, Kobiyama K, Ishii KJ, Hayashi M, Suzuki T, Namiki T, Seita J, Nishimura EK. Antagonistic stem cell fates under stress govern decisions between hair greying and melanoma. Nat Cell Biol 27(10), 1647–1659 (2025)
Fukushima-Nomura A, Kawasaki H, Yashiro K, Obata S, Tanese K, Ebihara T, Saeki H, Etoh T, Hasegawa T, Yazaki J, Seita J, Ohara O, Sekita A, Miyai T, Ashizaki K, Koseki H, Sakurada K, Kawakami E, Amagai M. An unbiased tissue transcriptome analysis identifies potential markers for skin phenotypes and therapeutic responses in atopic dermatitis. Nat Commun 16(1), 4981 (2025)
Kondo T, Ito S, Takano J, Han Y, Endo T, Kondo K, Shibata M, Kawashima Y, Sugishita H, Harachi M, Sharif J, Seita J, Ohara O, Nakayama M, Koseki H. SKP1A bound to Polycomb-silenced genes mediates degradation of PRC2 and preconditions their activation. Mol Cell 85(17), 3306–3320.e6 (2025)
Tanaka R, Murakami Y, Ellis D, Seita J, Yinga W, Kakuta S, Kumano K, Fukui R, Miyake K. TLR7 responses in glomerular macrophages accelerate the progression of glomerulonephritis in NZBWF1 mice. Int Immunol, dxaf005 (2025)
Invited Presentations
Seita J. Autonomous Acquisition of Disease Model Degital Twin by Deep Learning. 3rd WPI-PRIMe International Symposium -Towards Patient Bio-Digital Twin-, Osaka, Japan, March 14–14 (2025)
Seita J. Reinforcement Learning with World Model for Autonomous Scientific Discovery in Biology. India-Japan Meeting on the Nobel Turing Challenge, Tokyo, Japan, March 24–25 (2025)
Seita J. Privacy, Ethics, Sovereignty, and Strategic Use of Health Data Regulatory Challenges. From the View Point of AI Research.. France–Japan Bilateral Seminar on HEALTH DATA, Tokyo, Japan, June 20–20 (2025)
Seita J. Autonomous Scientific Discovery in Biology. Western Michigan University Homer Stryker MD School of Medicine Seminar, Michigan, United States, August 18–18 (2025)
Seita J. Autonomous Scientific Discovery in Biology. EU AI in Science Summit, Copenhagen, Denmark, November 3–4 (2025)