バイオデータサイエンス・オミクス支援ユニット

腫瘍学をはじめとする生命科学研究は、定量解析やオミクス解析の発展に伴い、情報科学の側面を強く持つようになりました。さらに、患者様の背景や臨床情報を含めると、多様な性質を持つ情報を統合的に処理・解析することが求められます。
当ユニットは、ゲノム、エピゲノム、トランスクリプトーム、プロテオーム、メタボローム、１細胞オミクス、空間オミクスなど、多層的なオミクスデータと臨床情報を統合的に解析することで、がんの発生・進展の理解と、その分子基盤に基づく治療標的の探索および新たな治療法の確立を目指しています。最新のバイオインフォマティクス、統計学、機械学習・人工知能（AI）を活用したデータサイエンス手法を駆使し、大規模データから新たなバイオマーカーや治療標的を探索するとともに、Precision Medicineの実現につながる研究を推進します。また、研究所内外の研究者が取得したデータの解析支援を通じて、学際的ながん研究を促進します。
一方で、既存のデータサイエンス解析手法やバイオインフォマティクス解析手法が、必ずしも研究者の実際のニーズや研究目的に適しているとは限りません。当ユニットでは、研究課題に応じてアルゴリズムを最適化するとともに、新たな解析手法を開発・確立することで、新たな知見の創出を目指しています。
大阪国際がんセンター内外および産官学を問わず、共同研究に関するご相談を受け付けています。
相談先：ユニット長　中山淳

1. Urabe F, Yoshihara K, Nakayama J, Hirano Y, Watanabe N, Suzuki H, Umemori M, Ito K, Igarashi T, Sato S, Kimura T, Furuta T, Yamamoto Y.
   Single-cell transcriptomic analysis reveals cellular dynamics within the bladder microenvironment in Hunner-type interstitial cystitis.
   iScience. in press.
2. Shoji T, Shinojima A, Kishimoto T, Sato K, Ikegami N, Yumoto E, Shindo R, Uchida Y, Kusumi S, Koga D, Yamamoto E, Hirano Y, Ogino R, Shibata H, Izawa K, Yasumi T, Sato R, Nakayama J, Higashiyama S, Hasegawa J, Kajiho H, Sasaki T, Kuchitsu Y, Taguchi T.
   A PI(3,5)P(2)/CHMP4B axis on lysosomes is essential for microautophagic degradation of STING.
   Nature Communications. 2026 May 27;17(1).
3. Tokura M, Nakayama J, Suzuki H, Ochi M, Umemori M, Shiino S, Yoshida M, Takayama S, Yatabe Y, Yamamoto Y.
   Spatial Transcriptomics and Bulk RNA-Seq Analysis Revealed Molecular Classification of Invasive Lobular Carcinoma.
   Cancer Science. 2026 May 21;.
4. Tsubaki S, Nashimoto S, Tanaka R, Toyomoto T, Tsutsuki H, Kato K, Nakayama J, Kimura K, Oshima K, Yamamoto Y, Okusaka T, Esaki M, Kawai N, Ota N, Yoshioka Y, Ochiya T, Saito Y, Sawa T, Hozumi K, Matsuzaki J, Tsugawa H.
   Gut Commensal Klebsiella pneumoniae Extracellular Vesicles Shape a Liver Microenvironment Conducive to Gut-Liver Bacterial Translocation and Pro-Tumorigenic Processes.
   Journal of Extracellular Vesicles. a2026 Apr;15(4):e70262.
5. Hirano Y, Suzuki H, Nakayama J, Yamamoto T, Hirata E, Araya J, Fujita Y, Yamamoto Y.
   An integrated single-cell lung cancer atlas reveals distinct fibroblast phenotypes between adenocarcinoma and squamous cell carcinomas.
   NPJ Precision Oncology. 2026 Jan 23;10(1):72.
6. Vu AD, Mori S, Akamatsu K, Nakayama J, Sakamoto T.
   Ring-Finger Protein 126 (RNF126) Promotes Anoikis Resistance and Peritoneal Colonization in Ovarian Cancer.
   International Journal of Molecular Sciences. 2025 Dec 18;26(24).
7. Azuma K, Matsuyama T, Watanabe S, Semba K, Nakayama J.
   TIE1 Promotes Primary Tumor Growth by Inhibiting Apoptosis and Activating the AKT-p70S6K Signaling Pathway in Breast Cancer.
   Genes to Cells. 2025 Nov;30(6):e70062.
8. Habu K, Matsuoka Y, Hiyoshi H, Nakayama J, Watanabe K, Tate S, Sakaue T, Murai J, Uno K, Nishie H, Kubota E, Kataoka H, Joh T, Watanabe Y, Oshikiri T, Higashiyama S.
   KLHL5 Contributes to Colorectal Cancer Cell Survival by Promoting Cell Cycle Progression and Suppressing Apoptotic Cell Death.
   Cancer Science. 2025 Sep;116(9):2444-2456.
9. Uno K, Nishie H, Hiyoshi H, Habu K, Nakayama J, Tate S, Sakaue T, Kubota E, Tanaka M, Shimura T, Kataoka H, Joh T, Higashiyama S.
   Implication of KLHL Gene Family Member KLHL5 in Colorectal Cancer Progression and Prognosis.
   Cancer Science. 2025 Sep;116(9):2580-2591.
10. Koide S, Yumoto E, Nakayama J, Higashiyama S, Kuchitsu Y, Taguchi T.
    Cell biological insights into human STING variants.
    Cell Structure and Function. 2025 Jun 7;50(1):135-144.
11. Yoshida K, Yokoi A, Suzuki H, Tamauchi S, Kitagawa M, Inami E, Nakayama J, Mori Y, Okamoto K, Suzuki Y, Yoshida H, Kato T, Kajiyama H, Yamamoto Y.
    Single-Nucleus RNA Sequencing and Spatial Transcriptomics for Squamous Cell Carcinoma Arising From Ovarian Mature Teratoma.
    Cancer Science. 2025 May;116(5):1339-1351.
12. Weisheng Z, Nakayama J, Inomata Y, Higashiyama S, Hiratsuka T.
    A sensitive ERK fluorescent probe reveals the significance of minimal EGF-induced transcription.
    Cell Structure and Function. 2025 Feb 7;50(1):15-24.
13. Nakamichi K, Suzuki H, Yamamoto Y, Semba K, Nakayama J.
    Nuclear receptor profiling for subtype classification and as prognostic markers in 33 cancer types.
    Discover Oncology. 2024 Dec 24;15(1):834.
14. Murayama T, Mahadevan NR, Meador CB, Ivanova EV, Pan Y, Knelson EH, Tani T, Nakayama J, Ma X, Thai TC, Hung YP, Kim W, Watanabe H, Cai KQ, Hata AN, Paweletz CP, Barbie DA, Cañadas I.
    Targeting TREX1 Induces Innate Immune Response in Drug-Resistant Small-Cell Lung Cancer.
    Cancer Research Communications. 2024 Sep 1;4(9):2399-2414.
15. Yamamoto T†, Nakayama J†, Urabe F, Ito K, Nishida-Aoki N, Kitagawa M, Yokoi A, Kuroda M, Hattori Y, Yamamoto Y, Ochiya T.
    Aberrant regulation of serine metabolism drives extracellular vesicle release and cancer progression.
    Cell Reports. 2024 Aug 27;43(8):114517.
16. Murayama T, Nakayama J, Jiang X, Miyata K, Morris AD, Cai KQ, Prasad RM, Ma X, Efimov A, Belani N, Gerstein ER, Tan Y, Zhou Y, Kim W, Maruyama R, Campbell KS, Chen L, Yang Y, Balachandran S, Cañadas I.
    Targeting DHX9 Triggers Tumor-Intrinsic Interferon Response and Replication Stress in Small Cell Lung Cancer.
    Cancer Discovery. 2024 Mar 1;14(3):468-491.
17. Kuroiwa Y, Ito K, Nakayama J, Semba K, Yamamoto Y.
    Analysis of the responsiveness to antiandrogens in multiple breast cancer cell lines.
    Genes to Cells. 2024 Apr;29(4):301-315.
18. Ishibashi K, Ichinose T, Kadokawa R, Mizutani R, Iwabuchi S, Togi S, Ura H, Tange S, Shinjo K, Nakayama J, Nanjo S, Niida Y, Kondo Y, Hashimoto S, Sahai E, Yano S, Nakada M, Hirata E.
    Astrocyte-induced mGluR1 activates human lung cancer brain metastasis via glutamate-dependent stabilization of EGFR.
    Developmental Cell. 2024 Mar 11;59(5):579-594.e6.
19. Nakamichi K, Yamamoto Y, Semba K, Nakayama J.
    Metastatic potentials classified with hypoxia-inducible factor 1 downstream genes in pan-cancer cell lines.
    Genes to Cells. 2024 Feb;29(2):169-177.
20. Yamaguchi K†, Nakayama J†, Yamamoto T†, Semba K, Shirota T, Yamamoto Y.
    Collagen induction of immune cells in the mammary glands during pregnancy.
    Physiological Genomics. 2024 Feb 1;56(2):128-135.
21. Inoue C, Mukai K, Matsudaira T, Nakayama J, Kono N, Aoki J, Arai H, Uchida Y, Taguchi T.
    PPP1R12A is a recycling endosomal phosphatase that facilitates YAP activation.
    Scientific Reports. 2023 Nov 13;13(1):19740.
22. Nakayama J, Yamamoto Y.
    Cancer-prone Phenotypes and Gene Expression Heterogeneity at Single-cell Resolution in Cigarette-smoking Lungs.
    Cancer Research Communications. 2023 Nov 10;3(11):2280-2291.
23. Yokoi A, Yoshida K, Koga H, Kitagawa M, Nagao Y, Iida M, Kawaguchi S, Zhang M, Nakayama J, Yamamoto Y, Baba Y, Kajiyama H, Yasui T.
    Spatial exosome analysis using cellulose nanofiber sheets reveals the location heterogeneity of extracellular vesicles.
    Nature Communications. 2023 Nov 8;14(1):6915.
24. Shiino S, Tokura M, Nakayama J, Yoshida M, Suto A, Yamamoto Y.
    Investigation of Tumor Heterogeneity Using Integrated Single-Cell RNA Sequence Analysis to Focus on Genes Related to Breast Cancer-, EMT-, CSC-, and Metastasis-Related Markers in Patients with HER2-Positive Breast Cancer.
    Cells. 2023 Sep 15;12(18).
25. Han Y, Katayama S, Futakuchi M, Nakamichi K, Wakabayashi Y, Sakamoto M, Nakayama J, Semba K.
    Targeting c-Jun Is a Potential Therapy for Luminal Breast Cancer Bone Metastasis.
    Molecular Cancer Research. 2023 Sep 1;21(9):908-921.
26. Ito K, Yamamoto T, Hayashi Y, Sato S, Nakayama J, Urabe F, Shimasaki T, Nakamura E, Matui Y, Fujimoto H, Kimura T, Egawa S, Ochiya T, Yamamoto Y.
    Osteoblast-derived extracellular vesicles exert osteoblastic and tumor-suppressive functions via SERPINA3 and LCN2 in prostate cancer.
    Molecular Oncology. 2023 Oct;17(10):2147-2167.
27. Hayashi Y, Nakayama J, Yamamoto M, Maekawa M, Watanabe S, Higashiyama S, Inoue JI, Yamamoto Y, Semba K.
    Aberrant accumulation of NIK promotes tumor growth by dysregulating translation and post-translational modifications in breast cancer.
    Cancer Cell International. 2023 Apr 1;23(1):57.
28. Yoshida K, Yokoi A, Kitagawa M, Sugiyama M, Yamamoto T, Nakayama J, Yoshida H, Kato T, Kajiyama H, Yamamoto Y.
    Downregulation of miR‑10b‑5p facilitates the proliferation of uterine leiomyosarcoma cells: A microRNA sequencing‑based approach.
    Oncology Reports. 2023 May;49(5).
29. Azuma K, Sakamoto M, Katayama S, Matsui A, Nakamichi K, Goshima N, Watanabe S, Nakayama J, Semba K.
    HOXB7 induces STAT3-mediated transformation and lung metastasis in immortalized mammary gland NMuMG cells.
    Genes to Cells. 2023 Apr;28(4):277-287.