2021
原著論文
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Hierarchical non-negative matrix factorization using clinical information for microbial communities
Abe K, Hirayama M, Ohno K, Shimamura T. BMC Genomics. accepted. |
2020
原著論文
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CYBERTRACK2.0: zero-inflated model-based cell clustering and population tracking method for longitudinal mass cytometry data
Minoura K, Abe K, Maeda Y, Nishikawa H, Shimamura T. Bioinformatics. 2020 Oct 14:btaa873. doi: 10.1093/bioinformatics/btaa873 |
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Model-based clustering for flow and mass cytometry data with clinical information
Abe K, Minoura K, Maeda Y, Nishikawa H, Shimamura T. BMC Bioinformatics. 2020 Sep 17;21(Suppl 13):393. doi: 10.1186/s12859-020-03671-7 |
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ARHGAP10, which encodes Rho GTPase-activating protein 10, is a novel gene for schizophrenia risk
Mori D, Sekiguchi M, Sobue A, Kushima I, Chenyao W, Arioka Y, Kato H, Kodama A, Kubo H, Ito N, Sawahata M, Hada K, Ikeda R, Shinno M, Mizukoshi C, Tsujimura K, Yoshimi A, Ishizuka K, Takasaki Y, Kimura H, Xing J, Yu Y, Yamamoto M, Okada T, Shishido E, Inada T, Nakatochi M, Takano T, Kuroda K, Amano M, Aleksic B, Yamamoto T, Sakuma T, Aida T, Tanaka K, Hashimoto R, Arai M, Ikeda M, Iwata N, Shimamura T, Nagai T, Nabeshima T, Kaibuchi K, Yamada K, Ozaki N. Translational Psychiatry, in press. |
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Integrated multiomics analysis of hepatoblastoma unravels its heterogeneity and provides novel druggable targets.
Sekiguchi M, Seki M, Kawai T, Yoshida K, Yoshida M, Isobe T, Hoshino N, Shirai R, Tanaka M, Souzaki R, Watanabe K, Arakawa Y, Nannya Y, Suzuki H, Fujii Y, Kataoka K, Shiraishi Y, Chiba K, Tanaka H, Shimamura T, Sato Y, Sato-Otsubo A, Kimura S, Kubota Y, Hiwatari M, Koh K, Hayashi Y, Kanamori Y, Kasahara M, Kohashi K, Kato M, Yoshioka T, Matsumoto K, Oka A, Taguchi T, Sanada M, Tanaka Y, Miyano S, Hata K, Ogawa S, Takita J. NPJ Precis Oncol. 2020 Jul 7;4:20. doi: 10.1038/s41698-020-0125-y. eCollection 2020. |
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Meta‐Analysis of Gut Dysbiosis in Parkinson's Disease
Nishiwaki H, Ito M, Ishida T, Hamaguchi T, Maeda T, Kashihara K, Tsuboi Y, Ueyama J, Shimamura T, Mori H, Kurokawa K, Katsuno M, Hirayama M, Ohno K. Mov Disord. 2020 Jun 18. doi: 10.1002/mds.28119. Online ahead of print. PMID: 32557853 |
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EXOSC9 depletion attenuates P-body formation, stress resistance, and tumorigenicity of cancer cells.
Yoshino S, Matsui Y, Fukui Y, Seki M, Yamaguchi K, Kanamori A, Saitoh Y, Shimamura T, Suzuki Y, Furukawa Y, Kaneko S, Seiki M, Murakami Y, Inoue JI, Sakamoto T. Sci Rep. 2020 Jun 9;10(1):9275. doi: 10.1038/s41598-020-66455-2. |
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Coordinated demethylation of H3K9 and H3K27 is required for rapid inflammatory responses of endothelial cells.
Higashijima Y, Matsui Y, Shimamura T, Nakaki R, Nagai N, Tsutsumi S, Abe Y, Link VM, Osaka M, Yoshida M, Watanabe R, Tanaka T, Taguchi A, Miura M, Ruan X, Li G, Inoue T, Nangaku M, Kimura H, Furukawa T, Aburatani H, Wada Y, Ruan Y, Glass CK, Kanki Y. EMBO J. 2020 Mar 3:e103949. doi: 10.15252/embj.2019103949. |
2019
原著論文
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Model-based cell clustering and population tracking for time-series flow cytometry data
Minoura K, Abe K, Maeda Y, Nishikawa H, Shimamura T. BMC Bioinformatics. 2019 Dec 27;20(Suppl 23):633. doi: 10.1186/s12859-019-3294-3. |
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Phosphoethanolamine Accumulation Protects Cancer Cells under Glutamine Starvation through Downregulation of PCYT2
Osawa T, Shimamura T, Saito K, Hasegawa Y, Ishii N, Nishida M, Ando R, Kondo A, Anwar M, Tsuchida R, Hino S, Sakamoto A, Igarashi K, Saito K, Kato K, Endo K, Yamano S, Kanki Y, Matsumura Y, Minami T, Tanaka T, Anai M, Wada Y, Wanibuchi H, Hayashi M, Hamada A, Yoshida M, Yachida S, Nakao M, Sakai J, Aburatani H, Shibuya M, Hanada K, Miyano S, Soga T, Kodama T. Cell Rep. 2019 Oct 1;29(1):89-103. doi: 10.1016/j.celrep.2019.08.087 |
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Replication stress triggers microsatellite destabilization and hypermutation leading to clonal expansion in vitro
Matsuno Y, Atsumi Y, Shimizu A, Katayama K, Fujimori H, Hyodo M, Minakawa Y, Nakatsu Y, Kaneko S, Hamamoto R, Shimamura T, Miyano S, Tsuzuki T, Hanaoka F, Yoshioka K Nat Commun. 2019 Sep 2; 10(1):3925. doi: 10.1038/s41467-019-11760-2. |
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Distinct methylation levels of mature microRNAs in gastrointestinal cancers.
Konno M, Koseki J, Asai A, Yamagata A, Shimamura T, Motooka D, Okuzaki D, Kawamoto K, Mizushima T, Eguchi H, Takiguchi S, Satoh T, Mimori K, Ochiya T, Doki Y, Ofusa K, Mori M, Ishii H. Nat Commun. 2019 Aug 29;10(1):3888. doi: 10.1038/s41467-019-11826-1. |
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Meflin-positive cancer-associated fibroblasts inhibit pancreatic carcinogenesis.
Mizutani Y, Kobayashi H, Iida T, Asai N, Masamune A, Hara A, Esaki N, Ushida K, Mii S, Shiraki Y, Ando K, Weng L, Ishihara S, Ponik SM, Conklin MW, Haga H, Nagasaka A, Miyata T, Matsuyama M, Kobayashi T, Fujii T, Yamada S, Yamaguchi J, Wang T, Woods SL, Worthley D, Shimamura T, Fujishiro M, Hirooka Y, Takahashi M, Enomoto A. Cancer Res. 2019 Aug 22. pii: canres.0454.2019. doi: 10.1158/0008-5472.CAN-19-0454 |
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Pathogenic epigenetic consequences of genetic alterations in IDH-wild-type diffuse astrocytic gliomas.
Ohka F, Shinjo K, Deguchi S, Matsui Y, Okuno Y, Katsushima K, Suzuki M, Kato A, Ogiso N, Yamamichi A, Aoki K, Suzuki H, Sato S, Rayan NA, Prabhakar S, Göke J, Shimamura T, Maruyama R, Takahashi S, Suzumura A, Kimura H, Wakabayashi T, Zong H, Natsume A, Kondo Y. Cancer Research. in press. doi: 10.1158/0008-5472.CAN-19-1272. |
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Divergent lncRNA MYMLR regulates MYC by eliciting DNA looping and promoter-enhancer interaction.
Kajino T, Shimamura T, Gong S, Yanagisawa K, Ida L, Nakatochi M, Griesing S, Shimada Y, Kano K, Suzuki M, Miyano S, Takahashi T. EMBO J. 2019 Jul 30:e98441. doi: 10.15252/embj.201798441. |
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ENIGMA: An Enterotype-Like Unigram Mixture Model for Microbial Association Analysis.
Abe K, Hirayama H, Ohno K, Shimamura T. BMC Genomics. 2019 Apr 4;20(Suppl 2):191. doi: 10.1186/s12864-019-5476-9. |
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Regnase-1-mediated post-transcriptional regulation is essential for hematopoietic stem and progenitor cell homeostasis.
Kidoya H, Muramatsu F, Shimamura T, Jia W, Satoh T, Hayashi Y, Naito H, Kunisaki Y, Arai F, Seki M, Suzuki Y, Osawa T, Akira S, Takakura N. Nat Commun. 2019 Mar 6;10(1):1072. |
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A Network of Networks Approach for Modeling Interconnected Brain Tissue-Specific Networks.
Kawakubo H, Matsui Y, Kushima I, Ozaki N, Shimamura T. Bioinformatics. 2019 Jan 15. doi: 10.1093/bioinformatics/btz032. [Epub ahead of print] |
2018
原著論文
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GIMLET: Identifying biological modulators in context-specific gene regulation using local energy statistics.
Shimamura T, Matsui Y, Kajino T, Ito S, Takahashi T, Miyano S. Lecture Notes in Bioinformatics, Volume 10834, Computational Intelligence Methods for Bioinformatics and Biostatistics, 115-123. |
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Tumor subclonal progression model for cancer hallmark acquisition.
Matsui Y, Miyano S, Shimamura T. Lecture Notes in Bioinformatics, Volume 10834, Computational Intelligence Methods for Bioinformatics and Biostatistics, 124-137. |
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Comparative Analyses of Copy-Number Variation in Autism Spectrum Disorder and Schizophrenia Reveal Etiological Overlap and Biological Insights.
Kushima I, Aleksic B, Nakatochi M, Shimamura T, Okada T, Uno Y, Morikawa M, Ishizuka K, Shiino T, Kimura H, Arioka Y, Yoshimi A, Takasaki Y, Yu Y, Nakamura Y, Yamamoto M, Iidaka T, Iritani S, Inada T, Ogawa N, Shishido E, Torii Y, Kawano N, Omura Y, Yoshikawa T, Uchiyama T, Yamamoto T, Ikeda M, Hashimoto R, Yamamori H, Yasuda Y, Someya T, Watanabe Y, Egawa J, Nunokawa A, Itokawa M, Arai M, Miyashita M, Kobori A, Suzuki M, Takahashi T, Usami M, Kodaira M, Watanabe K, Sasaki T, Kuwabara H, Tochigi M, Nishimura F, Yamasue H, Eriguchi Y, Benner S, Kojima M, Yassin W, Munesue T, Yokoyama S, Kimura R, Funabiki Y, Kosaka H, Ishitobi M, Ohmori T, Numata S, Yoshikawa T, Toyota T, Yamakawa K, Suzuki T, Inoue Y, Nakaoka K, Goto YI, Inagaki M, Hashimoto N, Kusumi I, Son S, Murai T, Ikegame T, Okada N, Kasai K, Kunimoto S, Mori D, Iwata N, Ozaki N. Cell Rep. 2018 Sep 11;24(11):2838-2856. doi: 10.1016/j.celrep.2018.08.022. |
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A latent allocation model for the analysis of microbial composition and disease.
Abe K, Hirayama H, Ohno K, Shimamura T. BMC Bioinformatics. 2018 Dec 31;19(Suppl 19):519. doi: 10.1186/s12859-018-2530-6. |
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A temporal shift of the evolutionary principle shaping intratumor heterogeneity in colorectal cancer.
Saito T, Niida A, Uchi R, Hirata H, Komatsu H, Sakimura S, Hayashi S, Nambara S, Kuroda Y, Ito S, Eguchi H, Masuda T, Sugimachi K, Tobo T, Nishida H, Daa T, Chiba K, Shiraishi Y, Yoshizato T, Kodama M, Okimoto T, Mizukami K, Ogawa R, Okamoto K, Shuto M, Fukuda K, Matsui Y, Shimamura T, Hasegawa T, Doki Y, Nagayama S, Yamada K, Kato M, Shibata T, Mori M, Aburatani H, Murakami K, Suzuki Y, Ogawa S, Miyano S, Mimori K. Nat Commun. 2018 Jul 23;9(1):2884. doi: 10.1038/s41467-018-05226-0. |
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ATR inhibition controls aggressive prostate tumors deficient in Y-linked histone demethylase KDM5D.
Komura K, Yoshikawa Y, Shimamura T, Chakraborty G, Gerke TA, Hinohara K, Chadalavada K, Jeong SH, Armenia J, Du SY, Mazzu YZ, Taniguchi K, Ibuki N, Meyer CA, Nanjangud GJ, Inamoto T, Lee GM, Mucci LA, Azuma H, Sweeney CJ, Kantoff PW. J Clin Invest. 2018 Jun 4. pii: 96769. doi: 10.1172/JCI96769. |
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Identification of Cardiomyocyte-Fated Progenitors from Human-Induced Pluripotent Stem Cells Marked with CD82.
Takeda M, Kanki Y, Masumoto H, Funakoshi S, Hatani T, Fukushima H, Izumi-Taguchi A, Matsui Y, Shimamura T, Yoshida Y, Yamashita JK. Cell Rep. 2018 Jan 9;22(2):546-556. doi: 10.1016/j.celrep.2017.12.057. |
2017
国際会議 Proceedings
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GIMLET: Identifying biological modulators in context-specific gene regulation using local energy statistics.
Shimamura T, Matsui Y, Kajino T, Ito S, Takahashi T, Miyano S. To be appeared in Proceedings of CIBB2017. The extended version will be published in Lecture Notes in Bioinformatics. |
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Tumor subclonal progression model for cancer hallmark acquisition.
Matsui Y, Miyano S, Shimamura T. To be appeared in Proceedings of CIBB2017. The extended version will be published in Lecture Notes in Bioinformatics. |
原著論文
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ER stress signaling promotes the survival of cancer 'persister cells' tolerant to EGFR tyrosine kinase inhibitors.
Terai H, Kitajima S, Potter DS, Matsui Y, Gutierrez Quiceno L, Chen T, Kim TJ, Rusan M, Thai TC, Piccioni F, Donovan KA, Kwiatkowski N, Hinohara K, Wei G, Gray NS, Fischer ES, Wong KK, Shimamura T, Letai A, Hammerman PS, Barbie DA. Cancer Res. 2017 Dec 19. pii: canres.1904.2017. doi: 10.1158/0008-5472.CAN-17-1904. [Epub ahead of print] |
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Integrated molecular characterization of the lethal pediatric cancer pancreatoblastoma.
Isobe T, Seki M, Yoshida K, Sekiguchi M, Shiozawa Y, Shiraishi Y, Kimura S, Yoshida M, Inoue Y, Yokoyama A, Kakiuchi N, Suzuki H, Kataoka K, Sato Y, Kawai T, Chiba K, Tanaka H, Shimamura T, Kato M, Iguchi A, Hama A, Taguchi T, Akiyama M, Fujimura J, Inoue A, Ito T, Deguchi T, Kiyotani C, Iehara T, Hosoi H, Oka A, Sanada M, Tanaka Y, Hata K, Miyano S, Ogawa S, Takita J. Cancer Res. 2017 Dec 12. pii: canres.2581.2017. doi: 10.1158/0008-5472.CAN-17-2581. |
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Adaptive NetworkProfiler for Identifying Cancer Characteristic-Specific Gene Regulatory Networks.
Park H, Shimamura T, Imoto S, Miyano S. J Comput Biol. 2017 Oct 20. doi: 10.1089/cmb.2017.0120. [Epub ahead of print] |
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Comprehensive genetic analysis of donor cell derived leukemia with KMT2A rearrangement.
Taniguchi R, Muramatsu H, Okuno Y, Suzuki K, Obu S, Nakatochi M, Shimamura T, Takahashi Y, Horikoshi Y, Watanabe K, Kojima S. Pediatr Blood Cancer. 2017 Sep 19. doi: 10.1002/pbc.26823. |
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Japanese genome-wide association study identifies a significant colorectal cancer susceptibility locus at chromosome 10p14.
Takahashi Y, Sugimachi K, Yamamoto K, Niida A, Shimamura T, Sato T, Watanabe M, Tanaka J, Kudo S, Sugihara K, Hase K, Kusunoki M, Yamada K, Shimada Y, Moriya Y, Suzuki Y, Miyano S, Mori M, Mimori K. Cancer Sci. 2017 Sep 4. doi: 10.1111/cas.13391. |
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PRC2-mediated transcriptomic alterations at the embryonic stage govern tumorigenesis and clinical outcome in MYCN-driven neuroblastoma.
Tsubota S, Kishida S, Shimamura T, Ohira M, Yamashita S, Cao D, Kiyonari S, Ushijima T, Kadomatsu K. Cancer Res. 2017 Aug 14. pii: canres.3144.2016. doi: 10.1158/0008-5472.CAN-16-3144. |
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Prognostic relevance of genetic alterations in diffuse lower-grade gliomas.
Aoki K, Nakamura H, Suzuki H, Matsuo K, Kataoka K, Shimamura T, Motomura K, Ohka F, Shiina S, Yamamoto T, Nagata Y, Yoshizato Y, Mizoguchi M, Abe T, Momii Y, Muragaki Y, Watanabe R, Ito I, Sanada M, Yajima H, Morita N, Takeuchi I, Miyano S, Wakabayashi T, Oagwa S, Natsume A. Neuro-Oncology, nox132. https://doi.org/10.1093/neuonc/nox132. |
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Recurrent SPI1 (PU.1) fusions in high-risk pediatric T cell acute lymphoblastic leukemia.
Seki M, Kimura S, Isobe T, Yoshida K, Ueno H, Nakajima-Takagi Y, Wang C, Lin L, Kon A, Suzuki H, Shiozawa Y, Kataoka K, Fujii Y, Shiraishi Y, Chiba K, Tanaka H, Shimamura T, Masuda K, Kawamoto H, Ohki K, Kato M, Arakawa Y, Koh K, Hanada R, Moritake H, Akiyama M, Kobayashi R, Deguchi T, Hashii Y, Imamura T, Sato A, Kiyokawa N, Oka A, Hayashi Y, Takagi M, Manabe A, Ohara A, Horibe K, Sanada M, Iwama A, Mano H, Miyano S, Ogawa S, Takita J. Nat Genet. 2017 Jul 3. doi: 10.1038/ng.3900. |
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Long non-coding RNA JHDM1D-AS1 promotes tumor growth by regulating angiogenesis in response to nutrient starvation.
Kondo A, Nonaka A, Shimamura T, Yamamoto S, Yoshida T, Kodama T, Aburatani H, Osawa T. Mol Cell Biol. 2017 Jun 26. pii: MCB.00125-17. doi: 10.1128/MCB.00125-17. |
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phyC: Clustering cancer evolutionary trees.
Matsui Y, Niida A, Uchi R, Mimori K, Miyano S, Shimamura T. PLoS Comput Biol. 2017 May 1;13(5):e1005509. doi: 10.1371/journal.pcbi.1005509. |
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Dynamically and epigenetically coordinated GATA/ETS/SOX transcription factor expression is indispensable for endothelial cell differentiation.
Kanki Y†, Nakaki R†, Shimamura T†, Matsunaga T, Yamamizu K, Katayama S, Suehiro JI, Osawa T, Aburatani H, Kodama T, Wada Y, Yamashita JK, Minami T. †These authors contributed equally to the paper as first authors Nucleic Acids Res. 2017 Mar 17. doi: 10.1093/nar/gkx159. |
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Addiction to the IGF2-ID1-IGF2 circuit for maintenance of the breast cancer stem-like cells.
Tominaga K, Shimamura T, Kimura N, Murayama T, Matsubara D, Kanauchi H, Niida A, Shimizu S, Nishioka K, Tsuji EI, Yano M, Sugano S, Shimono Y, Ishii H, Saya H, Mori M, Akashi K, Tada KI, Ogawa T, Tojo A, Miyano S, Gotoh N. Oncogene. 2017 Mar 2;36(9):1276-1286. |
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Extracellular Acidic pH Activates the Sterol Regulatory Element-Binding Protein 2 to Promote Tumor Progression.
Kondo A, Yamamoto S, Nakaki R, Shimamura T, Hamakubo T, Sakai J, Kodama T, Yoshida T, Aburatani H, Osawa T. Cell Rep. 2017 Feb 28;18(9):2228-2242. doi: 10.1016/j.celrep.2017.02.006. |
2016
原著論文
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Aberrant Methylation of FOXE1 Contributes to a Poor Prognosis for Patients with Colorectal Cancer.
Sugimachi K, Matsumura T, Shimamura T, Hirata H, Uchi R, Ueda M, Sakimura S, Iguchi T, Eguchi H, Masuda T, Morita K, Takenaka K, Maehara Y, Mori M, Mimori K. Ann Surg Oncol. 2016 Jun 6. |
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High-resolution copy number variation analysis of schizophrenia in Japan.
Kushima I, Aleksic B, Nakatochi M, Shimamura T, Shiino T, Yoshimi A, Kimura H, Takasaki Y, Wang C, Xing J, Ishizuka K, Oya-Ito T, Nakamura Y, Arioka Y, Maeda T, Yamamoto M, Yoshida M, Noma H, Hamada S, Morikawa M, Uno Y, Okada T, Iidaka T, Iritani S, Yamamoto T, Miyashita M, Kobori A, Arai M, Itokawa M, Cheng MC, Chuang YA, Chen CH, Suzuki M, Takahashi T, Hashimoto R, Yamamori H, Yasuda Y, Watanabe Y, Nunokawa A, Someya T, Ikeda M, Toyota T, Yoshikawa T, Numata S, Ohmori T, Kunimoto S, Mori D, Iwata N, Ozaki N. Mol Psychiatry. 2016 May 31. doi: 10.1038/mp.2016.88. |
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D3M: Detection of differential distributions of methylation levels.
Matsui Y, Mizuta M, Miyano S, Shimamura T. Bioinformatics. 2016 (in press). |
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NECAB3 Promotes Activation of Hypoxia-inducible factor-1 during Normoxia and Enhances Tumourigenicity of Cancer Cells
Nakaoka H.J, Hara T, Yoshino S, Kanamori A, Matsui Y, Shimamura T, Sato H, Murakami Y, Seiki M, Sakamoto T. Sci Rep. 2016 Mar 7;622784. doi:10.1038/srep22784. |
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Integrated Multiregional Analysis Proposing a New Model of Colorectal Cancer Evolution
Uchi R, Takahashi Y, Niida A, Shimamura T, Hirata H, Sugimachi K, Sawada G, Iwaya T, Kurashige J, Shinden Y, Iguchi T, Eguchi H, Chiba K, Shiraishi Y, Nagae G, Yoshida K, Nagata Y, Haeno H, Yamamoto H, Ishii H, Doki Y, Iinuma H, Sasaki S, Nagayama S, Yamada K, Yachida S, Kato M, Shibata T, Oki E, Saeki H, Shirabe K, Oda Y, Maehara Y, Komune S, Mori M, Suzuki Y, Yamamoto K, Aburatani H, Ogawa S, Miyano S, Mimori K. PLoS Genet. 2016 Feb 18;12(2):e1005778. doi: 10.1371/journal.pgen.1005778. |
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Genomic Landscape of Esophageal Squamous Cell Carcinoma in a Japanese Population
Sawada G, Niida A, Uchi R, Hirata H, Shimamura T, Suzuki Y, Shiraishi Y, Chiba K, Imoto S, Takahashi Y, Iwaya T, Sudo T, Hayashi T, Takai H, Kawasaki Y, Matsukawa T, Eguchi H, Sugimachi K, Tanaka F, Suzuki H, Yamamoto K, Ishii H, Shimizu M, Yamazaki H, Yamazaki M, Tachimori Y, Kajiyama Y, Natsugoe S, Fujita H, Mafune K, Tanaka Y, Kelsell DP, Scott CA, Tsuji S, Yachida S, Shibata T, Sugano S, Doki Y, Akiyama T, Aburatani H, Ogawa S, Miyano S, Mori M, Mimori K. Gastroenterology. 2016 Feb 9. pii: S0016-5085(16)00134-7. doi: 10.1053/j.gastro.2016.01.035. |
2015
原著論文
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An Integrative Analysis to Identify Driver Genes in Esophageal Squamous Cell Carcinoma
Sawada G, Niida A, Hirata H, Komatsu H, Uchi R, Shimamura T, Takahashi Y, Kurashige J, Matsumura T, Ueo H, Takano Y, Ueda M, Sakimura S, Shinden Y, Eguchi H, Sudo T, Sugimachi K, Yamasaki M, Tanaka F, Tachimori Y, Kajiyama Y, Natsugoe S, Fujita H, Tanaka Y, Calin G, Miyano S, Doki Y, Mori M, Mimori K. PLoS One. 2015 Oct 14;10(10):e0139808. doi: 10.1371/journal.pone.0139808. eCollection 2015. |
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Integrated molecular analysis of adult T cell leukemia/lymphoma
Kataoka K, Nagata Y, Kitanaka A, Shiraishi Y, Shimamura T, Yasunaga J, Totoki Y, Chiba K, Sato-Otsubo A, Nagae G, Ishii R, Muto S, Kotani S, Watatani Y, Takeda J, Sanada M, Tanaka H, Suzuki H, Sato Y, Shiozawa Y, Yoshizato T, Yoshida K, Makishima H, Iwanaga M, Ma G, Nosaka K, Hishizawa M, Itonaga H, Imaizumi Y, Munakata W, Ogasawara H, Sato T, Sasai K, Muramoto K, Penova M, Kawaguchi T, Nakamura H, Hama N, Shide K, Kubuki Y, Hidaka T, Kameda T, Nakamaki T, Ishiyama K, Miyawaki S, Yoon SS, Tobinai K, Miyazaki Y, Takaori-Kondo A, Matsuda F, Takeuchi K, Nureki O, Aburatani H, Watanabe T, Shibata T, Matsuoka M, Miyano S, Shimoda K, Ogawa S. Nat Genet. 2015 Nov;47(11):1304-15. doi: 10.1038/ng.3415. Epub 2015 Oct 5. |
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A likelihood-free filtering method via approximate Bayesian computation in evaluating biological simulation models
Hasegawa T, Niida A, Mori T, Shimamura T, Yamaguchi R, Miyano S, Akutsu T, Imoto S. Computational Statistics & Data Analysis 02/2016; 94:63-74. DOI:10.1016/j.csda.2015.08.003 |
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Elevated β-catenin pathway as a novel target for patients with resistance to EGF receptor targeting drugs
Nakata A, Yoshida R, Yamaguchi R, Yamauchi M, Tamada Y, Fujita A, Shimamura T, Imoto S, Higuchi T, Nomura M, Kimura T, Nokihara H, Higashiyama M, Kondoh K, Nishihara H, Tojo A, Yano S, Miyano S, Gotoh N. Sci Rep. 2015 Aug 13;5:13076. doi: 10.1038/srep13076. |
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Integrated genetic and epigenetic analysis defines novel molecular subgroups in rhabdomyosarcoma
Seki M, Nishimura R, Yoshida K, Shimamura T, Shiraishi Y, Sato Y, Kato M, Chiba K, Tanaka H, Hoshino N, Nagae G, Shiozawa Y, Okuno Y, Hosoi H, Tanaka Y, Okita H, Miyachi M, Souzaki R, Taguchi T, Koh K, Hanada R, Kato K, Nomura Y, Akiyama M, Oka A, Igarashi T, Miyano S, Aburatani H, Hayashi Y, Ogawa S, Takita J. Nat Commun. 2015 Jul 3;6:7557. doi: 10.1038/ncomms8557. |
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Genomic data assimilation using a higher moment filtering technique for restoration of gene regulatory networks
Hasegawa T, Mori T, Yamaguchi R, Shimamura T, Miyano S, Imoto S, Akutsu T. BMC Syst Biol. 2015 Mar 13;9:14. doi: 10.1186/s12918-015-0154-2. |
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Mutational landscape and clonal architecture in grade II and III gliomas
Suzuki H, Aoki K, Chiba K, Sato Y, Shiozawa Y, Shiraishi Y, Shimamura T, Niida A, Motomura K, Ohka F, Yamamoto T, Tanahashi K, Ranjit M, Wakabayashi T, Yoshizato T, Kataoka K, Yoshida K, Nagata Y, Sato-Otsubo A, Tanaka H, Sanada M, Kondo Y, Nakamura H, Mizoguchi M, Abe T, Muragaki Y, Watanabe R, Ito I, Miyano S, Natsume A, Ogawa S. Nat Genet. 2015 May;47(5):458-68. doi: 10.1038/ng.3273. Epub 2015 Apr 13. |
2014
原著論文
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Robust prediction of anti-cancer drug sensitivity and sensitivity-specific biomarker
Park H, Shimamura T, Miyano S, Imoto S. PLoS One. 2014 Oct 17;9(10):e108990. doi: 10.1371/journal.pone.0108990. eCollection 2014. |
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Loss of CDCP1 expression promotes invasiveness and poor prognosis in esophageal squamous cell carcinoma
Sawada G, Takahashi Y, Niida A, Shimamura T, Kurashige J, Matsumura T, Ueo H, Uchi R, Takano Y, Ueda M, Hirata H, Sakimura S, Shinden Y, Eguchi H, Sudo T, Sugimachi K, Miyano S, Doki Y, Mori M, Mimori K. Ann Surg Oncol. 2014 Dec;21 Suppl 4:S640-7. doi: 10.1245/s10434-014-3740-4. Epub 2014 May 22. |
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Biallelic DICER1 mutations in sporadic pleuropulmonary blastoma
Seki M, Yoshida K, Shiraishi Y, Shimamura T, Sato Y, Nishimura R, Okuno Y, Chiba K, Tanaka H, Kato K, Kato M, Hanada R, Nomura Y, Park MJ, Ishida T, Oka A, Igarashi T, Miyano S, Hayashi Y, Ogawa S, Takita J. Cancer Res. 2014 May 15;74(10):2742-9. doi: 10.1158/0008-5472.CAN-13-2470. Epub 2014 Mar 27. |
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Allelic imbalance at an 8q24 oncogenic SNP is involved in activating MYC in human colorectal cancer
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Systems biology analysis of Drosophila in vivo screen data elucidates core networks for DNA damage repair in SCA1
Barclay SS, Tamura T, Ito H, Fujita K, Tagawa K, Shimamura T, Katsuta A, Shiwaku H, Sone M, Imoto S, Miyano S, Okazawa H. Hum Mol Genet. 2014 Mar 1;23(5):1345-64. doi: 10.1093/hmg/ddt524. Epub 2013 Oct 31. |