Department of Computational and Systems Biology

67  articles.  
* There may be some overlapped articles listed due to the difference of format.

  1. DeepKINET: a deep generative model for estimating single-cell RNA splicing and degradation rates 2024.09; 25 (1): 229. ( DOI )

  2. [Koichiro Majima,Yasuhiro Kojima,Kodai Minoura,Ko Abe,Haruka Hirose,Teppei Shimamura]: LineageVAE: Reconstructing Historical Cell States and Transcriptomes toward Unobserved Progenitors. 2024.08; ( PubMed , DOI )

  3. Spatial and single-cell colocalisation analysis reveals MDK-mediated immunosuppressive environment with regulatory T cells in colorectal carcinogenesis 2024.05; 103 105102. ( DOI )

  4. [Yasuhiro Kojima,Yuko Arioka,Haruka Hirose,Shuto Hayashi,Yusuke Mizuno,Keiki Nagaharu,Hiroki Okumura,Masato Ishikawa,Kohshi Ohishi,Yutaka Suzuki,Norio Ozaki,Teppei Shimamura]: Inferring extrinsic factor-dependent single-cell transcriptome dynamics using a deep generative model 2024.04; ( DOI )

  5. Single-cell colocalization analysis using a deep generative model 2024.02; 15 (2): 180-192.e7. ( DOI )

  1. BRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state. 2023.12; 14 (1): 8372. ( PubMed , DOI )

  2. Mengjiao Li, Tatsunori Nishimura, Yasuto Takeuchi, Tsunaki Hongu, Yuming Wang, Daisuke Shiokawa, Kang Wang, Haruka Hirose, Asako Sasahara, Masao Yano, Satoko Ishikawa, Masafumi Inokuchi, Tetsuo Ota, Masahiko Tanabe, Kei-Ichiro Tada, Tetsu Akiyama, Xi Cheng, Chia-Chi Liu, Toshinari Yamashita, Sumio Sugano, Yutaro Uchida, Tomoki Chiba, Hiroshi Asahara, Masahiro Nakagawa, Shinya Sato, Yohei Miyagi, Teppei Shimamura, Luis Augusto E Nagai, Akinori Kanai, Manami Katoh, Seitaro Nomura, Ryuichiro Nakato, Yutaka Suzuki, Arinobu Tojo, Dominic C Voon, Seishi Ogawa, Koji Okamoto, Theodoros Foukakis, Noriko Gotoh: FXYD3 functionally demarcates an ancestral breast cancer stem cell subpopulation with features of drug-tolerant persisters. J Clin Invest. 2023.11; 133 (22): ( PubMed , DOI )

  3. [Shiki Fujino,Norikatsu Miyoshi,Aya Ito,Rie Hayashi,Masayoshi Yasui,Chu Matsuda,Masayuki Ohue,Masafumi Horie,Shinichi Yachida,Jun Koseki,Teppei Shimamura,Tsuyoshi Hata,Takayuki Ogino,Hidekazu Takahashi,Mamoru Uemura,Tsunekazu Mizushima,Yuichiro Doki,Hidetoshi Eguchi]: Metastases and treatment-resistant lineages in patient-derived cancer cells of colorectal cancer 2023.11; 6 (1): 1191. ( PubMed , DOI )

  4. Kobayashi Y, Niida A, Nagayama S, Saeki K, Haeno H, Takahashi KK, Hayashi S, Ozato Y, Saito H, Hasegawa T, Nakamura H, Tobo T, Kitagawa A, Sato K, Shimizu D, Hirata H, Hisamatsu Y, Toshima T, Yonemura Y, Masuda T, Mizuno S, Kawazu M, Kohsaka S, Ueno T, Mano H, Ishihara S, Uemura M, Mori M, Doki Y, Eguchi H, Oshima M, Suzuki Y, Shibata T, Mimori K: Subclonal accumulation of immune escape mechanisms in microsatellite instability-high colorectal cancers. British journal of cancer. 2023.10; 129 (7): 1105-1118. ( PubMed , DOI )

  5. [Miki Kato,Keisuke Maeda,Ryuichi Nakahara,Haruka Hirose,Ayano Kondo,Sho Aki,Maki Sugaya,Sana Hibino,Miyuki Nishida,Manami Hasegawa,Hinano Morita,Ritsuko Ando,Rika Tsuchida,Minoru Yoshida,Tatsuhiko Kodama,Hideyuki Yanai,Teppei Shimamura,Tsuyoshi Osawa]: Acidic extracellular pH drives accumulation of N1-acetylspermidine and recruitment of protumor neutrophils PNAS nexus. 2023.10; 2 (10): pgad306. ( PubMed , DOI )

  6. [Ryuichi Nakahara,Sho Aki,Maki Sugaya,Haruka Hirose,Miki Kato,Keisuke Maeda,Daichi M Sakamoto,Yasuhiro Kojima,Miyuki Nishida,Ritsuko Ando,Masashi Muramatsu,Melvin Pan,Rika Tsuchida,Yoshihiro Matsumura,Hideyuki Yanai,Hiroshi Takano,Ryoji Yao,Shinsuke Sando,Masabumi Shibuya,Juro Sakai,Tatsuhiko Kodama,Hiroyasu Kidoya,Teppei Shimamura,Tsuyoshi Osawa]: Hypoxia activates SREBP2 through Golgi disassembly in bone marrow-derived monocytes for enhanced tumor growth 2023.10; 42 (22): e114032. ( PubMed , DOI )

  7. [So Takeuchi,Takuya Takeichi,Yoshinao Muro,Teppei Shimamura,Masashi Akiyama]: Plucked scalp hair follicle samples are useful RNA sources for mRNA analysis of most genodermatosis-associated genes 2023.07; 111 (2): 68-70. ( PubMed , DOI )

  8. [Ko Abe,Teppei Shimamura]: UNMF: a unified nonnegative matrix factorization for multi-dimensional omics data 2023.07; 24 (5): ( PubMed , DOI )

  9. Hayashi Yasutaka, Nishimura Koutarou, Tanaka Atsushi, Inoue Daichi: 骨髄性悪性腫瘍における細胞外小胞を介した骨髄微小環境のリモデリング(Stem cell regulation and dynamics in myeloid malignancies: Extracellular vesicle-mediated remodeling of the bone marrow microenvironment in myeloid malignancies) International Journal of Hematology. 2023.06; 117 (6): 821-829. ( ichushi )

  10. Topological data analysis of protein structure and inter/intra- molecular interaction changes attributable to amino acid mutations 2023.05; 21 2950-2959. ( DOI )

  11. Extracellular vesicle-mediated remodeling of the bone marrow microenvironment in myeloid malignancies. 2023.04; ( PubMed , DOI )

  12. Kitagawa A, Osawa T, Noda M, Kobayashi Y, Aki S, Nakano Y, Saito T, Shimizu D, Komatsu H, Sugaya M, Takahashi J, Kosai K, Takao S, Motomura Y, Sato K, Hu Q, Fujii A, Wakiyama H, Tobo T, Uchida H, Sugimachi K, Shibata K, Utsunomiya T, Kobayashi S, Ishii H, Hasegawa T, Masuda T, Matsui Y, Niida A, Soga T, Suzuki Y, Miyano S, Aburatani H, Doki Y, Eguchi H, Mori M, Nakayama KI, Shimamura T, Shibata T, Mimori K: Convergent genomic diversity and novel BCAA metabolism in intrahepatic cholangiocarcinoma. British journal of cancer. 2023.04; 128 (12): 2206-2217. ( PubMed , DOI )

  13. [Shiho Torii,Kwang Su Kim,Jun Koseki,Rigel Suzuki,Shoya Iwanami,Yasuhisa Fujita,Yong Dam Jeong,Jumpei Ito,Hiroyuki Asakura,Mami Nagashima,Kenji Sadamasu,Kazuhisa Yoshimura,Kei Sato,Yoshiharu Matsuura,Teppei Shimamura,Shingo Iwami,Takasuke Fukuhara]: Increased flexibility of the SARS-CoV-2 RNA-binding site causes resistance to remdesivir 2023.03; 19 (3): e1011231. ( PubMed , DOI )

  14. Spatial and single-cell transcriptomics decipher the cellular environment containing HLA-G+ cancer cells and SPP1+ macrophages in colorectal cancer. 2023.01; 42 (1): 111929. ( PubMed , DOI )

  15. [Jun Koseki,Haruka Hirose,Masamitsu Konno,Teppei Shimamura]: Theoretical Computational Analysis Predicts Interaction Changes Due to Differences of a Single Molecule in DNA 2023.01; 13 (1): 510. ( DOI )

  1. Bayesian statistical method for detecting structural and topological diversity in polymorphic proteins. 2022.11; 20 6519-6525. ( PubMed , DOI )

  2. Nucleic Acid-triggered Tumoral Immunity Propagates pH-selective Therapeutic Antibodies through Tumor-driven Epitope Spreading. 2022.09; 114 (1): 321-338. ( PubMed , DOI )

  3. Hayashi, Y; Kawabata, KC; Tanaka, Y; Uehara, Y; Mabuchi, Y; Murakami, K; Nishiyama, A; Kiryu, S; Yoshioka, Y; Ota, Y; Sugiyama, T; Mikami, K; Tamura, M; Fukushima, T; Asada, S; Takeda, R; Kunisaki, Y; Fukuyama, T; Yokoyama, K; Uchida, T; Hagihara, M; Ohno, N; Usuki, K; Tojo, A; Katayama, Y; Goyama, S; Arai, F; Tamura, T; Nagasawa, T; Ochiya, T; Inoue, D; Kitamura, T: MDS cells impair osteolineage differentiation of MSCs via extracellular vesicles to suppress normal hematopoiesis CELL REPORTS. 2022.05; 39 (6): 110805. ( PubMed , DOI )

  1. Mizuno S, Yamaguchi R, Hasegawa T, Hayashi S, Fujita M, Zhang F, Koh Y, Lee SY, Yoon SS, Shimizu E, Komura M, Fujimoto A, Nagai M, Kato M, Liang H, Miyano S, Zhang Z, Nakagawa H, Imoto S: Immunogenomic pan-cancer landscape reveals immune escape mechanisms and immunoediting histories. Scientific reports. 2021.08; 11 (1): 15713. ( PubMed , DOI )

  2. Minor intron retention drives clonal hematopoietic disorders and diverse cancer predisposition. 2021.05; 53 (5): 707-718. ( PubMed , DOI )

  1. Impaired Osteoblastic Differentiation of MSCs Suppresses Normal Hematopoiesis in MDS 2020.11; 136 ( DOI )

  2. HHEX promotes myeloid transformation in cooperation with mutant ASXL1. 2020.10; 136 (14): 1670-1684. ( PubMed , DOI )

  3. Matthew H Bailey, William U Meyerson, Lewis Jonathan Dursi, Liang-Bo Wang, Guanlan Dong, Wen-Wei Liang, Amila Weerasinghe, Shantao Li, Yize Li, Sean Kelso, , , Gordon Saksena, Kyle Ellrott, Michael C Wendl, David A Wheeler, Gad Getz, Jared T Simpson, Mark B Gerstein, Li Ding, : Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nat Commun. 2020.09; 11 (1): 4748. ( PubMed , DOI )

  4. Hasegawa T, Hayashi S, Shimizu E, Mizuno S, Niida A, Yamaguchi R, Miyano S, Nakagawa H, Imoto S: Neoantimon: a multifunctional R package for identification of tumor-specific neoantigens. Bioinformatics (Oxford, England). 2020.09; 36 (18): 4813-4816. ( PubMed , DOI )

  5. Constance H Li, Stephenie D Prokopec, Ren X Sun, Fouad Yousif, Nathaniel Schmitz, Paul C Boutros, PCAWG Consortium (Satoru Miyano, et al.): Sex differences in oncogenic mutational processes. Nat Commun. 2020.08; 11 (1): 4330. ( PubMed , DOI )

  6. Fujita M, Yamaguchi R, Hasegawa T, Shimada S, Arihiro K, Hayashi S, Maejima K, Nakano K, Fujimoto A, Ono A, Aikata H, Ueno M, Hayami S, Tanaka H, Miyano S, Yamaue H, Chayama K, Kakimi K, Tanaka S, Imoto S, Nakagawa H: Classification of primary liver cancer with immunosuppression mechanisms and correlation with genomic alterations. EBioMedicine. 2020.03; 53 102659. ( PubMed , DOI )

  7. Isidro Cortés-Ciriano, Jake June-Koo Lee, Ruibin Xi, Dhawal Jain, Youngsook L Jung, Lixing Yang, Dmitry Gordenin, Leszek J Klimczak, Cheng-Zhong Zhang, David S Pellman, Peter J Park, PCAWG Consortium (Satoru Miyano, et al.): Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing. Nat Genet. 2020.03; 52 (3): 331-341. ( PubMed , DOI )

  8. Kadir C Akdemir, Victoria T Le, Sahaana Chandran, Yilong Li, Roel G Verhaak, Rameen Beroukhim, Peter J Campbell, Lynda Chin, Jesse R Dixon, P Andrew Futreal, ,PCAWG Consortium (Satoru Miyano, et al.): Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. Nat Genet. 2020.03; 52 (3): 294-305. ( PubMed , DOI )

  9. Bernardo Rodriguez-Martin, Eva G Alvarez, Adrian Baez-Ortega, Jorge Zamora, Fran Supek, Jonas Demeulemeester, Martin Santamarina, Young Seok Ju, Javier Temes, Daniel Garcia-Souto, Harald Detering, Yilong Li, Jorge Rodriguez-Castro, Ana Dueso-Barroso, Alicia L Bruzos, Stefan C Dentro, Miguel G Blanco, Gianmarco Contino, Daniel Ardeljan, Marta Tojo, Nicola D Roberts, Sonia Zumalave, Paul A W Edwards, Joachim Weischenfeldt, Montserrat Puiggròs, Zechen Chong, Ken Chen, Eunjung Alice Lee, Jeremiah A Wala, Keiran Raine, Adam Butler, Sebastian M Waszak, Fabio C P Navarro, Steven E Schumacher, Jean Monlong, Francesco Maura, Niccolo Bolli, Guillaume Bourque, Mark Gerstein, Peter J Park, David C Wedge, Rameen Beroukhim, David Torrents, Jan O Korbel, Inigo Martincorena, Rebecca C Fitzgerald, Peter Van Loo, Haig H Kazazian, Kathleen H Burns, Peter J Campbell, Jose M C Tubio, PCAWG Consortium (Satoru Miyano, et al.): Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nat Genet. 2020.03; 52 (3): 306-319. ( PubMed , DOI )

  10. Sergei Yakneen, Sebastian M Waszak, , Michael Gertz, Jan O Korbel, PCAWG Consortium (Satoru Miyano, et al.): Butler enables rapid cloud-based analysis of thousands of human genomes. Nat Biotechnol. 2020.03; 38 (3): 288-292. ( PubMed , DOI )

  11. Pan-cancer analysis of whole genomes. Nature. 2020.02; 578 (7793): 82-93. ( PubMed , DOI )

  12. The landscape of viral associations in human cancers 2020.02; 52 (3): 320-330. ( PubMed , DOI )

  13. The repertoire of mutational signatures in human cancer 2020.02; 578 (7793): 94-101. ( PubMed , DOI )

  14. The evolutionary history of 2,658 cancers 2020.02; 578 (7793): 122-128. ( DOI )

  15. A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns 2020.02; 11 (1): 7573. ( PubMed , DOI )

  16. Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis 2020.02; 3 (1): 1347. ( PubMed , DOI )

  17. Comprehensive molecular characterization of mitochondrial genomes in human cancers 2020.02; 52 (3): 342-352. ( DOI )

  18. Combined burden and functional impact tests for cancer driver discovery using DriverPower 2020.02; 11 (1): 7571. ( PubMed , DOI )

  19. Esther Rheinbay, Morten Muhlig Nielsen, Federico Abascal, Jeremiah A Wala, Ofer Shapira, Grace Tiao, Henrik Hornshøj, Julian M Hess, Randi Istrup Juul, Ziao Lin, Lars Feuerbach, Radhakrishnan Sabarinathan, Tobias Madsen, Jaegil Kim, Loris Mularoni, Shimin Shuai, Andrés Lanzós, Carl Herrmann, Yosef E Maruvka, Ciyue Shen, Samirkumar B Amin, Pratiti Bandopadhayay, Johanna Bertl, Keith A Boroevich, John Busanovich, Joana Carlevaro-Fita, Dimple Chakravarty, Calvin Wing Yiu Chan, David Craft, Priyanka Dhingra, Klev Diamanti, Nuno A Fonseca, Abel Gonzalez-Perez, Qianyun Guo, Mark P Hamilton, Nicholas J Haradhvala, Chen Hong, Keren Isaev, Todd A Johnson, Malene Juul, Andre Kahles, Abdullah Kahraman, Youngwook Kim, Jan Komorowski, Kiran Kumar, Sushant Kumar, Donghoon Lee, Kjong-Van Lehmann, Yilong Li, Eric Minwei Liu, Lucas Lochovsky, Keunchil Park, Oriol Pich, Nicola D Roberts, Gordon Saksena, Steven E Schumacher, Nikos Sidiropoulos, Lina Sieverling, Nasa Sinnott-Armstrong, Chip Stewart, David Tamborero, Jose M C Tubio, Husen M Umer, Liis Uusküla-Reimand, Claes Wadelius, Lina Wadi, Xiaotong Yao, Cheng-Zhong Zhang, Jing Zhang, James E Haber, Asger Hobolth, Marcin Imielinski, Manolis Kellis, Michael S Lawrence, Christian von Mering, Hidewaki Nakagawa, Benjamin J Raphael, Mark A Rubin, Chris Sander, Lincoln D Stein, Joshua M Stuart, Tatsuhiko Tsunoda, David A Wheeler, Rory Johnson, Jüri Reimand, Mark Gerstein, Ekta Khurana, Peter J Campbell, Núria López-Bigas, Joachim Weischenfeldt, Rameen Beroukhim, Iñigo Martincorena, Jakob Skou Pedersen, Gad Getz, PCAWG Consortium. PCAWG Consortium (Satoru Miyano, et al.): Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nature. 2020.02; 578 (7793): 102-111. ( PubMed , DOI )

  20. Yilong Li, Nicola D Roberts, Jeremiah A Wala, Ofer Shapira, Steven E Schumacher, Kiran Kumar, Ekta Khurana, Sebastian Waszak, Jan O Korbel, James E Haber, Marcin Imielinski, , Joachim Weischenfeldt, Rameen Beroukhim, Peter J Campbell, PCAWG Consortium (Satoru Miyano, et al.): Patterns of somatic structural variation in human cancer genomes. Nature. 2020.02; 578 (7793): 112-121. ( PubMed , DOI )

  21. Divergent mutational processes distinguish hypoxic and normoxic tumours 2020.02; 11 (1): 7569. ( DOI )

  22. Yiqun Zhang, Fengju Chen, Nuno A Fonseca, Yao He, Masashi Fujita, Hidewaki Nakagawa, Zemin Zhang, Alvis Brazma, Chad J Creighton, PCAWG Consortium (Satoru Miyano, et al.): High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations. Nat Commun. 2020.02; 11 (1): 736. ( PubMed , DOI )

  23. Lina Sieverling, Chen Hong, Sandra D Koser, Philip Ginsbach, Kortine Kleinheinz, Barbara Hutter, Delia M Braun, Isidro Cortés-Ciriano, Ruibin Xi, Rolf Kabbe, Peter J Park, Roland Eils, Matthias Schlesner, , Benedikt Brors, Karsten Rippe, David T W Jones, Lars Feuerbach, PCAWG Consortium (Satoru Miyano, et al.): Genomic footprints of activated telomere maintenance mechanisms in cancer. Nat Commun. 2020.02; 11 (1): 733. ( PubMed , DOI )

  24. Genomic basis for RNA alterations in cancer 2020.02; 578 (7793): 129-136. ( DOI )

  25. Pathway and network analysis of more than 2500 whole cancer genomes 2020.02; 11 (1): 7566. ( PubMed , DOI )

  26. Integrative pathway enrichment analysis of multivariate omics data 2020.02; 11 (1): 7570. ( PubMed , DOI )

  27. Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig 2020.02; 11 (1): 7567. ( DOI )

  28. Inferring structural variant cancer cell fraction 2020.02; 11 (1): 7568. ( DOI )

  29. Tomoko Saito, Atsushi Niida, Ryutaro Uchi, Hidenari Hirata, Hisateru Komatsu, Shotaro Sakimura, Shuto Hayashi, Sho Nambara, Yosuke Kuroda, Shuhei Ito, Hidetoshi Eguchi, Takaaki Masuda, Keishi Sugimachi, Taro Tobo, Haruto Nishida, Tsutomu Daa, Kenichi Chiba, Yuichi Shiraishi, Tetsuichi Yoshizato, Masaaki Kodama, Tadayoshi Okimoto, Kazuhiro Mizukami, Ryo Ogawa, Kazuhisa Okamoto, Mitsutaka Shuto, Kensuke Fukuda, Yusuke Matsui, Teppei Shimamura, Takanori Hasegawa, Yuichiro Doki, Satoshi Nagayama, Kazutaka Yamada, Mamoru Kato, Tatsuhiro Shibata, Masaki Mori, Hiroyuki Aburatani, Kazunari Murakami, Yutaka Suzuki, Seishi Ogawa, Satoru Miyano, Koshi Mimori: A temporal shift of the evolutionary principle shaping intratumor heterogeneity in colorectal cancer. Nat Commun. 2020; 9 (1): 2884. ( PubMed , DOI )

  1. Discrimination of Dormant and Active Hematopoietic Stem Cells by G0 Marker Reveals Dormancy Regulation by Cytoplasmic Calcium. 2019.12; 29 (12): 4144-4158. ( PubMed , DOI )

  2. Aberrant RNA Splicing Contributes to the Pathogenesis of EVI-Rearranged Myeloid Leukemias 2019.11; 134 (Supplement_1): 917. ( DOI )

  3. Antitumor immunity augments the therapeutic effects of p53 activation on acute myeloid leukemia. 2019.10; 10 (1): 4869. ( PubMed , DOI )

  4. Quantifying immune-based counterselection of somatic mutations 2019.07; 15 (7): e1008227. ( PubMed , DOI )

  5. Opposing effects of acute versus chronic inhibition of p53 on decitabine's efficacy in myeloid neoplasms. 2019.06; 9 (1): 8171. ( PubMed , DOI )

  6. A Bayesian model integration for mutation calling through data partitioning 2019.03; 35 (21): 4247-4254. ( PubMed , DOI )

  1. Mutant ASXL1 cooperates with BAP1 to promote myeloid leukaemogenesis. 2018.07; 9 (1): 2733. ( PubMed , DOI )

  2. Expression of mutant Asxl1 perturbs hematopoiesis and promotes susceptibility to leukemic transformation. 2018.06; 215 (6): 1729-1747. ( PubMed , DOI )

  3. High expression of ABCG2 induced by EZH2 disruption has pivotal roles in MDS pathogenesis. 2018.02; 32 (2): 419-428. ( PubMed , DOI )

  1. An in silico automated pipeline to identify tumor specic neoantigens from whole genome and exome sequencing data 2016;

  1. Atsushi Tanaka, Taizo A Nakano, Masaki Nomura, Hiromi Yamazaki, Jan Philipp Bewersdorf, Roger Mulet-Lazaro, Simon Hogg, Bo Liu, Alex Vincent Penson, Akihiko Yokoyama, Weijia Zang, Marije Havermans, Miho Koizumi, Yasutaka Hayashi, Hana Cho, Akinori Kanai, Stanley C Lee, Muran Xiao, Yui Koike, Yifan Zhang, Miki Fukumoto, Yumi Aoyama, Tsuyoshi Konuma, Hiroyoshi Kunimoto, Toshiya Inaba, Hideaki Nakajima, Hiroaki Honda, Hiroshi Kawamoto, Ruud Delwel, Omar Abdel-Wahab, Daichi Inoue: Aberrant EVI1 splicing contributes to EVI1-rearranged leukemia Blood. 2022.06; 140 (8): 875-888. ( DOI )

  1. Shuto Hayashi, Takuya Moriyama, Rui Yamaguchi, Shinichi Mizuno, Mitsuhiro Komura, Satoru Miyano, Hidewaki Nakagawa, Seiya Imoto: ALPHLARD-NT: Bayesian Method for Human Leukocyte Antigen Genotyping and Mutation Calling through Simultaneous Analysis of Normal and Tumor Whole-Genome Sequence Data Journal of Computational Biology. 2019.09; 26 (9): 923-937. ( DOI )

  1. Shuto Hayashi, Rui Yamaguchi, Shinichi Mizuno, Mitsuhiro Komura, Satoru Miyano, Hidewaki Nakagawa, Seiya Imoto: ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data BMC Genomics. 2018.11; 19 (1): ( DOI )

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