RIKEN IMS AnnualReport 2020

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85naga K, Nihara H, Yamaguchi Y, Aihara M, Mushiroda T, Saito Y, Morita E. Association of HLA-A*11:01 with sulfonamide-related severe cutaneous adverse reactions in Japanese patients. J Invest Dermatol 140, 1659-1662.e6 (2020) 134 Nakamura R, Yoshizawa A, Moriyasu T, Deloer S, Senba M, Kikuchi M, Koyasu S, Moro K, Hamano S. Group 2 Innate Lymphoid Cells Exacerbate Amebic Liver Abscess in Mice. iScience 23, 101544 (2020) 135 Nakamura T, Hashikawa C, Yokote Y, Chirifu M, Okamoto Y, Taguchi Y, Gohda J, Akiyama T, Semba K, Ikemizu S, Otsuka M, Jun-ichiro I, Yamagata Y. Structure analysis of TIFA involved in innate immunity: Insight into TIFA-dependent signal transduction. Sci Rep 10, 5152 (2020) 136 Nakashima Y, Sakai Y, Mizuno Y, Furuno K, Hirono K, Takatsuki S, Suzuki H, Onouchi Y, Kobayashi T, Tanabe K, Hamase K, Miyamoto T, Aoyagi R, Arita M, Yamamura K, Tanaka T, Nishio H, Takada H, Ohga S, Hara T. Lipidomics links oxidized phosphatidylcholines and coronary arteritis in Kawasaki disease. Cardiovasc Res 117, 96-108 (2021) 137 Nakatsuka Y, Yaku, Handa T, Vandenbon A, Hikichi Y, Motomura Y, Sato A, Yoshinaga M, Tanizawa K, Watanabe K, Hirai T, Chin, Suzuki Y, Uehata T, Mino T, Tsujimura T, Moro K, Takeuchi O. Profibrotic function of pulmonary group 2 innate lymphoid cells is con-trolled by Regnase-1. Eur Respir J 2000018 (Epub 2020) 138 Naoe S, Tsugawa H, Takahashi M, Ikeda K, Arita M. Characterization of Lipid Profiles after Dietary Intake of Polyunsaturated Fatty Acids Using Integrated Untargeted and Targeted Lipidomics. Metabolites 9, 241 (2020) 139 Nepal C, Hadzhiev Y, Balwierz P, Tarifeño-Saldivia E, Cardenas R, Wragg JW, Suzuki A, Carninci P, Peers B, Lenhard B, Andersen JB, Müller F. Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript pro-cessing. Nat Commun 11, 168 (2020) 140 Ninomiya T, Nakaji S, Maeda T, Yamada M, Mimura M, Nakashima K, Mori, Takebayashi M, Ohara T, Hata J, Kokubo Y, Uchida K, Taki Y, Kumagai S, Yonemoto K, Yoshida H, Muto K, Momozawa Y, Akiyama M, Kubo M, Ikeda M, Kanba S, Kiyohara Y. Study design and baseline characteristics of a population-based prospective cohort study of dementia in Japan: the Japan Prospective Studies Collaboration for Aging and Dementia (JPSC-AD). Environ Health Prev Med 25, 64 (2020) 141 Nishiguchi K, Kunikata H, Fujita K, Hashimoto K, Koyanagi Y, Akiyama M, Ikeda Y, Mo-mozawa Y, Sonoda K, Murakami A, Wada Y, Nakazawa T. Association of CRX genotypes and retinal phenotypes confounded by variable expressivity and electronegative electroretinogram. Clin Exp Ophthalmol 48, 644-657 (2020) 142 Nishino J, Watanabe S, Miya F, Kamatani T, Sugawara T, Sugawara T, Boroevich KA, Tsunoda T. Quantification of multicellular colonization in tumor metastasis using exome sequencing data. Int J Cancer 146, 2488-2497 (2020) 143 Nomura A, Taniuchi I. The role of CD8 downregulation during thymocyte differentia-tion. Trends Immunol 41, 972-981 (2020) 144 Ogata Y, Sakamoto M, Ohkuma M, Hattori M, Suda W. Complete Genome Sequence of Adlercreutzia sp. strain 8CFCBH1, a Potent Producer of Equol, Isolated from Healthy Japanese Feces. Microbiol Resour Announc 9, e01240-20 (2020) 145 Ogawa K, Asano K, Yotsumoto S, Yamane T, Arita M, Hayashi Y, Harada H, Makino-Okamura C, Fukuyama H, Kondo K, Yamasoba T, Tanaka M. Frontline Science: Conver-sion of neutrophils into atypical Ly6G+SiglecF+ immune cells with neurosupportive potential in olfactory neuroepithelium. J Leukoc Biol (Epub 2020) 146 Ogawa M, Inomata T, Shiang T, Tsubota K, Murakami A. Method for selective quanti-fication of immune and inflammatory cells in the cornea using flow cytometry. J Biol Methods 5, e102 (2020) 147 Ogawa M, Ishihara T, Isobe Y, Kato T, Kuba K, Imai Y, Uchino Y, Tsubota K, Arita M. Eosinophils promote corneal wound healing via the 12/15-lipoxygenase pathway. FASEB J 34, 12498-12501 (2020) 148 Ohno H. The impact of metabolites derived from the gut microbiota on immune regu-lation and diseases. Int Immunol 32, 629-636 (2020) 149 Ohno S, Quek L, Krycer JR, Yugi K, Hirayama A, Ikeda S, Futaba S, Suzuki K, Soga T, James DE, Kuroda S. Kinetic trans-omic analysis reveals key regulatory mechanisms for insulin-regulated glucose metabolism in adipocytes. iScience 23, 101479 (2020) 150 Ohyama T, Takahashi H, Sharma H, Yamazaki T, Gustincich S, Ishii Y, Carninci P. An NMR-based approach reveals the core structure of the functional domain of SINEUP lncRNAs. Nucleic Acids Res 48, 9346-9360 (2020) 151 Okada M, Shimizu K, Iyoda T, Ueda S, Shinga J, Mochizuki Y, Watanabe T, Ohara O, Fujii S. PD-L1 Expression Affects Neoantigen Presentation. iScience 23, 101238 (2020) 152 Oliver S, Tam L, Kwok GS, Fusama M, Nakahara H, Zhang C, Yamamoto K, Furtner D. The Asia-Pacific Initiative for Rheumatology Nurse Education: Current gaps, pro-gramme development and future outlook. Musculoskeletal Care 18, 397-403 (2020) 153 Onodera K, Shimojo D, Ishihara Y, Ishihara Y, Yano M, Miya F, Banno H, Kazumaki N, Ito T, Okada R, de Araújo Herculano B, Ohyama M, Yoshida M, Tsunoda T, Katsuno M, Doyu M, Sob G, Kano H, Okada Y. Unveiling synapse pathology in spinal bulbar muscular atrophy by genome-wide transcriptome analysis of purified motor neurons derived from disease specific iPSCs. Mol Brain 13, 18 (2020) 154 Otsuka H, Fukao A, Tomohiro T, Adachi S, Suzuki T, Takahashi A, Funakami Y, Natsume T, Yamamoto T, Duncan KE, Fujiwara T. ARE-binding protein ZFP36L1 interacts with CNOT1 to directly repress translation via a deadenylation-independent mechanism. Biochimie 174, 49-56 (2020) 155 Paczkowska M, Barenboim J, Sintupisut N, Fox N, Zhu H, Abd-Rabbo D, Mee M, Boutros P, PCAWG Network and Pathway Analysis Group, Reimand J, PCAWG Consor-tium, Nakagawa H, Boroevich KA, Fujimoto A, Fujita M, Furuta J, Furuta M, Maejima K, Nakano K, Oku-Sasaki A, Johnson TA, Tsunoda T, Lawrence MS. Integrative pathway enrichment analysis of multivariate omics data. Nat Commun 11, 753 (2020) 156 PCAWG Transcriptome Core Group, Calabrese C, Davidson N, Demircioğlu D, Fonseca N, He Y, Kahles A, Lehmann K, Liu F, Shiraishi Y, Soulette C, Urban L, Grege L, Li S, Liu D, Perry M, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley K, Hou Y, Huska M, Kil-pinen H, Korbel J, Marin M, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu C, Siebert R, Stark S, Su H, Tan P, Waszak S, Yung C, Zhu S, Awadalla P, Creighton C, Mey-erson M, Ouellette B, Wu K, Yang H, PCAWG Transcriptome Working Group, Brazma A, Brooks A, Göke J, Rätsch G, Schwarz R, Stegle O, Zhang Z, PCAWG Consortium, Nakagawa H, Boroevich KA, Fujimoto A, Fujita M, Furuta M, Maejima K, Nakano K, Oku-Sasaki A, Johnson TA, Tsunoda T, Lawrence MS. Genomic basis for RNA alterations in cancer. Nature 578, 129-136 (2020) 157 Pervolarakis N, Nguyen QH, Gutierrez G, Sun P, Jhutty D, Zheng G, Nemec C, Dai X, Watanabe K, Kessenbrock K. Integrated single-cell transcriptomics and chromatin accessibility analysis reveals novel regulators of mammary epithelial cell identity. Cell Rep 33, 108273 (2020) 158 Poulain SG, Arnaud O, Ishikawa-Kato S, Chen I, Ishida H, Carninci P, Plessy C. Machine-driven parameter screen of biochemical reactions. Nucleic Acids Res 48, e37 (2020) 159 Quek L, Krycer JR, Ohno S, Yugi K, Fazakerley DJ, Scalzo R, Elkington SD, Dai Z, Hiraya-ma A, Ikeda S, Futaba S, Suzuki K, Locasale JW, Soga T, James DE, Kuroda S. Dynamic 13C flux analysis captures the reorganization of adipocyte glucose metabolism in response to insulin. iScience 23, 101786 (2020) 160 Quek L, Krycer JR, Ohno S, Yugi K, Fazakerley DJ, Scalzo R, Elkington SD, Dai Z, Hi-rayama A, Ikeda S, Shoji F, Suzuki K, Locasale JW, Soga T, James DE, Kuroda S. Dynamic 13C Flux Analysis Captures the Reorganization of Adipocyte Glucose Metabolism in Response to Insulin. iScience 23, 100855 (2020) 161 Ramilowski J, Yip C, Agrawal S, Chang J, Ciani Y, Kulakovskiy I, Mendez M, Ooi J, Ouyang JF, Parkinson N, Petri A, Roos L, Severin J, Yasuzawa K, Abugessaisa I, Akalin A, Antonov I, Arner EA, Bonetti A, Bono H, Borsari B, Brombacher F, Cannistraci C, Cardenas R, Cardon M, Chang H, Dostie J, Ducoli L, Favorov AV, Fort A, Garrido D, Gill N, Gimenez J, Guler R, Handoko L, Harshbarger J, Hasegawa A, Hasegawa Y, Hashimoto K, Hayatsu N, Heutnik P, Hirose T, Luidy-Imada E, Itoh M, Kaczkowski B, Kanhere A, Kawabata E, Kawaji H, Kawashima T, Kelly T, Kojima M, Kondo N, Kratz A, Kurowska-Stolarska M, Kwon A, Leek JT, Lennartsson A, Lizio M, Lopez Redondo F, Luginbühl J, Maeda S, Makeev V, Marchionni L, Medvedeva YA, Minoda A, Mueller F, Munoz-Aguirre M, Murata M, Nishiyori H, Nitta K, Noguchi S, Noro Y, Nurtdinov R, Okazaki Y, Orlando V, Paquette D, Parr C, Rackham O, Rizzu P, Sanchez DF, Sandelin A, Pillay S, Semple C, Sharma H, Shibayama Y, Sivaraman DM, Suzuki T, Szumowski S, Tagami M, Taylor MS, Terao C, Thodberg M, Thongjuea S, Tripathi V, Ulitsky I, Verardo R, Vorontsov IE, Yamamoto C, Young RS, Baillie K, Guigó Serra R, Hoffman MM, Kasukawa T, Kaup-