Research Summary

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

• 1.Kochi Y, Kamatani Y, Kondo Y, Suzuki A, Kawakami E, Hiwa R, Momozawa Y, Fujimoto M, Jinnin M, Tanaka Y, Kanda T, Cooper RG, Chinoy H, Rothwell S, Lamb JA, Vencovský J, Mann H, Ohmura K, Myouzen K, Ishigaki K, Nakashima R, Hosono Y, Tsuboi H, Kawasumi H, Iwasaki Y, Kajiyama H, Horita T, Ogawa-Momohara M, Takamura A, Tsunoda S, Shimizu J, Fujio K, Amano H, Mimori A, Kawakami A, Umehara H, Takeuchi T, Sano H, Muro Y, Atsumi T, Mimura T, Kawaguchi Y, Mimori T, Takahashi A, Kubo M, Kohsaka H, Sumida T, Yamamoto K.:
  “Splicing variant of WDFY4 augments MDA5 signalling and the risk of clinically amyopathic dermatomyositis.”
  Ann Rheum Dis 77, 602-611 (2018)
• 2.Kawakami E, Adachi N, Senda T, Horikoshi M.:
  “Leading role of TBP in the Establishment of Complexity in Eukaryotic Transcription Initiation Systems.”
  Cell Rep 21, 3941-3956 (2017)
• 3.Hayatsu N, Miyao T, Tachibana M, Murakami R, Kimura A, Kato T, Kawakami E, Endo TA, Setoguchi R, Watarai H, Nishikawa T, Yasuda T, Yoshida H, Hori S.:
  “Analyses of a Mutant Foxp3 Allele Reveal BATF as a Critical Transcription Factor in the Differentiation and Accumulation of Tissue Regulatory T Cells.”
  Immunity 47, 268-283. e9 (2017)
• 4.Kawakami E, Nakaoka S, Ohta T, Kitano H.:
  “Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data.”
  Nucleic Acids Res 44, 5010-21 (2016)
• 5.Kawakami E, Singh VK, Matsubara K, Ishii T, Matsuoka Y, Hase T, Kulkarni P, Siddiqui K, Kodilkar J, Danve N, Subramanian I, Katoh M, Shimizu-Yoshida Y, Ghosh S, Jere A, Kitano H.:
  “Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways.”
  NPJ Syst Biol Appl 2, 15018 (2016)
• 6.*Watanabe T, Kawakami E (contributed equally), Shoemaker JE, Lopes TJ, Matsuoka Y, Tomita Y, Kozuka-Hata H, Gorai T, Kuwahara T, Takeda E, Nagata A, Takano R, Kiso M, Yamashita M, Sakai-Tagawa Y, Katsura H, Nonaka N, Fujii H, Fujii K, Sugita Y, Noda T, Goto H, Fukuyama S, Watanabe S, Neumann G, Oyama M, Kitano H, Kawaoka Y.:
  “Influenza virus-host interactome screen as a platform for antiviral drug development.”
  Cell Host Microbe 16, 795-805 (2014)
• 7.*Imai M, Watanabe T, Hatta M, Das SC, Ozawa M, Shinya K, Zhong G, Hanson A, Katsura H, Watanabe S, Li C, Kawakami E, Yamada S, Kiso M, Suzuki Y, Maher EA, Neumann G, Kawaoka Y.:
  “Experimental adaptation of an influenza H5 HA confers respiratory droplet transmission to a reassortant H5 HA/H1N1 virus in ferrets.”
  Nature 486, 420-8 (2012)
• 8.*Noda T, Sugita Y, Aoyama K, Hirase A, Kawakami E, Miyazawa A, Sagara H, Kawaoka Y.:
  “Three-dimensional analysis of ribonucleoprotein complexes in influenza A virus.”
  Nat Commun 3, 639 (2012)
• 9.*Watanabe T, Kiso M, Fukuyama S, Nakajima N, Imai M, Yamada S, Murakami S, Yamayoshi S, Iwatsuki-Horimoto K, Sakoda Y, Takashita E, McBride R, Noda T, Hatta M, Imai H, Zhao D, Kishida N, Shirakura M, de Vries RP, Shichinohe S, Okamatsu M, Tamura T, Tomita Y, Fujimoto N, Goto K, Katsura H, Kawakami E, Ishikawa I, Watanabe S, Ito M, Sakai-Tagawa Y, Sugita Y, Uraki R, Yamaji R, Eisfeld AJ, Zhong G, Fan S, Ping J, Maher EA, Hanson A, Uchida Y, Saito T, Ozawa M, Neumann G, Kida H, Odagiri T, Paulson JC, Hasegawa H, Tashiro M, Kawaoka Y.:
  “Characterization of H7N9 influenza A viruses isolated from humans.”
  Nature 501, 551-5 (2013)
• 10.*Kawakami E, Watanabe T, Fujii K, Goto H, Watanabe S, Noda T, Kawaoka Y.:
  “Strand-specific real-time RT-PCR for distinguishing influenza vRNA, cRNA, and mRNA.”
  J Virol Methods 173, 1-6 (2011)

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

• 1.Kawakami E, Tabata J, Yanaihara N, Ishikawa T, Koseki K, Iida Y, Saito M, Komazaki H, Shapiro JS, Goto C, Akiyama Y, Saito R, Saito M, Takano H, Yamada K, Okamoto A.:
  "Application of Artificial Intelligence for Preoperative Diagnostic and Prognostic Prediction in Epithelial Ovarian Cancer Based on Blood Biomarkers"
  Clinical Cancer Research 25, 3006-3015 (2019)
• 2.Kochi Y, Kamatani Y, Kondo Y, Suzuki A, Kawakami E, Hiwa R, Momozawa Y, Fujimoto M, Jinnin M, Tanaka Y, Kanda T, Cooper RG, Chinoy H, Rothwell S, Lamb JA, Vencovsky J, Mann H, Ohmura K, Myouzen K, Ishigaki K, Nakashima R, Hosono Y, Tsuboi H, Kawasumi H, Iwasaki Y, Kajiyama H, Horita T, Ogawa-Momohara M, Takamura A, Tsunoda S, Shimizu J, Fujio K, Amano H, Mimori A, Kawakami A, Umehara H, Takeuchi T, Sano H, Muro Y, Atsumi T, Mimura T, Kawaguchi Y, Mimori T, Takahashi A, Kubo M, Kohsaka H, Sumida T, Yamamoto K.:
  "Splicing variant of WDFY4 augments MDA5 signalling and the risk of clinically amyopathic dermatomyositis."
  Annals of the Rheumatic Diseases 77, 602-611 (2018)
• 3.Kawakami E, Adachi N, Senda T, Horikoshi M.:
  "Leading role of TBP in the Establishment of Complexity in Eukaryotic Transcription Initiation Systems."
  Cell Reports 21, 3941-3956 (2017)
• 4.Hayatsu N, Miyao T, Tachibana M, Murakami R, Kimura A, Kato T, Kawakami E, Endo TA, Setoguchi R, Watarai H, Nishikawa T, Yasuda T, Yoshida H, Hori S.:
  "Analyses of a Mutant Foxp3 Allele Reveal BATF as a Critical Transcription Factor in the Differentiation and Accumulation of Tissue Regulatory T Cells."
  Immunity 47, 268-283. e9 (2017)
• 5.Kawakami E, Nakaoka S, Ohta T, Kitano H.:
  "Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data."
  Nucleic Acids Research 44, 5010-5021 (2016)
• 6.Kawakami E, Singh VK, Matsubara K, Ishii T, Matsuoka Y, Hase T, Kulkarni P, Siddiqui K, Kodilkar J, Danve N, Subramanian I, Katoh M, Shimizu-Yoshida Y, Ghosh S, Jere A, Kitano H.:
  "Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways."
  npj Systems Biology and Applications 2, 15018 (2016)
• 7.*Watanabe T, Kawakami E (contributed equally), Shoemaker JE, Lopes TJ, Matsuoka Y, Tomita Y, Kozuka-Hata H, Gorai T, Kuwahara T, Takeda E, Nagata A, Takano R, Kiso M, Yamashita M, Sakai-Tagawa Y, Katsura H, Nonaka N, Fujii H, Fujii K, Sugita Y, Noda T, Goto H, Fukuyama S, Watanabe S, Neumann G, Oyama M, Kitano H, Kawaoka Y.:
  "Influenza virus-host interactome screen as a platform for antiviral drug development."
  Cell Host & Microbe 16, 795-805 (2014)
• 8.*Imai M, Watanabe T, Hatta M, Das SC, Ozawa M, Shinya K, Zhong G, Hanson A, Katsura H, Watanabe S, Li C, Kawakami E, Yamada S, Kiso M, Suzuki Y, Maher EA, Neumann G, Kawaoka Y.:
  "Experimental adaptation of an influenza H5 HA confers respiratory droplet transmission to a reassortant H5 HA/H1N1 virus in ferrets."
  Nature 486, 420-8 (2012)
• 9.*Watanabe, T., Kiso, M., Fukuyama, S., Nakajima, N., Imai, M., Yamada, S., Murakami, S., Yamayoshi, S., Iwatsuki-Horimoto, K., Sakoda, Y., Takashita, E., McBride, R., Noda, T., Hatta, M., Imai, H., Zhao, D., Kishida, N., Shirakura, M., de Vries, RP., Shichinohe, S., Okamatsu, M., Tamura, T., Tomita, Y., Fujimoto, N., Goto, K., Katsura, H., Kawakami, E., Ishikawa, I., Watanabe, S., Ito, M., Sakai-Tagawa, Y., Sugita, Y., Uraki, R., Yamaji, R., Eisfeld, AJ., Zhong, G., Fan, S., Ping, J., Maher, EA., Hanson, A., Uchida, Y., Saito, T., Ozawa, M., Neumann, G., Kida, H., Odagiri, T., Paulson, JC., Hasegawa, H., Tashiro, M., Kawaoka, Y.:
  "Characterization of H7N9 influenza A viruses isolated from humans."
  Nature 501, 551-5 (2013)
• 10.*Kawakami, E., Watanabe, T., Fujii, K., Goto, H., Watanabe, S., Noda, T., Kawaoka, Y.:
  "Strand-specific real-time RT-PCR for distinguishing influenza vRNA, cRNA, and mRNA."
  Journal of Virological Methods 173, 1-6 (2011)

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W507/509 West Research Building
1-7-22 Suehiro-cho, Tsurumi-ku,
Yokohama City, Kanagawa,
230-0045, Japan
Email: eiryo.kawakami [at] riken.jp