PUBLICATIONS

• Shingo Tsuji, Takeshi Hase, Ayako Yachie, Taiko Nishino, Samik Ghosh, Masataka Kikuchi, Kazuro Shimokawa, Hiroyuki Aburatani, Hiroaki Kitano, Hiroshi Tanaka. Artificial intelligence-based computational framework for drug-target prioritization and inference of novel repositionable drugs for Alzheimer's disease.  Alzheimers Res Ther 13(1):92 (2021). https://doi.org/10.1186/s13195-021-00826-3

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• Nishi, A., Kaifuchi, N., Shimobori, C, Ohbuchi, K., Iizuka, S., Sugiyama, A.,  Ogura, K., Yamamoto, M., Kuroki, H., Nabeshima, S., Yachie, A.,  Matsuoka, Y. & Kitano, H.,Effects of maoto (ma-huang-tang) on host lipid mediator and transcriptome signature in influenza virus infection, Sci Rep 11, 4232 (2021). https://doi.org/10.1038/s41598-021-82707-1

•  Nishi, A., Ohbuchi, K., Kaifuchi, N., Shimobori, C ., Kushida,  H., Yamamoto,  M., Kita, Y.,  Tokuoka, S.M., Yachie,  A., Matsuoka, Y., & Kitano,  H., LimeMap: a comprehensive map of lipid mediator metabolic pathways., npj Syst Biol Appl 7, 6 (2021). https://doi.org/10.1038/s41540-020-00163-5

• Nishimura, T., Nakamura, H., Yachie, A. et al. Disease-related cellular protein networks differentially affected under different EGFR mutations in lung adenocarcinoma. Sci Rep 10, 10881 (2020). https://doi.org/10.1038/s41598-020-67894-7

• Kato, Yu, Kimiyo Tabata, Takayuki Kimura, Ayako Yachie-Kinoshita, Yoichi Ozawa, Kazuhiko Yamada, Junichi Ito, Sho Tachino, Yusaku Hori, Masahiro Matsuki, Yukiko Matsuoka, Samik Ghosh, Hiroaki Kitano, Kenichi Nomoto, Junji Matsui , Yasuhiro Funahashi Lenvatinib plus anti-PD-1 antibody combination treatment activates CD8+ T cells through reduction of tumor-associated macrophage and activation of the interferon pathway. PloS one 14, no. 2 (2019): e0212513.

• Sucheendra K. Palaniappan, Ayako Yachie-Kinoshita , Samik Ghosh. Computational Systems Biology. in Encyclopedia of Bioinformatics and Computational Biology 789–795 (Elsevier, 2019). doi:10.1016/b978-0-12-809633-8.20287-2

• Ayako Yachie-Kinoshita, Sucheendra K. Palaniappan , Samik Ghosh. Computational Systems Biology Applications. in Encyclopedia of Bioinformatics and Computational Biology 66–73 (Elsevier, 2019). doi:10.1016/b978-0-12-809633-8.20079-4

• Ayako Yachie‐Kinoshita, Kento Onishi, Joel Ostblom, Matthew A. Langley, Eszter Posfai, Janet Rossant, and Peter W. Zandstra.  "Modeling signaling‐dependent pluripotency with Boolean logic to predict cell fate transitions." Molecular systems biology 14, no. 1 (2018): e7952.