Journal Papers - total 23   

• 1. Kentaro Inoue, SBDyNetVis: a visualization tool of dynamic network for systems biology model, BioSystems 258, 105644, 2025. (IF=1.9) doi:10.1016/j.biosystems.2025.105644. PMID:41203058 , github (scopus被引用=)

  2. Yanuar Rahmat Fauzi, Shingo Nakahata, Kazuya Shimoda, Tadashi Matsuura, Shinji Hagiwara, Takuya Yokokawa, Kentaro Inoue, Hiroshi Moritake, Kazuhiro Morishita, Anti-transferrin receptor antibody (JST-TFR09/PPMX-T003) induces ferroptosis in adult T-cell leukemia/lymphoma (ATLL) cells, Biochemical and Biophysical Research Communications 756, 151564, 2025. (IF=2.5) doi.org/10.1016/j.bbrc.2025.151564 PMID:  40086360 (scopus被引用=0)

  3. Kentaro Inoue, Tomoharu Yasuda, Yoshihiro Baba, Tadashi Yamamoto, Tomohiro Kurosaki, Hisaaki Shinohara, Regulation mechanisms of CARMA1–Bcl10–MALT1 complex assembly inferred from the analysis of TRAF6-deficient cells, Genes to Cells 28 (6) 411-421, 2023. (IF=2.3) doi.org/10.1111/gtc.13022. PMID: 36871192 (scopus被引用=1)

  4. Kosuke Mochida, Shingo Nakahata, Yutaka Suzuki, Kentaro Inoue, Sayaka Moriguchi, Atsushi Yamashita, Masahiro Amano, Kazuhiro Morishita, Prognostic analysis of smoldering ATLL with skin eruptions based on genomic aberrations, Journal of Dermatological Science 109 (2) 80-88, 2023. (IF=5.4) doi.org/10.1016/j.jdermsci.2023.02.001  PMID:  36842846 (scopus被引用=2)

  5. Takashi Asada, Shingo Nakahata, Yanuar Rahmat Fauzi, Tomonaga Ichikawa, Kentaro Inoue, Nobuhiro Shibata, Yoshiro Fujii, Naoya Imamura, Masahide Hiyoshi, Atushi Nanashima, Kazuhiro Morishita, Integrin α6A (ITGA6A)-type Splice Variant in Extracellular Vesicles Has a Potential as a Novel Marker of the Early Recurrence of Pancreatic Cancer, Anticancer Research 42 (4) 1763-1775, 2022. (IF=2.5) doi.org/10.21873/anticanres.15653  PMID: 35346995 (scopus被引用=9)

  6. Kosuke Miyauchi, Sewon Ki, Masao Ukai, Yoshie Suzuki, Kentaro Inoue, Wataru Suda, Yoshihiro Ito, Kenya Honda, Haruhiko Koseki, Osamu Ohara, Reiko J. Tanaka, Mariko Okada-Hatakeyama, Masato Kubo, Essential Role of STAT3 Signaling in Hair Follicle Homeostasis, Frontiers in Immunology 12, 663177 , 2021. (IF=7.6) doi:10.3389/fimmu.2021.663177. PMID: 34867936  (scopus被引用=14)

  7. Kentaro Inoue, Feedback enrichment analysis for transcription factor-target genes in signaling pathways, BioSystems 198, 104262, 2020. (IF=1.8) doi:10.1016/j.biosystems.2020.104262. PMID:33002527  (scopus被引用=2)

  8. Takashi Mino, Noriki Iwai, Masayuki Endo, Kentaro Inoue, Kotaro Akaki, Fabian Hia, Takuya Uehata, Tomoko Emura, Kumi Hidaka, Yutaka Suzuki, Daron M. Standley, Mariko Okada-Hatakeyama, Shigeo Ohno, Hiroshi Sugiyama, Akio Yamashita and Osamu Takeuchi, Translation-dependent unwinding of stem–loops by UPF1 licenses Regnase-1 to degrade inflammatory mRNAs, Nucleic Acids Research 47(16), 8838-59, 2019. (IF=11.14) doi: 10.1093/nar/gkz628. PMID:31329944, プレスリリース  (scopus被引用=44)

  9. Kentaro Inoue, Sensitivity analysis for reproducible candidate values of model parameters in signaling hub model, PLoS ONE 14(2): e0211654, 2019. (IF=2.77) doi:10.1371/journal.pone.0211654. PMID: 30753191  (scopus被引用=3)

  10. Hasi Rani Saha, Kazuko Kaneda-Nakashima, Shunsuke Shimosaki, Akira Suekane, Bidhan Sarkar, Yusuke Saito, Honami Ogoh, Shingo Nakahata, Kentaro Inoue, Takayoshi Watanabe, Hiroki Nagase, Kazuhiro Morishita, Suppression of GPR56 expression by pyrrole-imidazole polyamide represents a novel therapeutic drug for AML with high EVI1 expression, Scientific Reports 8, 13741, 2018. (IF=4.12) doi:10.1038/s41598-018-32205-8. PMID: 30214063  (scopus被引用=15)

  11. Kentaro Inoue, Hisaaki Shinohara, Marcelo Behar, Noriko Yumoto, Gouhei Tanaka, Alexander Hoffmann, Kazuyuki Aihara, Mariko Okada-Hatakeyama, Oscillation dynamics underlie functional switching of NF-κB for B-cell activation, npj Systems Biology and Applications 2, 16024, 2016. (IF=3.81) doi:10.1038/npjsba.2016.24. PMID: 28725478; source code  (scopus被引用=27)

  12. Kosuke Miyauchi, Akiko Sugimoto-Ishige, Yasuyo Harada, Yu Adachi, Yoshiko Usami, Tomohiro Kaji, Kentaro Inoue, Hideki Hasegawa, Takashi Watanabe, Atsushi Hijikata, Satoshi Fukuyama, Tadashi Maemura, Mariko Okada-Hatakeyama, Osamu Ohara, Yoshihiro Kawaoka, Yoshimasa Takahashi, Toshitada Takemori, Masato Kubo, Protective neutralizing influenza antibody response in the absence of T follicular helper cells, Nature Immunology 17, 1447-1458, 2016. (IF=19.38) doi:10.1038/ni.3563. PMID: 27798619, プレスリリース, 新着論文レビュー  (scopus被引用=112)

  13. Hisaaki Shinohara, Kentaro Inoue, Noriko Yumoto, Takeshi Nagashima, Mariko Okada-Hatakeyama, Stimulus-Dependent Inhibitor of Apoptosis Protein Expression Prolongs the Duration of B Cell Signalling, Scientific Reports 6, 27706, 2016. doi:10.1038/srep27706. (IF=5.57) PMID: 27277891  (scopus被引用=9)

  14. Noorlin Mohd Ali, Ryo Tsuboi, Yuta Matsumoto, Daisuke Koishi, Kentaro Inoue, Kazuhiro Maeda, Hiroyuki Kurata, Web Application for Genetic Modification Flux with Database to Estimate Metabolic Fluxes of Genetic Mutants, Journal of Bioscience and Bioengineering 122:1, 111-116, 2016. doi:10.1016/j.jbiosc.2015.12.001. (IF=1.88). PMID: 26777238  (scopus被引用=0)

  15. Keisuke Yoshida, Claire Renard-Guillet, Kentaro Inoue, Katsuhiko Shirahige, Mariko Okada-Hatakeyama, Shunsuke Ishii, Microarray expression analysis of genes involved in innate immune memory in peritoneal macrophages, Genomics Data 7, 90-91, 2016. doi:10.1016/j.gdata.2015.11.028. PMID: 26981372  (scopus被引用=0)

  16. Keisuke Yoshida, Toshio Maekawa, Yujuan Zhu, Claire Renard-Guillet, Bruno Chatton, Kentaro Inoue, Takeru Uchiyama, Ken-ichi Ishibashi, Takuji Yamada, Naohito Ohno, Katsuhiko Shirahige, Mariko Okada-Hatakeyama, Shunsuke Ishii, The transcription factor ATF7 mediates lipopolysaccharide-induced epigenetic changes in macrophages involved in innate immunological memory, Nature Immunology 16, 1034-1043, 2015 (IF=19.38); PMID: 26322480,  プレスリリース  (scopus被引用=150)

  17. Kentaro Inoue, Kazuhiro Maeda, Takaaki Miyabe, Yu Matsuoka, Hiroyuki Kurata, CADLIVE Toolbox for MATLAB: Automatic dynamic modeling of biochemical networks with comprehensive system analysis, Bioprocess and Biosystems Engineering 37(9), 1925-1927, 2014 (IF=1.869) ; tool  PMID: 24623466  (scopus被引用=6)

  18. Hisaaki Shinohara, Marcelo Behar, Kentaro Inoue, Michio Hiroshima, Tomoharu Yasuda, Takeshi Nagashima, Shuhei Kimura, Hideki Sanjo, Shiori Maeda, Noriko Yumoto, Sewon Ki, Shizuo Akira, Yasushi Sako, Alexander Hoffmann, Tomohiro Kurosaki, Mariko Okada-Hatakeyama, Positive Feedback Within a Kinase Signaling Complex Functions as a Switch Mechanism for NF-κB Activation, Science 344  (6185),  760-764 , 2014 (IF=31.02) PMID: 24833394 , you can download the reprint  here. プレスリリース, 新着論文レビュー, UCLA Newsroom; source code  (scopus被引用=79)

  19. Kentaro Inoue, Kazuhiro Maeda, Yuki Kato, Shinpei Tonami, Shogo Takagi, Hiroyuki Kurata, CADLIVE Optimizer: Web-based Parameter Estimation for Dynamic Models, Source Code for Biology and Medicine 7:9, 2012 ; tool  PMID: 22929413  (scopus被引用=3)

  20. Kentaro Inoue, Shinichi Shimozono, Hideaki Yoshida, Hiroyuki Kurata, Application of Approximate Pattern Matching in Two Dimensional Space to Grid Layout for Biochemical Network Maps, PLoS ONE 7(6): e37739, 2012 (IF=4.411) ; tool  PMID: 22679486  (scopus被引用=10)

  21. Kentaro Inoue, Sayaka Tomeda, Shinpei Tonami, Yuki Shimokawa, Masayo Ono, Hiroyuki Kurata, CADLIVE Converter for constructing a biochemical network map, Biochemical Engineering Journal 54(3): 200-206, 2011 (IF=2.692) ; tool (scopus被引用=3)

  22. Kentaro Inoue, Weijiang Li, Hiroyuki Kurata, Diffusion Model Based Spectral Clustering for Protein-Protein Interaction Networks, PLoS ONE 5(9): e12623, 2010 (IF=4.351) ; tool  PMID: 20830307  (scopus被引用=29)

  23. Hiroyuki Kurata, Kentaro Inoue, Kazuhiro Maeda, Koichi Masaki, Yuki Shimokawa, Quanyu Zhao, Extended CADLIVE: a novel graphical notation for designing a biochemical network map that enables computational pathway analysis, Nucleic Acids Research 35(20):e134, 2007 (IF=7.479) ; tool  PMID: 17940089  (scopus被引用=29)

Technical Reports  - total 7

• 1. 井上健太郎, 生物モデルにおける同じ動態を再現可能なパラメタセットのグローバルなパラメタ変動解析 , 情報処理学会バイオ情報学研究報告, 2020-BIO-63(3), 1-6, 2020.

  2. 井上健太郎, シグナル伝達系の大規模数理モデルにおけるパラメタ推定法, 情報処理学会バイオ情報学研究報告, 2017-BIO-51(8), 1-2, 2017.

  3. Noorlin Mohd Ali, Kentaro Inoue, Hiroyuki Kurata, Database for predicting a metabolic flux distribution within a cell, IPSJ SIG Technical Report, 2013-BIO-35 No.6, 1-2, 2013.

  4. Shinichi Shimozono, Kentaro Inoue, Hiroyuki Kurata, Efficient Grid Graph Layout by Approximate Point-set Matching on the Plane, IPSJ SIG Technical Report, 2012-BIO-30 No.1, 1-3, 2012.

  5. Noorlin Mohd Ali, Kentaro Inoue, Soma Tabata, Hiroyuki Kurata, The effect of implementing objective functions in analyzing the changes of enzyme activity profiles, IPSJ SIG Technical Report, 2012-BIO-30 No.8, 1-2, 2012.

  6. Kentaro Inoue, Shinichi Shimozono, Hideaki Yoshida and Hiroyuki Kurata,  Hybrid Layout Algorithm using Approximate Pattern Matching in Two Dimensional Space for Biochemical Network Layout, IPSJ SIG Technical Report, 2011-BIO-24 No.6, 1-6, 2011.

  7. Kentaro Inoue, Weijiang Li, and Hiroyuki Kurata, Modular decomposition based spectrum for protein-protein interaction network, IPSJ SIG Technical Report, 2009-BIO-17 No.14, 1-4, 2009.

Reviews and Commentaries - total 6

• 1. 篠原久明、井上健太郎、岡田眞里子、キナーゼシグナル複合体内における正のフィードバックはNF-kBを活性化するスイッチとして働く、Japanese Scientists in Science 2014

  2. 篠原久明、井上健太郎、岡田眞里子、B細胞の免疫応答を制御するシグナル活性の閾値決定機構、「感染・炎症・免疫」、 vol.45:1、Spring 2015

  3. 篠原久明、井上健太郎、岡田眞里子、B細胞受容体シグナル伝達系における正のフィードバック制御によるNF-κBの活性化のスイッチ様の応答、新着論文レビュー、2014年6月18日

  4. 倉田博之、前田和勲、井上健太郎、 医学や環境へのバイオインフォマティックスの進展、 化学工学会バイオ部会 NewsLetter No.29、1-4、 2012

  5. 井上健太郎、 倉田博之、 スペクトルクラスタリングによるタンパク質相互作用ネットワークの機能モジュール分解、 ソフトウェアバイオロジー、 9:37-41、 2010

  6. 井上健太郎、 下川由紀、 倉田博之、 大規模生命分子ネットワークのトポロジカル解析、  ソフトウエアバイオロジー、 6:45-49、 2007

Others

• Kentaro Inoue, Grid layout algorithm for biochemical networks using approximate pattern matching, Asian Bioinformatics Research and Education Network (ABREN) 2011