Peer-reviewed journal papers

2016

  • Oscillation dynamics underlie functional switching of NF-κB for B-cell activation, Kentaro Inoue, Hisaaki Shinohara, Marcelo Behar, Noriko Yumoto, Gouhei Tanaka, Alexander Hoffmann, Kazuyuki Aihara, Mariko Okada-Hatakeyama., npj Systems Biology and Applications, 2, 16024, 2016.
  • Protective neutralizing influenza antibody response in the absence of T follicular helper cells, 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., Nature Immunology, doi:10.1038/ni.3563, 2016. PMID: 27798619
  • Stimulus-Dependent Inhibitor of Apoptosis Protein Expression Prolongs the Duration of B Cell Signalling, H. Shinohara, K. Inoue, N. Yumoto, T. Nagashima, M. Okada-Hatakeyama., Sci Rep ., 6, 27706, doi:10.1038/srep27706, 2016. PMID: 27277891
  • Microarray expression analysis of genes involved in innate immune memory in peritoneal macrophages, Yoshida K, Renard-Guillet C, Inoue K, Shirahige K, Okada-Hatakeyama M, Ishii S., Genomics Data, doi:10.1016/j.gdata.2015.11.028, 2016.

2015

  • CD4 memory T cells develop and acquire functional competence by sequential cognate interactions and stepwise gene regulation, Kaji T, Higikata A, Ishige A, Kitami T, Watanabe T. Ohara O, Yanaka N, Okada M, Shimoda M, Taniguchi M, Takemori T., Int. Immunol., doi: 10.1093/intimm/dxv071, 2015. PMID: 26714588
  • Application of gene expression trajectories initiated from ErbB receptor activation highlights the dynamics of divergent promoter usage, Carbajo D, Magi S, Itoh M, Kawaji H, Lassmann T, Arner E, Forrest AR, Carninci P, Hayashizaki Y, Daub CO; FANTOM consortium, Okada-Hatakeyama M, Mar JC., PLos One, 10(12):e0144176, 2015. PMID: 26658111
  • The transcription factor ATF7 mediates lipopolysaccharide-induced epigenetic changes in macrophages involved in innate immunological memory, Yoshida K, Maekawa T., Zhu Y., Renard-Guillet C., Chatton B., Inoue K., Uchiyama T., Ishibashi K., Yamada T., Ohno N., Shirahige K., Okada-Hatakeyama M., Ishii S, Nat Immunol., 16, 1034-1043, 2015. PMID: 26322480
  • Promoter-level expression clustering identifies time development of transcriptional regulatory cascades initiated by ErbB receptors in breast cancer cells, Mina M, Magi S, Jurman G, Itoh M, Kawaji H, Lassmann T, Arner E, Forrest ARR, Carninci P, Hayashizaki Y, Daub CO, the FANTOM Consortium, Okada-Hatakeyama M*, Furlanello C*, Scientific Reports, 5:11999, 1-13, 2015.
  • Transcriptional dynamics reveal critical roles for non-coding RNAs in the immediate-early response, Aitken S, Magi S, Alhendi AM, Itoh M, Kawaji H, Lassmann T, Daub CO, Arner E, Carninci P, Forrest AR, Hayashizaki Y; FANTOM Consortium, Khachigian LM, Okada-Hatakeyama M, Semple CA.., PLoS Comput Biol. 2015 Apr 17;11(4):e1004217. doi: 10.1371/journal.pcbi.1004217. eCollection 2015 Apr. PMID: 25885578
  • Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells, Arner E, Daub CO, Vitting-Seerup K, Andersson R, Lilje B, Drabløs F, Lennartsson A, Rönnerblad M, Hrydziuszko O, Vitezic M, Freeman TC, Alhendi AM, Arner P, Axton R, Baillie JK, Beckhouse A, Bodega B, Briggs J, Brombacher F, Davis M, Detmar M, Ehrlund A, Endoh M, Eslami A, Fagiolini M, Fairbairn L, Faulkner GJ, Ferrai C, Fisher ME, Forrester L, Goldowitz D, Guler R, Ha T, Hara M, Herlyn M, Ikawa T, Kai C, Kawamoto H, Khachigian LM, Klinken SP, Kojima S, Koseki H, Klein S, Mejhert N, Miyaguchi K, Mizuno Y, Morimoto M, Morris KJ, Mummery C, Nakachi Y, Ogishima S,Okada-Hatakeyama M, Okazaki Y, Orlando V, Ovchinnikov D, Passier R, Patrikakis M, Pombo A, Qin XY, Roy S, Sato H, Savvi S, Saxena A, Schwegmann A, Sugiyama D, Swoboda R, Tanaka H, Tomoiu A, Winteringham LN, Wolvetang E, Yanagi-Mizuochi C, Yoneda M, Zabierowski S, Zhang P, Abugessaisa I, Bertin N, Diehl AD, Fukuda S, Furuno M, Harshbarger J, Hasegawa A, Hori F, Ishikawa-Kato S, Ishizu Y, Itoh M, Kawashima T, Kojima M, Kondo N, Lizio M, Meehan TF, Mungall CJ, Murata M, Nishiyori-Sueki H, Sahin S, Nagao-Sato S, Severin J, de Hoon MJ, Kawai J, Kasukawa T, Lassmann T, Suzuki H, Kawaji H, Summers KM, Wells C; FANTOM Consortium, Hume DA, Forrest AR, Sandelin A, Carninci P, Hayashizaki Y. Science. 2015 Feb 27;347(6225):1010-4. doi: 10.1126/science.1259418. Epub 2015 Feb 12. PMID: 25678556
  • Signalling mechanisms regulating phenotypic changes in breast cancer cells, Volinsky N, McCarthy CJ, Von Kriegsheim A, Saban N, Okada-Hatakeyama M, Kolch W, Kholodenko BN., Biosci Rep. 2015 Feb 3. PMID: 25643809
  • Feedforward regulation of mRNA stability by prolonged ERK activity, Nagashima T, Inoue N, Yumoto N, Saeki Y, Magi S, Volinsky N, Sorkin A, Kholodenko BN, Okada-Hatakeyama M., FEBS J. 2014 Dec 9 PMID: 25491268

2014

  • Genome-wide comprehensive analysis of transcriptional regulation by ArgR in Thermus thermophilus, Iwanaga N, Ide K, Nagashima T, Tomita T, Agari Y, Shinkai A, Kuramitsu S, Okada-Hatakeyema M, Kuzuyama T, Nishiyama M., Extremophiles., 2014 Nov 18(6): 995-1008, 2014 PMID:25069875
  • Positive Feedback Within a Kinase Signaling Complex Functions as a Switch Mechanism for NF-κB Activation, 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, Science, Vol.344 no. 6185 pp. 760-764 , 2014, May 16. PMID:24833394.
  • [download reprint here]
    press release(Science signal editor’s chice, UCLA Newsroom, Medical Xpress, RIKEN(Japanese))

  • Differential roles of epigenetic changes and Foxp3 expression in regulatory T cell-specific transcriptional regulation, Morikawa H, Ohkura N, Vandenbon A, Itoh M, Nagao-Sato S, Kawaji H, Lassmann T, Carninci P, Hayashizaki Y, Forrest AR, Standley DM, Date H, Sakaguchi S; FANTOM Consortium. Proc Natl Acad Sci U S A. 2014 Apr 8;111(14):5289-94. doi: 10.1073/pnas.1312717110. Epub 2014 Mar 27. PMID: 24706905
  • Ceruloplasmin is a novel adipokine which is overexpressed in adipose tissue of obese subjects and in obesity-associated cancer cells. Arner E, Forrest AR, Ehrlund A, Mejhert N, Itoh M, Kawaji H, Lassmann T, Laurencikiene J, Rydén M, Arner P; FANTOM Consortium. PLoS One. 2014 Mar 27;9(3):e80274. doi: 10.1371/journal.pone.0080274. eCollection 2014. PMID: 24676332
  • A promoter-level mammalian expression atlas. FANTOM Consortium and the RIKEN PMI and CLST (DGT). Nature. 2014 Mar 27;507(7493):462-70. doi: 10.1038/nature13182. PMID: 24670764
  • An atlas of active enhancers across human cell types and tissues. Andersson R, Gebhard C, Miguel-Escalada I, Hoof I, Bornholdt J, Boyd M, Chen Y, Zhao X, Schmidl C, Suzuki T, Ntini E, Arner E, Valen E, Li K, Schwarzfischer L, Glatz D, Raithel J, Lilje B, Rapin N, Bagger FO, Jørgensen M, Andersen PR, Bertin N, Rackham O, Burroughs AM, Baillie JK, Ishizu Y, Shimizu Y, Furuhata E, Maeda S, Negishi Y, Mungall CJ, Meehan TF, Lassmann T, Itoh M, Kawaji H, Kondo N, Kawai J, Lennartsson A, Daub CO, Heutink P, Hume DA, Jensen TH, Suzuki H, Hayashizaki Y, Müller F; FANTOM Consortium, Forrest AR, Carninci P, Rehli M, Sandelin A. Nature. 2014 Mar 27;507(7493):455-61. doi: 10.1038/nature12787.PMID: 24670763
  • Slow fluctuation of Rac1 activity is associated with biological and transcriptional heterogeneity of glioma cells. H. Yukinaga, C. Shionyu, E. Hirata, K. Ui-Tei, T. Nagashima, S. Kondo, M. Okada-Hatakeyama, H. Naoki and M. Matsuda, J. Cell Sci. 2014, Feb 12.

2013

  • Computational design of small peptide inhibitors of protein-protein interactions in CRK-SH2 mediated intracellular signaling. Models in Bioscience and Materials Research. 155-166. 2013.
  • Inference of Vohradsky’s models of genetic networks by solving two-dimensional function optimization problems Kimura, S., Sato, M. & Okada-Hatakeyam, M. PLoS One. Vol.8, e83308.2013. PMID:24386175
  • Capturing drug responses by quantitative promoter activity profiling. Kajiyama K, Okada-Hatakeyama M, Hayashizaki Y, Kawaji H, Suzuki H. CPT Pharmacometrics Syst Pharmacol. 2013 Sep 25;2:e77.PMID:24067440
  • Both mutated and unmutated memory B cells accumulate mutations in the course of the secondary response and develop a new antibody repertoire optimally adapted to the secondary stimulus. Kaji T, Furukawa K, Ishige A, Toyokura I, Nomura M, Okada M, Takahashi Y, Shimoda M, Takemori T. Int Immunol. 2013 Sep 10. PMID:24021876
  • Statistical significance of combinatorial regulations, Aika Terada, Mariko Okada-Hatakeyama, Koji Tsuda, and Jun Sese, Proc. Natl. Acad. Sci. Vol. 110, No. 32, pp. 12996-13001, 2013. PMID:23882073
  • Phase responses of oscillating components in a signaling pathway. Nomura M, Okada-Hatakeyama M. Front Physiol. 4:68, 2013. PMID:23576992
  • Individual hematopoietic stem cells in human bone marrow of patients with aplastic anemia or myelodysplastic syndrome stably give rise to limited cell lineages. Katagiri, T., Kawamoto, H., Nakakuki, T., Ishiyama, K., Okada-Hatakeyama, M., Ohtake, S. Yu Seiki Y., Hosokawa K. and Nakao, S. Stem Cells. 2013 Jan 12. PMID:23316019

2012

  • Distinct cellular pathways select germ-line encoded and somatically mutated antibodies into immunological memory. Kaji T., Ishige, A., Hikida, M., Taka J., Hijikata A., Kubo M., Nagashima T., Takahashi Y., Kurosaki T., Okada M., Ohara O., Rajewsky K., and Takemori T. Journal of Experimental Medicine., 209(11):2079-2097, 2012. PMID: 23027924.
  • Dynamically varying interactions between heregulin and ErbB proteins detected by single-molecule analysis in living cells. Hiroshima, M., Saeki, Y., Okada-Hatakeyama, M., and Sako, Y. Proc. Natl. Acad. Sci. U.S.A , 109 (35) 13984-13989., 2012. PMID: 22891299
  • Catching transcriptional regulation by thermostatistical modeling. Hiroshima, Till D. F., Cheong, A., Okada-Hatakeyama, M., and Kholodenko, B.N. Physical Biology
    , 9, 045007.
  • An ErbB receptor–mediated AP-1 regulatory network is modulated by STAT3 and c-MYC during calcium-dependent keratinocyte differentiation. Saeki, Y., Nagashima, T., Kimura, S., and Okada-Hatakeyama M. Experimental Dermatology., 21(4):293-298. PMID: 22417306
  • Inference of S-system models of genetic networks by solving one-dimensional function optimization problems. Araki, D., Matsumura, K., Okada-Hatakeyama, M., and Kimura, S. Mathematical Biosciences., 235, 161-170. PMID: 22155075

2011

  • Obesity resistance and increased hepatic expression of catabolism-related mRNAs in Cnot3+/- mice. Morita, M., Oike, Y., Nagashima, T., Kadomatsu, T., Tabata, M., Suzuki, T., Nakamura, T., Yoshida, N., Okada, M., and Yamamoto, T. EMBO Journal., 30,4678-4691, 2011. PMID:21897366
  • A rank-based statistical test for measuring synergistic effects between two gene sets. Yuichi Shiraishi, Mariko Okada-Hatakeyama and Satoru Miyano. Bioinformatics., 27, 2399-2405. PMID:21700673
  • Efficient Parameter Estimation for the Inference of S-system Models of Genetic Networks: Proposition of Further Problem Decomposition and Alternate Function Optimization. S.Kimura, K.Matsumura and M.Okada-Hatakeyama. Chem-Bio Informatics Journal., 11, 24-40, 2011. Link (Japanese)
  • Epidermal growth factor receptor mutation in combination with expression of MIG6 alters gefitinib sensitivity. Yoshimi Naruo, Takeshi Nagashima, Ryoko Ushikoshi-Nakayama, Yuko Saeki, Takashi Nakakuki, Takashi Naka, Hiroshi Tanaka, Shih-Feng Tsai & Mariko Okada-Hatakeyama. BMC Syst Biol., 5:29, 2011. PMID: 21333004
  • Computation of Restoration of Ligand Response in the Random Kinetics of a Prostate Cancer Cell Signaling Pathway. Saswati Dana, Takashi Nakakuki, Mariko Okada-Hatakeyama, Shuhei Kimura & Soumyendu Raha. Comput. Methods Programs Biomed., 101(1):1-22, 2011. PMID: 20494471
  • Integrated quantitative analysis of the phosphoproteome and transcriptome in tamoxifen-resistant breast cancer.
    Masaaki Oyama, Takeshi Nagashima, Takashi Suzuki, Hiroko Kozuka-Hata, Noriko Yumoto, Yuichi Shiraishi, Kazuhiro Ikeda, Yoko Kuroki, Noriko Gotoh, Takanori Ishida, Satoshi Inoue, Hiroaki Kitano & Mariko Okada-Hatakeyama. J. Biol. Chem., 286(1):818-29, 2011. PMID:21044952

2010

  • AGLSDC: a Genetic Local Search suitable for Parallel Computation. Shuhei Kimura, Takashi Nakakuki, Seiji Kirita & Mariko Okada. SICE Journal of Control, Measurement, and System Integration. Link
  • Inference of genetic networks using LPMS: Assessments of confidence values of regulations. Shuhei Kimura, Yuichi Shiraishi & Mariko Okada. Journal of Bioinformatics and Computational Biology, 8(4):661-77, 2010. Link
  • Ligand-specific c-Fos expression emerges from the spatiotemporal control of ErbB network dynamics. Takashi Nakakuki, Marc R. Birtwistle, Yuko Saeki, Noriko Yumoto, Kaori Ide, Takeshi Nagashima, Lutz Brusch, Babatunde A. Ogunnaike, Mariko Okada-Hatakeyama & Boris N. Kholodenko. Cell, 141(5):884-96, 2010. PMID: 20493519
  • Inferring cluster-based networks from differently stimulated multiple time-course gene expression data. Yuichi Shiraishi, Shuhei Kimura & Mariko Okada. Bioinformatics, 26(8):1073-81, 2010. PMID: 20223837

2009

  • Ligand-Specific Sequential Regulation of Transcription Factors for Differentiation of MCF-7 Cells. Yuko Saeki, Takaho Endo, Kaori Ide, Takeshi Nagashima, Noriko Yumoto, Tetsuro Toyoda, Harukazu Suzuki, Yoshihide Hayashizaki, Yoshiyuki Sakaki & Mariko Okada-Hatakeyama. BMC Genomics, 10(1):545, 2009. PMID:19925682
  • Mutation of epidermal growth factor receptor is associated with MIG6 expression. Takeshi Nagashima, Ryoko Nakayama, Atsushi Suenaga, Kaori Ide, Noriko Yumoto, Yoshimi Naruo, Kaoru Takahashi, Yuko Saeki, Makoto Taiji, Hiroshi Tanaka, Tsai Shih-Feng & Mariko Hatakeyama. FEBS J., 276(18):5239-51, 2009. PMID: 19674104
  • The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. FANTOM Consortium, et al. Nat. Genet., 41(5):553-562, 2009. PMID: 19377474
  • Structural and functional basis of a role for CRKL in a fibroblast growth factor 8-induced feed-forward loop. Ji-Heui Seo, Atsushi Suenaga, Mariko Hatakeyama, Makoto Taiji & Akira Imamoto. Mol. Cell. Biol., 29 (11): 3076-87, 2009. PMID: 19307307
  • Genetic network inference as discrimination tasks.  Shuhei Kimura, Satoshi Nakayama & Mariko Hatakeyama. Bioinformatics, 25(7):918-25, 2009. PMID:19189976
  • Molecular Dynamics Simulations Reveal that Tyr-317 Phosphorylation Reduces Shc Binding Affinity for Phosphotyrosyl Residues of Epidermal Growth Factor Receptor. Atsushi Suenaga, Mariko Hatakeyama, Anatoly B. Kiyatkin, Ravi Radhakrishnan, Makoto Taiji & Boris N. Kholodenko. Biophys J., 96(6):2278-2288, 2009. PMID:19289054

2008

  • Phosphoproteome and transcriptome analysis of ErbB ligand-stimulated MCF-7 cells. Takeshi Nagashima, Masaaki Oyama, Hiroko Kozuka-Hata, Noriko Yumoto, Yoshiyuki Sakaki & Mariko Hatakeyama. Cancer Genomics & Proteomics, 5(3-4):161-168, 2008. PMID: 18820370
  • Integrative Genome-wide Expression Analysis Bears Evidence of Estrogen Receptor-independent Transcription in Heregulin-stimulated MCF-7 Breast Cancer Cells. Takeshi Nagashima, Takahiro Suzuki, Shinji Kondo, Yoko Kuroki, Kaoru Takahashi, Kaori Ide, Aki Hasegawa, Tetsuro Toyoda, Toshio Kojima, Akihiko Konagaya, Harukazu Suzuki,Yoshihide Hayashizaki,Yoshiyuki Sakaki & Mariko Hatakeyama. PLoS ONE, 3(3):e1083, 2008. PMID: 18350142
  • Topological Analysis of MAPK Cascade for Kinetic ErbB Signaling. Takashi Nakakuki, Noriko Yumoto, Takashi Naka, Mikako Shirouzu, Shigeyuki Yokoyama & Mariko Hatakeyama. PLoS ONE, 3(3):e1782, 2008. PMID: 18335053
  • Function Approximation Approach to the Inference of Reduced NGnet Models of Genetic Networks. Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Hideki Maeda, Koki Matsumura & Mariko Hatakeyama. BMC Bioinformatics, 9(1):23, 2008. PMID: 18194576

2007

  • Ligand-Dependent Responses of the ErbB Signaling Network: Experimental and Modeling Analysis. Marc R. Birtwistle, Mariko Hatakeyama, Noriko Yumoto, Babatunde A. Ogunnaike, Jan B. Hoek & Boris N. Kholodenko. Mol. Syst. Biol., 3:144, 2007. PMID: 18004277
  • Function approximation approach to the inference of neural network models of genetic networks. Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Koki Matsumura & Mariko Hatakeyama. Transactions on Bioinformatics, 48:9-19, 2007. PDF
  • Quantitative transcriptional control of ErbB receptor signaling undergoes graded to biphasic response for cell differentiation. Takeshi Nagashima, Hidetoshi Shimodaira, Kaori Ide, Takashi Nakakuki, Yukitaka Tani, Kaoru Takahashi, Noriko Yumoto & Mariko Hatakeyama. J. Biol. Chem., 282(6):4045-4056, 2007. PMID: 17142811

2006

  • Expression of ErbB4 receptor causes reversal regulation of PP2A in the Shc signal transduction pathway. Noriko Yumoto, Xiaomei Yu & Mariko Hatakeyama. Mol. Cell. Biochem., 285(1-2):165-171, 2006. PMID: 16477370
  • Compensation effect of MAPK cascade on formation of Phospho-protein gradients. Takashi Naka, Mariko Hatakeyama, Naoto Sakamoto & Akihiko Konagaya. BioSystems, 83(2-3):167-177, 2006. PMID:16236425

2005

  • Novel mechanism of interaction of p85 subunit of phosphatidylinositol 3-kinase and ErbB3 receptor-derived phosphotyrosyl peptides. Atsushi Suenaga, Naoki Takada, Mariko Hatakeyama, Mio Ichikawa, Xiaomei Yu, Kentaro Tomii, Noriaki Okimoto, Noriyuki Futatsugi, Tetsu Narumi, Mikako Shirouzu, Shigeyuki Yokoyama, Akihiko Konagaya & Makoto Taiji. J. Biol. Chem. 280(2):1321-1326, 2005. PMID: 15520002
  • Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm. Shuhei Kimura, Kaori Ide, Aiko Kashihara, Makoto Kano, Mariko Hatakeyama, Ryoji Masui, Noriko Nakagawa, Shigeyuki Yokoyama, Seiki Kuramitsu & Akihiko Konagaya. Bioinformatics, 21(7):1154-1163, 2005. PMID: 15514004

2004

  • Inference of S-system Models of Genetic Networks from Noisy Time-series Data. S.Kimura, M.Hatakeyama & A.Konagaya. Chem-Bio Informatics J., 4:1-14, 2004.
  • Transformation potency of ErbB heterodimer signaling is determined by B-Raf kinase. Mariko Hatakeyama, Noriko Yumoto, Xiaomei Yu, Mikako Shirouzu, Shigeyuki Yokoyama & Akihiko Konagaya. Oncogene, 23(29):5023-5031, 2004. PMID: 15064721
  • OBIYagns : A grid-based biochemical simulator with parameter estimator. Shuhei Kimura, Takuji Kawasaki, Mariko Hatakeyama, Takashi Naka, Fumikazu Konishi & Akihiko Konagaya. Bioinformatics, 20(10):1646-1648, 2004. PMID: 14962919
  • Tyr-317 phosphorylation increases Shc structural rigidity and reduces coupling of domain motions remote from the phosphorylation site as revealed by molecular dynamics simulations. Atsushi Suenaga, Anatoly B. Kiyatkin, Mariko Hatakeyama, Noriyuki Futatsugi, Noriaki Okimoto, Yoshinori Hirano, Tetsu Narumi, Atsushi Kawai, Ryutaro Susukita, Takahiro Koishi, Hideaki Furusawa, Kenji Yasuoka, Naoki Takada, Yousuke Ohno, Makoto Taiji, Toshikazu Ebisuzaki, Jan B. Hoek, Akihiko Konagaya & Boris N. Kholodenko. J. Biol. Chem. 279(6):4657-4662, 2004. PMID: 14613932
  • The superstructure towards Open Bioinformatics Grid. Akihiko Konagaya, Fumikazu Konishi, Mariko Hatakeyama & Kenji Satou. New Generation Computing, Computing Paradigms and Computational Intelligence 22(2):167-176, 2004. Link

2003

  • A computational model on the modulation of MAPK and Akt pathways in heregulin induced ErbB signaling. Mariko Hatakeyama, Shuhei Kimura, Takashi Naka, Takuji Kawasaki, Noriko Yumoto, Mio Ichikawa, Jae-Hoon Kim, Kazuki Saito, Mihoro Saeki, Mikako Shirouzu, Shigeyuki Yokoyama & Akihiko Konagaya. Biochem J., 373(Pt 2):451-463, 2003. PMID: 12691603
  • Molecular dynamics, fee Energy and SPR analyses of the interactions between SH2 domain of growth factor receptor binding protein 2 and ErbB phosphotyrosyl peptides. Atsushi Suenaga, Mariko Hatakeyama, Mio Ichikawa, Xiaomei Yu, Noriyuki Futatsugi, Tetsu Narumi, Kazuhiko Fukui, Takaho Terada, Makoto Taiji, Mikako Shirouzu, Shigeyuki Yokoyama & Akihiko Konagaya. Biochemistry, 42(18):5195-5200, 2003. PMID: 12731860