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Haruki Nakamura: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Haruki Nakamura
    Protein informatics towards integration of data grid and computing grid. [Citation Graph (0, 0)][DBLP]
    APBC, 2005, pp:359-362 [Conf]
  2. David Abramson, Amanda Lynch, Hiroshi Takemiya, Yusuke Tanimura, Susumu Date, Haruki Nakamura, Karpjoo Jeong, Suntae Hwang, Ji Zhu, Zhonghua Lu, Céline Amoreira, Kim Baldridge, Hurng-Chun Lee, Chi-Wei Wang, Horng-Liang Shih, Tomas E. Molina, Wilfred W. Li, Peter W. Arzberger
    Deploying Scientific Applications to the PRAGMA Grid Testbed: Strategies and Lessons. [Citation Graph (0, 0)][DBLP]
    CCGRID, 2006, pp:241-248 [Conf]
  3. Yoshikazu Kaneta, Norimasa Shoji, Takenao Ohkawa, Haruki Nakamura
    A Method of Comparing Protein Molecular Surface Based on Normal Vectors with Attributes and Its Application to Function Identification. [Citation Graph (0, 0)][DBLP]
    JCIS, 2002, pp:1213-1218 [Conf]
  4. Tadasuke Nakagawa, Takanori Tanaka, Takenao Ohkawa, Haruki Nakamura
    A Filtering Method for High-Speed Retrieval of Similar Active Sites. [Citation Graph (0, 0)][DBLP]
    JCIS, 2002, pp:1207-1212 [Conf]
  5. Youhei Kawaguchi, Yoshikazu Kaneta, Takenao Ohkawa, Haruki Nakamura
    Information Extraction from Semi-Structured Data in the Protein Data Bank by Induction of a Data Description Pattern. [Citation Graph (0, 0)][DBLP]
    METMBS, 2003, pp:94-99 [Conf]
  6. Kengo Kinoshita, Haruki Nakamura
    eF-site and PDBjViewer: database and viewer for protein functional sites. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:8, pp:1329-1330 [Journal]
  7. Yuko Tsuchiya, Kengo Kinoshita, Haruki Nakamura
    PreDs: a server for predicting dsDNA-binding site on protein molecular surfaces. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:8, pp:1721-1723 [Journal]
  8. John D. Westbrook, Nobutoshi Ito, Haruki Nakamura, Kim Henrick, Helen M. Berman
    PDBML: the representation of archival macromolecular structure data in XML. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:7, pp:988-992 [Journal]
  9. Ashwini Patil, Haruki Nakamura
    Filtering high-throughput protein-protein interaction data using a combination of genomic features. [Citation Graph (0, 0)][DBLP]
    BMC Bioinformatics, 2005, v:6, n:, pp:100- [Journal]
  10. Daron M. Standley, Hiroyuki Toh, Haruki Nakamura
    GASH: An improved algorithm for maximizing the number of equivalent residues between two protein structures. [Citation Graph (0, 0)][DBLP]
    BMC Bioinformatics, 2005, v:6, n:, pp:221- [Journal]
  11. Kenji Morikami, Takahisa Nakai, Akinori Kidera, Minoru Saito, Haruki Nakamura
    Presto(protein Engineering Simulator): A Vectorized Molecular Mechanics Program for Biopolymers. [Citation Graph (0, 0)][DBLP]
    Computers & Chemistry, 1992, v:16, n:3, pp:243-248 [Journal]
  12. Yoshikazu Kaneta, Norimasa Shoji, Takenao Ohkawa, Haruki Nakamura
    A method of comparing protein molecular surface based on normal vectors with attributes and its application to function identification. [Citation Graph (0, 0)][DBLP]
    Inf. Sci., 2002, v:146, n:1-4, pp:41-54 [Journal]
  13. Tadasuke Nakagawa, Takanori Tanaka, Takenao Ohkawa, Haruki Nakamura
    A filtering method for high-speed retrieval of similar active sites. [Citation Graph (0, 0)][DBLP]
    Inf. Sci., 2002, v:146, n:1-4, pp:55-65 [Journal]
  14. Junichi Higo, Yasunobu Sugimoto, Katsuzo Wakabayashi, Haruki Nakamura
    Collective motions of myosin head derived from backbone molecular dynamics and combination with X-ray solution scattering data. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Chemistry, 2001, v:22, n:16, pp:1983-1994 [Journal]
  15. Kazuyoshi Ikeda, Oxana V. Galzitskaya, Haruki Nakamura, Junichi Higo
    beta-Hairpins, alpha-helices, and the intermediates among the secondary structures in the energy landscape of a peptide from a distal beta-hairpin of SH3 domain. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Chemistry, 2003, v:24, n:3, pp:310-318 [Journal]
  16. Satoshi Ono, Masataka Kuroda, Junichi Higo, Nobuyuki Nakajima, Haruki Nakamura
    Calibration of force-field dependency in free energy landscapes of peptide conformations by quantum chemical calculations. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Chemistry, 2002, v:23, n:4, pp:470-476 [Journal]
  17. Satoshi Ono, Nobuyuki Nakajima, Junichi Higo, Haruki Nakamura
    Peptide free-energy profile is strongly dependent on the force field: Comparison of C96 and AMBER95. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Chemistry, 2000, v:21, n:9, pp:748-762 [Journal]
  18. Yuko Tsuchiya, Kengo Kinoshita, Nobutoshi Ito, Haruki Nakamura
    PreBI: prediction of biological interfaces of proteins in crystals. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2006, v:34, n:Web-Server-Issue, pp:20-24 [Journal]
  19. Helen M. Berman, Kim Henrick, Haruki Nakamura, John L. Markley
    The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2007, v:35, n:Database-Issue, pp:301-303 [Journal]
  20. Haruki Nakamura, Susumu Date, Hideo Matsuda, Shinji Shimojo
    A Challenge towards Next-Generation Research Infrastructure for Advanced Life Science. [Citation Graph (0, 0)][DBLP]
    New Generation Comput., 2004, v:22, n:2, pp:- [Journal]
  21. Susumu Date, Takahito Tashiro, Kazunori Nozaki, Haruki Nakamura, Saburo Sakoda, Shinji Shimojo
    A Grid-Ready Clinical Database for Parkinson's Disease Research and Diagnosis. [Citation Graph (0, 0)][DBLP]
    CBMS, 2007, pp:483-488 [Conf]

  22. Protein structure databases with new web services for structural biology and biomedical research. [Citation Graph (, )][DBLP]


  23. Protein function annotation from sequence: prediction of residues interacting with RNA. [Citation Graph (, )][DBLP]


  24. SeSAW: balancing sequence and structural information in protein functional mapping. [Citation Graph (, )][DBLP]


  25. ASH structure alignment package: Sensitivity and selectivity in domain classification. [Citation Graph (, )][DBLP]


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