Hiroshi Yanagawa

Summary

Affiliation: Keio University
Country: Japan

Publications

  1. pmc Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Proc Natl Acad Sci U S A 106:10171-6. 2009
  2. pmc MIP-2A is a novel target of an anilinoquinazoline derivative for inhibition of tumour cell proliferation
    Mayuko Tokunaga
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 8:e76774. 2013
  3. ncbi High-throughput fluorescence labelling of full-length cDNA products based on a reconstituted translation system
    Yuko Kawahashi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    J Biochem 141:19-24. 2007
  4. ncbi Hereditary spastic paraplegia protein spartin is an FK506-binding protein identified by mRNA display
    Mayuko Tokunaga
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Chem Biol 20:935-42. 2013
  5. doi mRNA display selection of a high-affinity, Bcl-X(L)-specific binding peptide
    Nobutaka Matsumura
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    FASEB J 24:2201-10. 2010
  6. pmc DNA display selection of peptide ligands for a full-length human G protein-coupled receptor on CHO-K1 cells
    Nobuhide Doi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 7:e30084. 2012
  7. pmc Rapid antibody selection by mRNA display on a microfluidic chip
    Noriko Tabata
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Nucleic Acids Res 37:e64. 2009
  8. pmc An anilinoquinazoline derivative inhibits tumor growth through interaction with hCAP-G2, a subunit of condensin II
    Hirokazu Shiheido
    Department of Biosciences and Informatics, Keio University, Kohoku Ku, Yokohama, Japan
    PLoS ONE 7:e44889. 2012
  9. pmc Protein complex prediction via verifying and reconstructing the topology of domain-domain interactions
    Yosuke Ozawa
    Institute for Advanced Biosciences, Keio University, 403 1, Daihoji, Tsuruoka, Yamagata 997 0017, Japan
    BMC Bioinformatics 11:350. 2010
  10. ncbi Photocleavable linkage between genotype and phenotype for rapid and efficient recovery of nucleic acids encoding affinity-selected proteins
    Nobuhide Doi
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    J Biotechnol 131:231-9. 2007

Collaborators

Detail Information

Publications39

  1. pmc Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Proc Natl Acad Sci U S A 106:10171-6. 2009
    ..The application of this strategy to other functional linear motifs should be useful in systematic studies of protein-protein networks...
  2. pmc MIP-2A is a novel target of an anilinoquinazoline derivative for inhibition of tumour cell proliferation
    Mayuko Tokunaga
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 8:e76774. 2013
    ..This study suggests that the simultaneous targeting of hCAP-G2 and MIP-2A is a promising strategy for the development of antitumor drugs as a treatment for intractable tumours. ..
  3. ncbi High-throughput fluorescence labelling of full-length cDNA products based on a reconstituted translation system
    Yuko Kawahashi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    J Biochem 141:19-24. 2007
    ..These methods yielded large numbers of labelled proteins from cDNA sets of various organisms, such as mouse, yeast and Escherichia coli...
  4. ncbi Hereditary spastic paraplegia protein spartin is an FK506-binding protein identified by mRNA display
    Mayuko Tokunaga
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Chem Biol 20:935-42. 2013
    ..These results strongly suggest that FK506 suppresses the proteasomal degradation of ADRP, a substrate of AIP4, by inhibiting the spartin-TIP47 interaction and thereby blocking the localization of spartin and AIP4 in lipid droplets. ..
  5. doi mRNA display selection of a high-affinity, Bcl-X(L)-specific binding peptide
    Nobutaka Matsumura
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    FASEB J 24:2201-10. 2010
    ..We suggest that mRNA display is a powerful technique to identify peptide inhibitors with high affinity and specificity for disease-related proteins...
  6. pmc DNA display selection of peptide ligands for a full-length human G protein-coupled receptor on CHO-K1 cells
    Nobuhide Doi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 7:e30084. 2012
    ....
  7. pmc Rapid antibody selection by mRNA display on a microfluidic chip
    Noriko Tabata
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Nucleic Acids Res 37:e64. 2009
    ..This method will facilitate high-throughput preparation of antibodies and identification of protein interactions in proteomic and therapeutic fields...
  8. pmc An anilinoquinazoline derivative inhibits tumor growth through interaction with hCAP-G2, a subunit of condensin II
    Hirokazu Shiheido
    Department of Biosciences and Informatics, Keio University, Kohoku Ku, Yokohama, Japan
    PLoS ONE 7:e44889. 2012
    ..Thus, our results indicate that hCAP-G2 is a novel therapeutic target for development of drugs active against currently intractable neoplasms...
  9. pmc Protein complex prediction via verifying and reconstructing the topology of domain-domain interactions
    Yosuke Ozawa
    Institute for Advanced Biosciences, Keio University, 403 1, Daihoji, Tsuruoka, Yamagata 997 0017, Japan
    BMC Bioinformatics 11:350. 2010
    ..In addition, there have been few searches for deeper insights into the protein complexes, such as of the topology of the protein-protein interactions or into the domain-domain interactions that mediate the protein interactions...
  10. ncbi Photocleavable linkage between genotype and phenotype for rapid and efficient recovery of nucleic acids encoding affinity-selected proteins
    Nobuhide Doi
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    J Biotechnol 131:231-9. 2007
    ..g., for screening high-affinity binders, such as enzyme inhibitors and recombinant antibodies from random peptide and antibody libraries, as well as for screening drug-protein interactions from cDNA libraries...
  11. doi Six classes of nuclear localization signals specific to different binding grooves of importin alpha
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka 997 0017, Japan
    J Biol Chem 284:478-85. 2009
    ..These results explain the causes of the NLS diversity. The defined consensus patterns and properties of importin alpha-dependent NLSs provide useful information for identifying NLSs...
  12. pmc In vitro evolution of single-chain antibodies using mRNA display
    Isao Fukuda
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Nucleic Acids Res 34:e127. 2006
    ..Thus, mRNA display is expected to be useful for rapid artificial evolution of high-affinity diagnostic and therapeutic antibodies by optimizing their CDRs...
  13. pmc Use of cDNA tiling arrays for identifying protein interactions selected by in vitro display technologies
    Kenichi Horisawa
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, Yokohama, Japan
    PLoS ONE 3:e1646. 2008
    ..This highly sensitive and reliable method should be useful for high-throughput protein interaction analysis on a genome-wide scale...
  14. pmc Protein-protein interaction analysis by C-terminally specific fluorescence labeling and fluorescence cross-correlation spectroscopy
    Rieko Oyama
    Department of Biosciences and Informatics, Keio University, Yokohama 223 8522, Japan
    Nucleic Acids Res 34:e102. 2006
    ....
  15. ncbi Escherichia coli proteome chips for detecting protein-protein interactions
    Yo Oishi
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    Proteomics 6:6433-6. 2006
  16. pmc mRNA display selection of an optimized MDM2-binding peptide that potently inhibits MDM2-p53 interaction
    Hirokazu Shiheido
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 6:e17898. 2011
    ..These results show that two-stage, mRNA-displayed peptide selection is useful for the rapid identification of potent peptides that target oncoproteins...
  17. ncbi Application of mRNA display for in vitro selection of DNA-binding transcription factor complexes
    Seiji Tateyama
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    Methods Mol Biol 977:95-109. 2013
    ..Since almost all transcription factors form heterooligomeric complexes to bind with their target DNA, this method should be broadly useful to identify DNA-binding transcription factor complexes...
  18. doi In vitro selection of GTP-binding proteins by block shuffling of estrogen-receptor fragments
    Toru Tsuji
    Department of Biosciences and Informatics, Keio University, Yokohama 223 8522, Japan
    Biochem Biophys Res Commun 390:689-93. 2009
    ..The results of our in vitro simulation imply that alternative splicing may have contributed substantially to the diversification of protein function during evolution...
  19. doi Nuclear export signal consensus sequences defined using a localization-based yeast selection system
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka 997 0017, Japan
    Traffic 9:2053-62. 2008
    ..These NES consensus sequences should help identify functional NESs, and our selection system can be used to identify other targeting signals or proteins imported to specific subcellular compartments...
  20. ncbi Toward functional analysis of protein interactome using "in vitro virus": in silico analyses of Fos/Jun interactors
    Etsuko Miyamoto-Sato
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, Yokohama, 223 8522, Japan
    J Drug Target 14:505-11. 2006
    ..Further study of these novel interactors may provide clues to new pathways or mechanisms of biological functions and diseases...
  21. ncbi Towards the creation of novel proteins by block shuffling
    Toru Tsuji
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Comb Chem High Throughput Screen 9:259-69. 2006
    ..In this review article, we summarize our strategy to create novel proteins by block shuffling and review key literature in the field. Possible applications of the block shuffling strategy are also discussed...
  22. doi Design of peptide inhibitors for the importin alpha/beta nuclear import pathway by activity-based profiling
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Chem Biol 15:940-9. 2008
    ..These peptide inhibitors provide a useful tool for studying nuclear import events. Moreover, our inhibitor design method should enable the development of potent inhibitors from a peptide seed...
  23. pmc Comparative characterization of random-sequence proteins consisting of 5, 12, and 20 kinds of amino acids
    Junko Tanaka
    Department of Biosciences and Informatics, Keio University, Yokohama 223 8522, Japan
    Protein Sci 19:786-95. 2010
    ..Thus, a library of moderate complexity constructed from 12 amino acids may be a more appropriate resource for functional screening than one constructed from 20 amino acids...
  24. pmc Affinity selection of DNA-binding protein complexes using mRNA display
    Seiji Tateyama
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, 3 14 1, Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Nucleic Acids Res 34:e27. 2006
    ..Since almost all transcription factors form heterooligomeric complexes to bind with their target DNA, this method should be most useful to search for DNA-binding transcription factor complexes...
  25. doi N- and C-terminal fragments of a globular protein constructed by elongation of modules as a units associated for functional complementation
    Toru Tsuji
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, Kohoku Ku, Yokohama, Japan
    J Biochem 144:513-21. 2008
    ..We propose that N- and C-terminal fragments obtained by successive elongation of modules would interact to be a complex with marginal stability and activity, which would be used for creating a mature complex by artificial evolution...
  26. pmc A comprehensive resource of interacting protein regions for refining human transcription factor networks
    Etsuko Miyamoto-Sato
    Advanced Research Centers, Keio University, Yokohama, Japan
    PLoS ONE 5:e9289. 2010
    ..Accordingly, this domain-based interaction resource represents an important step in refining protein interactions and networks at the domain level and in associating network analysis with biological structure and function...
  27. doi Exploration of the origin and evolution of globular proteins by mRNA display
    Hiroshi Yanagawa
    Department of Biosciences and Informatics, Faculty of Sciences and Technology, Keio University, 3 14 1, Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Biochemistry 52:3841-51. 2013
    ....
  28. pmc A phthalimide derivative that inhibits centrosomal clustering is effective on multiple myeloma
    Hirokazu Shiheido
    Department of Biosciences and Informatics, Keio University, Hiyoshi, Kohoku Ku, Yokohama, Japan
    PLoS ONE 7:e38878. 2012
    ..NPM may become a novel target for development of antitumor drugs active against multiple myeloma...
  29. pmc Comparison of the frequency of functional SH3 domains with different limited sets of amino acids using mRNA display
    Junko Tanaka
    Department of Biosciences and Informatics, Keio University, Yokohama, Japan
    PLoS ONE 6:e18034. 2011
    ....
  30. ncbi [Toward creation of proteins by combination of block shuffling and in vitro selection methods]
    Toru Tsuji
    Graduate School of Science and Technology, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Seikagaku 77:1165-76. 2005
  31. doi Acrosome reaction-related steroidal saponin, Co-ARIS, from the starfish induces structural changes in microdomains
    Masahiro Naruse
    Department of Biosciences and Informatics, Keio University, Yokohama, Kanagawa, 223 8522, Japan
    Dev Biol 347:147-53. 2010
    ..Through this study, we revealed a capacitation-like event for AR in starfish sperm...
  32. pmc In vitro selection of fab fragments by mRNA display and gene-linking emulsion PCR
    Takeshi Sumida
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    J Nucleic Acids 2012:371379. 2012
    ..We further performed directed evolution of Fab fragments with higher binding activity from a randomized Fab fragment library...
  33. doi 3'-Untranslated region of doublecortin mRNA is a binding target of the Musashi1 RNA-binding protein
    Kenichi Horisawa
    Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    FEBS Lett 583:2429-34. 2009
    ..We confirmed that Msil repressed translation of a luciferase reporter gene linked to the selected 3'-untranslated region fragment of dcx in Neuro2A cells...
  34. pmc Metabolic engineering of carotenoid biosynthesis in Escherichia coli by ordered gene assembly in Bacillus subtilis
    Tomoko Nishizaki
    Department of Biosciences and Informatics, Keio University, Kohoku Ku, Yokohama 223 8522, Japan
    Appl Environ Microbiol 73:1355-61. 2007
    ..coli, and this may influence the yield of zeaxanthin. Our results suggest that rearrangement of biosynthetic genes in the order of the metabolic pathway by the OGAB method could be a useful approach for metabolic engineering...
  35. doi Electrochemical detection of tyrosine derivatives and protein tyrosine kinase activity using boron-doped diamond electrodes
    Masanobu Chiku
    Department of Chemistry, Faculty of Science and Technology, Keio University, Yokohama 223 8522, Japan
    Biosens Bioelectron 26:235-40. 2010
    ..Our results indicate that the electrochemical method can be applied to real samples such as cell lysate...
  36. pmc Bicistronic DNA display for in vitro selection of Fab fragments
    Takeshi Sumida
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Nucleic Acids Res 37:e147. 2009
    ..Since this method has all advantages of both phage display and totally in vitro display, it represents a new option for many applications using display methods...
  37. doi Modulation of glucose metabolism by CD44 contributes to antioxidant status and drug resistance in cancer cells
    Mayumi Tamada
    Division of Gene Regulation, Institute for Advanced Medical Research, School of Medicine, Keio University, Shinjuku ku, Tokyo, Japan
    Cancer Res 72:1438-48. 2012
    ..Taken together, our findings suggest that metabolic modulation by CD44 is a potential therapeutic target for glycolytic cancer cells that manifest drug resistance...
  38. ncbi High solubility of random-sequence proteins consisting of five kinds of primitive amino acids
    Nobuhide Doi
    Department of Biosciences and Informatics, Keio University, 3 14 1 Hiyoshi, Kohoku Ku, Yokohama 223 8522, Japan
    Protein Eng Des Sel 18:279-84. 2005
    ..The results support the reduced-alphabet hypothesis of the primordial genetic code and should also be helpful in constructing optimized protein libraries for evolutionary protein engineering...
  39. ncbi Computational analysis suggests that alternative first exons are involved in tissue-specific transcription in rice (Oryza sativa)
    Noriyuki Kitagawa
    Institute for Advanced Biosciences, Keio University Tsuruoka, Yamagata, Japan
    Bioinformatics 21:1758-63. 2005
    ..Recent studies have revealed the existence of alternative first exons, but most have involved mammalian genes, and as yet the regulation of usage of alternative first exons has not been clarified, especially in plants...