Improve Research Reproducibility A Bio-protocol resource
CN


Hodaka Fujii
  • Biochemistry and Genome Biology, Hirosaki University Graduate School of Medicine, Japan
Research fields
  • Molecular biology
Personal information

Education

Ph.D. in Pathology, Graduate School of Medicine, University of Tokyo, 1998

Current position

Professor, Department of Biochemistry and Genome Biology, Hirosaki University Graduate School of Medicine, Japan

Publications

Original reports

  1. Fujita, T., Kitaura, F., Yuno, M., Suzuki, Y., Sugano, S. and Fujii, H. (2017). Locus-specific ChIP combined with NGS analysis reveals genomic regulatory regions that physically interact with the Pax5 promoter in a chicken B cell line. DNA Res 24(5): 537-548.
  2. Fujita, T., Yuno, M., Suzuki, Y., Sugano, S. and Fujii, H. (2017). Identification of physical interactions between genomic regions by enChIP-Seq. Genes Cells 22(6): 506-520.
  3. Fujita, T., Yuno, M. and Fujii, H. (2016). Allele-specific locus binding and genome editing by CRISPR at the p16INK4a locus. Sci Rep 6: 30485.
  4. Fujita, T., Yuno, M. and Fujii, H. (2016). Efficient sequence-specific isolation of DNA fragments and chromatin by in vitro enChIP technology using recombinant CRISPR ribonucleoproteins. Genes Cells 21(4): 370-377.
  5. Fujita, T., Yuno, M., Okuzaki, D., Ohki, R. and Fujii, H. (2015). Identification of non-coding RNAs associated with telomeres using a combination of enChIP and RNA sequencing. PLoS One 10(4): e0123387.
  6. Fujita, T., Kitaura, F. and Fujii, H. (2015). A critical role of the Thy28-MYH9 axis in B cell-specific expression of the Pax5 gene in chicken B cells. PLoS One 10(1): e0116579.
  7. Fujita, T. and Fujii, H. (2014). Efficient isolation of specific genomic regions retaining molecular interactions by the iChIP system using recombinant exogenous DNA-binding proteins. BMC Mol Biol 15: 26.
  8. Tanigawa, N., Fujita, T. and Fujii, H. (2014). Oligoribonucleotide (ORN) interference-PCR (ORNi-PCR): a simple method for suppressing PCR amplification of specific DNA sequences using ORNs. PLoS One 9(11): e113345.
  9. Fujita, T. and Fujii, H. (2014). Identification of proteins associated with an IFNgamma-responsive promoter by a retroviral expression system for enChIP using CRISPR. PLoS One 9(7): e103084.
  10. Fujita, T., Asano, Y., Ohtsuka, J., Takada, Y., Saito, K., Ohki, R. and Fujii, H. (2013). Identification of telomere-associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP). Sci Rep 3: 3171.
  11. Fujita, T. and Fujii, H. (2013). Efficient isolation of specific genomic regions and identification of associated proteins by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP) using CRISPR. Biochem Biophys Res Commun 439(1): 132-136.
  12. Edwards, J. P., Fujii, H., Zhou, A. X., Creemers, J., Unutmaz, D. and Shevach, E. M. (2013). Regulation of the expression of GARP/latent TGF-beta1 complexes on mouse T cells and their role in regulatory T cell and Th17 differentiation. J Immunol 190(11): 5506-5515.
  13. Zhou, A. X., Kozhaya, L., Fujii, H. and Unutmaz, D. (2013). GARP-TGF-beta complexes negatively regulate regulatory T cell development and maintenance of peripheral CD4+ T cells in vivo. J Immunol 190(10): 5057-5064.
  14. Okamoto, A., Torigata, K., Sakurai, M. A., Okuzaki, D., Fujii, H., Ohmine, T., Miura, D., Kimura, S., Yabuta, N. and Nojima, H. (2012). A simple and efficient method for the preparation of live leukocytes from peripheral blood using the LeukoCatch system. Advances in Bioscience & Biotechnology 3(5).
  15. Hutchins, A. P., Poulain, S., Fujii, H. and Miranda-Saavedra, D. (2012). Discovery and characterization of new transcripts from RNA-seq data in mouse CD4(+) T cells. Genomics 100(5): 303-313.
  16. Fujita, T. and Fujii, H. (2012). Efficient isolation of specific genomic regions by insertional chromatin immunoprecipitation (iChIP) with a second-generation tagged LexA DNA-binding domain. Advances in Bioscience & Biotechnology 3(5).
  17. Fujita, T. and Fujii, H. (2012). Transcription start sites and usage of the first exon of mouse Foxp3 gene. Mol Biol Rep 39(10): 9613-9619.
  18. Juliana, F. M., Nara, H., Onoda, T., Rahman, M., Araki, A., Jin, L., Fujii, H., Tanaka, N., Hoshino, T. and Asao, H. (2012). Apurinic/apyrimidinic endonuclease1/redox factor-1 (Ape1/Ref-1) is essential for IL-21-induced signal transduction through ERK1/2 pathway. Biochem Biophys Res Commun 420(3): 628-634.
  19. Fujita, T. and Fujii, H. (2011). Direct identification of insulator components by insertional chromatin immunoprecipitation. PLoS One 6(10): e26109.
  20. Fujita, T. and Fujii, H. (2011). Species-specific 5'-genomic structure and multiple transcription start sites in the chicken Pax5 gene. Gene 477(1-2): 24-31.
  21. Saint Fleur, S., Hoshino, A., Kondo, K., Egawa, T. and Fujii, H. (2009). Regulation of Fas-mediated immune homeostasis by an activation-induced protein, Cyclon. Blood 114(7): 1355-1365.
  22. Wang, R., Kozhaya, L., Mercer, F., Khaitan, A., Fujii, H. and Unutmaz, D. (2009). Expression of GARP selectively identifies activated human FOXP3+ regulatory T cells. Proc Natl Acad Sci U S A 106(32): 13439-13444.
  23. Hoshino, A. and Fujii, H. (2009). Insertional chromatin immunoprecipitation: a method for isolating specific genomic regions. J Biosci Bioeng 108(5): 446-449.
  24. Fujii, H. (2009). Novel reporter cell line to analyze cytokine-mediated expression regulation of c-myc gene. J Biosci Bioeng 108(5): 438-440.
  25. Fujii, H. and Hoshino, A. (2009). Lack of nuclear translocation of cytoplasmic domains of IL-2/IL-15 receptor subunits. Cytokine 46(3): 302-308.
  26. Wang, R., Wan, Q., Kozhaya, L., Fujii, H. and Unutmaz, D. (2008). Identification of a regulatory T cell specific cell surface molecule that mediates suppressive signals and induces Foxp3 expression. PLoS One 3(7): e2705.
  27. Fujii, H. (2008). Receptor expression is essential for proliferation induced by dimerized Jak kinases. Biochem Biophys Res Commun 370(4): 557-560.
  28. Singh, A. P., Buscaglia, C. A., Wang, Q., Levay, A., Nussenzweig, D. R., Walker, J. R., Winzeler, E. A., Fujii, H., Fontoura, B. M. and Nussenzweig, V. (2007). Plasmodium circumsporozoite protein promotes the development of the liver stages of the parasite. Cell 131(3): 492-504.
  29. Hoshino, A. and Fujii, H. (2007). Temporal regulation of Stat5 activity in determination of cell differentiation program. Biochem Biophys Res Commun 358(3): 914-919.
  30. Hoshino, A., Hirst, J. A. and Fujii, H. (2007). Regulation of cell proliferation by interleukin-3-induced nuclear translocation of pyruvate kinase. J Biol Chem 282(24): 17706-17711.
  31. Hoshino, A. and Fujii, H. (2007). Nuclear translocation of 2-amino-3-ketobutyrate coenzyme A ligase by cold and osmotic stress. Cell Stress Chaperones 12(2): 186-191.
  32. Hoshino, A. and Fujii, H. (2007). Redundant promoter elements mediate IL-3-induced expression of a novel cytokine-inducible gene, cyclon. FEBS Lett 581(5): 975-980.
  33. Fujii, H. (2007). Cell type-specific roles of Jak3 in IL-2-induced proliferative signal transduction. Biochem Biophys Res Commun 354(3): 825-829.
  34. Hoshino, A., Saint Fleur, S. and Fujii, H. (2006). Regulation of Stat1 protein expression by phenylalanine 172 in the coiled-coil domain. Biochem Biophys Res Commun 346(3): 1062-1066.
  35. Hoshino, A., Matsumura, S., Kondo, K., Hirst, J. A. and Fujii, H. (2004). Inducible translocation trap: a system for detecting inducible nuclear translocation. Mol Cell 15(1): 153-159.
  36. Tucker, S. N., Jessup, H. K., Fujii, H. and Wilson, C. B. (2002). Enforced expression of the Ikaros isoform IK5 decreases the numbers of extrathymic intraepithelial lymphocytes and natural killer 1.1+ T cells. Blood 99(2): 513-519.
  37. Gilmour, K. C., Fujii, H., Cranston, T., Davies, E. G., Kinnon, C. and Gaspar, H. B. (2001). Defective expression of the interleukin-2/interleukin-15 receptor beta subunit leads to a natural killer cell-deficient form of severe combined immunodeficiency. Blood 98(3): 877-879.
  38. Tsujino, S., Di Santo, J. P., Takaoka, A., McKernan, T. L., Noguchi, S., Taya, C., Yonekawa, H., Saito, T., Taniguchi, T. and Fujii, H. (2000). Differential requirement of the cytoplasmic subregions of gamma c chain in T cell development and function. Proc Natl Acad Sci U S A 97(19): 10514-10519.
  39. Tsujino, S., Miyazaki, T., Kawahara, A., Maeda, M., Taniguchi, T. and Fujii, H. (1999). Critical role of the membrane-proximal, proline-rich motif of the interleukin-2 receptor gammac chain in the Jak3-independent signal transduction. Genes Cells 4(6): 363-373.
  40. Takaoka, A., Tanaka, N., Mitani, Y., Miyazaki, T., Fujii, H., Sato, M., Kovarik, P., Decker, T., Schlessinger, J. and Taniguchi, T. (1999). Protein tyrosine kinase Pyk2 mediates the Jak-dependent activation of MAPK and Stat1 in IFN-gamma, but not IFN-alpha, signaling. EMBO J 18(9): 2480-2488.
  41. Fujii, H., Ogasawara, K., Otsuka, H., Suzuki, M., Yamamura, K., Yokochi, T., Miyazaki, T., Suzuki, H., Mak, T. W., Taki, S. and Taniguchi, T. (1998). Functional dissection of the cytoplasmic subregions of the IL-2 receptor betac chain in primary lymphocyte populations. EMBO J 17(22): 6551-6557.
  42. Miyazaki, T., Takaoka, A., Nogueira, L., Dikic, I., Fujii, H., Tsujino, S., Mitani, Y., Maeda, M., Schlessinger, J. and Taniguchi, T. (1998). Pyk2 is a downstream mediator of the IL-2 receptor-coupled Jak signaling pathway. Genes Dev 12(6): 770-775.
  43. Fujii, H., Nakagawa, Y., Schindler, U., Kawahara, A., Mori, H., Gouilleux, F., Groner, B., Ihle, J. N., Minami, Y., Miyazaki, T. and et al. (1995). Activation of Stat5 by interleukin 2 requires a carboxyl-terminal region of the interleukin 2 receptor beta chain but is not essential for the proliferative signal transmission. Proc Natl Acad Sci U S A 92(12): 5482-5486.
  44. Miyazaki, T., Kawahara, A., Fujii, H., Nakagawa, Y., Minami, Y., Liu, Z. J., Oishi, I., Silvennoinen, O., Witthuhn, B. A., Ihle, J. N. and et al. (1994). Functional activation of Jak1 and Jak3 by selective association with IL-2 receptor subunits. Science 266(5187): 1045-1047.
  45. Tsutsumi, A., Kubo, M., Fujii, H., Freire-Moar, J., Turck, C. W. and Ransom, J. T. (1993). Regulation of protein kinase C isoform proteins in phorbol ester-stimulated Jurkat T lymphoma cells. J Immunol 150(5): 1746-1754.

Reviews

  1. Fujita, T. and Fujii, H. (2016). Biochemical Analysis of Genome Functions Using Locus-Specific Chromatin Immunoprecipitation Technologies. Gene Regul Syst Bio 10(Suppl 1): 1-9.
  2. Fujita, T. and Fujii, H. (2016). Isolation of Specific Genomic Regions and Identification of Associated Molecules by enChIP. J Vis Exp(107): e53478.
  3. Fujii, H. and Fujita, T. (2015). Isolation of Specific Genomic Regions and Identification of Their Associated Molecules by Engineered DNA-Binding Molecule-Mediated Chromatin Immunoprecipitation (enChIP) Using the CRISPR System and TAL Proteins. Int J Mol Sci 16(9): 21802-21812.
  4. Fujita, T. and Fujii, H. (2015). Applications of Engineered DNA-Binding Molecules Such as TAL Proteins and the CRISPR/Cas System in Biology Research. Int J Mol Sci 16(10): 23143-23164.
  5. Fujita, T. and Fujii, H. (2013). Locus-specific biochemical epigenetics/chromatin biochemistry by insertional chromatin immunoprecipitation. ISRN Biochemistry 2013.
  6. Saint Fleur, S. and Fujii, H. (2008). Cytokine-induced nuclear translocation of signaling proteins and their analysis using the inducible translocation trap system. Cytokine 41(3): 187-197.
  7. Fujii, H. (2007). Mechanisms of Signal Transduction from Receptors of Type I and Type II Cytokines. J Immunotoxicol 4(1): 69-76.
  8. Taniguchi, T., Tanaka, N., Miyazaki, T., Fujii, H., Ishihara, M., Lamphier, M. S., Nozawa, H., Asano, Y. and Taki, S. (1996). Cytokine signaling and target genes. Mol. Biol. Cell 7, 955-955.
  9. Taniguchi, T., Miyazaki, T., Minami, Y., Kawahara, A., Fujii, H., Nakagawa, Y., Hatakeyama, M. and Liu, Z. J. (1995). IL-2 signaling involves recruitment and activation of multiple protein tyrosine kinases by the IL-2 receptor. Ann N Y Acad Sci 766: 235-244.

Books

  1. Fujita, T. and Fujii, H. (2017). New directions for epigenetics: application of engineered DNA-binding molecules to locus-specific epigenetic research. In: Tollefsbol, T. O. (Ed). Handbook of Epigenetics, Second Edition, Academic Press (Elsevier): 635-652.
  2. Fujita, T. and Fujii, H. (2015). Isolation of specific genomic regions and identification of associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP) using CRISPR. Methods Mol Biol 1288: 43-52.
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