Publications

Original papers


156. Y. Cong, H. Dong, X. Wei, L. Zhang, J. Bai, J. Wu, J.X. Huang, Z. Gao, H. Ueda and J. Dong "A novel murine antibody and an open sandwich immunoassay for the detection of clenbuterol" Ecotoxicol. Environ. Saf. 182, 109473 (2019).[DOI]

155. C.-I. Chung, Y. Sato, Y. Ohmuro-Matsuyama, S. Machida, H. Kurumizaka, H. Kimura and H. Ueda "Intrabody-based FRET probe to visualize endogenous histone acetylation" Sci. Rep. 9, 10188 (2019). [DOI]

154. J. Su, C. Beh, Y. Ohmuro-Matsuyama, T. Kitaguchi, S. Hoon and H. Ueda "Creation of stable and strictly regulated enzyme switch for signal-on immunodetection of various small antigens" J. Biosci. Bioeng. in press, (2019).[DOI]

153. R. Dale, Y. Ohmuro-Matsuyama, H. Ueda and N. Kato "Non-steady state analysis of enzyme kinetics in real time elucidates substrate association and dissociation rates: demonstration with analysis of firefly luciferase mutants" Biochemistry 58, 2695-2702 (2019). [DOI]

152. M. Mita, M. Ito, K. Harada, I. Sugawara, H. Ueda, T. Tsuboi and T. Kitaguchi "Green fluorescent protein-based glucose indicators report glucose dynamics in living cells" Anal. Chem. 91, 4821-4830 (2019). [DOI]

151. H.J. Jeong, J. Dong and H. Ueda "Single-step detection of influenza virus hemagglutinin using bacterially produced Quenchbodies" Sensors 19, 52 (2019). [DOI]

150. A. Sasao, M. Takaki, H.-J. Jeong, K. Yonemitsu, Y. Ohtsu, H. Tsutsumi, S. Furukawa, H. Morioka, H. Ueda and Y. Nishitani "Development of a fluvoxamine detection system using a Quenchbody, a novel fluorescent biosensor" Drug Test. Anal. 11, 601-609 (2019). [DOI]

149. Y. Ohmuro-Matsuyama, T. Yamashita, K. Gomi, H. Yamaji and H. Ueda "Evaluation of protein-ligand interactions using the luminescent interaction assay FlimPIA with streptavidin-biotin linkage" Anal. Biochem. 563 , 61-66 (2018). [DOI]

148. J. Dong, R. Fujita, T. Zako and H. Ueda "Construction of Quenchbodies to detect and image amyloid β oligomers" Anal. Biochem. 550, 61-67 (2018). [DOI]

147. S. Zhao, J. Dong, H.-J. Jeong, K. Okumura and H. Ueda "Rapid detection of the neonicotinoid insecticide imidacloprid using a quenchbody assay" Anal. Bioanal. Chem. in press, (2018). [DOI]

146. J. Su, D. Jinhua, T. Kitaguchi, Y. Ohmuro-Matsuyama and H. Ueda "Noncompetitive homogeneous immunodetection of small molecules based on beta-glucuronidase complementation" Analyst 143, 2096-2101 (2018).[DOI]

145. Y. Ohmuro-Matsuyama and H. Ueda "Homogeneous noncompetitive luminescent immunodetection of small molecules by ternary protein fragment complementation" Anal. Chem. in press (2018).[DOI] [PDF–ACS Articles on Request]

144. H.-J. Jeong, T. Kawamura, M. Iida, Y. Kawahigashi, M. Takigawa, Y. Ohmuro-Matsuyama, C.-I. Chung, J. Dong, M. Kondoh and H. Ueda "Development of a Quenchbody for the detection and imaging of the cancer-related tight-junction-associated membrane protein claudin" Anal. Chem. 89, 10783-10789 (2017). [DOI] [PDF–ACS Articles on Request]

143. M. Okochi, M. Muto, K. Yanai, M. Tanaka, T. Onodera, J. Wang, H. Ueda and K. Toko "Array-based rational design of short peptide probe derived from anti-TNT monoclonal antibody" ACS Comb. Sci. 19, 625-632 (2017).[DOI]

142. H.-J. Jeong, K. Matsumoto, S. Itayama, K. Kodama, R. Abe, J. Dong, M. Shindo and H. Ueda Construction of dye-stapled Quenchbody by photochemical crosslinking to antibody nucleotide-binding site" Chem. Comm. 53, 10200-10203 (2017). [DOI]

141. Y. Ohmuro-Matsuyama, T. Yamashita, H. Lin, H. Yamaji and H. Ueda "Improved sensitivity of firefly luminescent intermediate-based protein interaction assay using Ser 440 mutant with lower adenylation activity" Luminescence 33, 125-130 (2018).[DOI]

140. D. Wongso, J. Dong, H. Ueda and T. Kitaguchi "Flashbody: a next generation Fluobody with fluorescence intensity enhanced by antigen binding" Anal. Chem. 89, 6719-6725 (2017).[DOI]

139. J. Dong, M. Shichiri, C.-I. Chung, T. Shibata, K. Uchida, Y. Hagihara, Y. Yoshida and H. Ueda "An Open Sandwich immunoassay for detection of 13(R,S)-Hydroxy-9(E),11(E)-octadecadienoic acid" Analyst 142, 787-793 (2017).[DOI]

138. H.-J. Jeong, T. Kojima, J. Dong, H. Ohashi and H. Ueda "One-pot construction of Quenchbodies using antibody-binding proteins" Anal. Methods 8, 7774-7779 (2016).[DOI]

137.
C.-I. Chung, R. Makino, Y. Ohmuro-Matsuyama and H. Ueda "Development of a fluorescent protein-antibody FRET probe for the detection and imaging of osteocalcin" J. Biosci. Bioeng. 123, 272-276 (2017).
[DOI]

136. H. Ohashi, T. Matsumoto, H.-J. Jeong, J. Dong, R. Abe and H. Ueda "Insight into the working mechanism of Quenchbody: Transition of the dye around antibody variable region that fluoresces upon antigen binding" Bioconj. Chem. 27, 2248-2253 (2016). [DOI] [PDF–ACS Articles on Request]


135.
H. Iwai, M. Kojima-Misaizu, J. Dong, and H. Ueda "Creation of a ligand-dependent enzyme by fusing circularly permuted antibody variable region domains" Bioconj. Chem. 27, 868-873 (2016). [ DOI] [Abstract] [PDF–ACS Articles on Request]

134. Y. Ohmuro-Matsuyama, K. Mori, H. Hamada, H. Ueda and H. Yamaji "Electrostatic engineering of the interface between heavy and light chains promotes antibody Fab fragment production" Cytotechnol. 69 (3), 469-475 (2017).[DOI]

133. R. Dale, Y. Ohmuro-Matsuyama, H. Ueda and N. Kato "Mathematical model of the firefly luciferase complementation assay reveals a non-linear relationship between the detected luminescence and the affinity of the protein pair being analyzed" PLoS ONE 11, e0148256 (2016). [DOI][Abstract] Open Access

132. J. Dong, H.J. Jeong and H. Ueda "Preparation of Quenchbodies by protein transamination reaction" J. Biosci. Bioeng. 122, 125-130 (2016). [DOI][Abstract]

131. H.J. Jeong, T. Kawamura, J. Dong and H. Ueda "Q-bodies from recombinant single-chain Fv fragment with better yield and expanded palette of fluorophores" ACS Sens. 1, 91-99 (2016).[DOI] Free Access

130. M. Kurihara*, Y. Ohmuro-Matsuyama*, K. Ayabe, T. Yamashita, H. Yamaji and H. Ueda "Ultra sensitive firefly luciferase-based protein-protein interaction assay (FlimPIA) attained by hinge region engineering and optimized reaction conditions" Biotechnol. J. 11, 91-99 (2016). [Abstract][DOI] *equal contributions

129. M. Komatsu, J. Dong, H. Ueda and R. Arai "Crystal structure of Fab fragment of an anti-osteocalcin C-terminal peptide antibody KTM219" Photon Factory Act. Rep. 2014 Part B, 205 (2015). [Link]

128. J. Gholami, M. Manteghian, A. Badiei, M. Javanbakht and H. Ueda "Label free detection of vitamin B12 based on fluorescence quenching of graphene oxide nanolayer"
Fullerenes, Nanotubes and Carbon Nanostructures 23(10), 878-884 (2015).[DOI][Free Full Text]

127. J. Gholami, M. Manteghian, A. Badiei, H. Ueda and M. Javanbakht "N-butylamine functionalized graphene oxide for detection of Iron(III) by photoluminescence quenching"
Luminescence, 31 , 229-235 (2016). [DOI]

126. J. Dong*, T. Kojima*, H. Ohashi and H. Ueda "Optimal fusion of antibody binding domains resulted in higher affinity and wider specificity" J. Biosci. Bioeng. 120(5), 504-509 (2015). *equal contributions [DOI][Abstract][Free download~11/27]

125. H.J. Jeong, S. Itayama and H. Ueda "A signal-on fluorosensor based on quench-release principle for sensitive detection of antibiotic rapamycin" Biosensors 5(2), 131-140 (2015). [Abstract][DOI] Open Access

124. C.I. Chung, R. Makino, J. Dong and H. Ueda "Open flower fluoroimmunoassay: a general method to make fluorescent protein-based immunosensor probes" Anal. Chem. 87, 3513-3519 (2015).[Abstract][DOI][ACS Articles on Request]

123. H. Veisi, J. Gholami, H. Ueda, P. Mohammadi and M. Noroozi "Magnetically palladium catalyst stabilized by diaminoglyoxime-functionalized magnetic Fe3O4 nanoparticles as active and reusable catalyst for Suzuki coupling reactions" J. Mol. Catal. A: Chemical 396, 216-223 (2015).[DOI]

122. K. Hayashi, Y. Tomozoe, K. Nagai, K. Matsuba, M. Mitsumori, Y. Hiraishi, T. Matsumura, H. Ueda and N. Kamiya "Optimization of a fusion protein expression system using human cell lines for creating a practical immunoassay reagent" Kagaku Kogaku Ronbunshu 41(1) 38-42 (2015).[Abstract]

121.
H.-J. Jeong and H. Ueda "Strategy for making a superior Quenchbody to proteins: effect of the fluorophore position" Sensors (Basel) 14(7), 13285-13297 (2014).[DOI][Abstract] Open Access

120. Y. Sasajima, Y. Kohama, M. Kojima-Misaizu, N. Kurokawa, Y. Hara, J. Dong, M. Ihara and H. Ueda "Simultaneous retention of thermostability and specific activity in chimeric human alkaline phosphatases" Mol. Biotechnol. 56(10), 953-961 (2014).[DOI][Abstract]

119. R. Abe, H.J. Jeong, D. Arakawa, J.H. Dong, H. Ohashi, R. Kaigome, F. Saiki, K. Yamane, H. Takagi and H.Ueda "Ultra Q-bodies : quench-based antibody probes that utilize dye-dye interactions with enhanced antigen-dependent fluorescence" Sci. Rep. 4, 4640 (2014).[DOI][Abstract]

118.
Y. Ohmuro-Matsuyama, Y. Hara and H. Ueda "Improved protein-protein interaction assay FlimPIA by the entrapment of luciferase conformation" Anal. Chem. 86, 2013-2018 (2014).[DOI][Abstract]

Reviews




Jinhua Dong and Hiroshi Ueda "Open sandwich immunoassay and its applications" in Advances in Medicine and Biology, 125. (ed. L.V. Berhardt) pp. 123-159 (Nova Science Publishers Inc., New York; 2017). [PDF (PW:392062)]

H. Iwai, M. Kojima-Misaizu, J. Dong and H. Ueda "Creation of antigen-dependent β-lactamase fusion protein tethered by circularly permuted antibody variable domains" Methods Mol. Biol. 1596, 149-165 (2017). [DOI]

Y. Ohmuro-Matsuyama and H. Ueda "Ultrasensitive Firefly luminescent intermediate-based Protein-protein Interaction Assay (FlimPIA) based on the functional complementation of mutant firefly luciferases" Methods Mol. Biol. 1596, 119-130 (2017). [DOI]

Jinhua Dong and Hiroshi Ueda "ELISA-type assays of trace biomarkers using microfluidic methods" WIREs Nanomed. Nanobiotechnol. e1457 (2017). [Abstract]

Y. Ohmuro-Matsuyama and H. Ueda "A protein-protein interaction assay FlimPIA based on the functional complementation of mutant firefly luciferases" " Methods Mol. Biol. 1461, 131-142 (2016). [DOI]

Hiroshi Ueda, "Improving Medical Care with Engineering" SCIENTIA October issue "Innovations in Healthcare", Knowledge Translation Media, Gloucester, UK (2015). [PDF
]

H. Ueda and J. Dong "From Fluorescence Polarization to Quenchbody : Recent Progress in Fluorescent Reagentless Biosensors Based on Antibody and Other Binding Proteins" Biophys. Biochim. Acta - Proteins and Proteomics 1844, 1951-1959 (2014).[Abstract][DOI]

Invited speaks (English only)


H. Ueda “How can we transform monofunctional proteins to sensors?”,
Division of Chemistry and Biological Chemistry, School of Physical and Mathematical Sciences,
Nanyang Technological University, Singapore (3/14, 2017)

Hiroshi Ueda, Yuya Oka, Chan-I Chung, Hee-Jin Jeong, Jinhua Dong “Antibody-based Fluorescent Probes: How Can We Convert Antigen Binding Signal to Fluorescence Signal?”, Third FB3 (Fluorescent Biomolecules and their Building Blocks) Conference, Tianjin University, Tianjin, People's Republic of China (7/8, 2016)

Hiroshi Ueda “Development of biosensor proteins utilizing fluorescence quenching and bioluminescent reactions”, 6th International Conference on Bimolecular Engineering, Society for Biological Engineering, AIChE, Grand Hyatt Singapore, Singapore (1/5, 2016)

Hiroshi Ueda, Hideki Yamaji, Yuki Ohmuro-Matsuyama. "Hinge region engineering of firefly luciferases for robust protein-protein interaction assay FlimPIA", Pacifichem 2015 (Honolulu, HI) (12/16, 2015)

H. Ueda “Quenchbodies - Quench-based antibody probes that emit antigen-dependent fluorescence”, 1st International Conference and Exhibition on Antibodies, Hilton Birmingham Metropole, Birmingham, UK (8/10, 2015)

H. Ueda “Development of biosensor proteins utilizing fluorescence quenching and bioluminescent reactions”, 42nd Annual Meeting and International Symposium of the Korean Society for Microbiology and Biotechnology (KMB2015), Gyeongju Hwabaek International Convention Center (HICO), Gyeongju, Korea (6/24, 2015)

H. Ueda “How can we transform monofunctional proteins to sensors?”, A*Star-JST Joint Workshop “Development of Fundamental Technology for Biodevices Enabling Dynamic Analysis and Control of Cells” Exploration Theatrette, Matrix Level 4, Biopolis, Singapore (1/12, 2015)

H. Ueda “Creation of biosensors based on the engineering of antibody and bioluminescent enzyme”, 4th International Symposium on Interdisciplinary Domain Research, Shizuoka University
Granship Shizuoka (12/1, 2014)

H. Ueda “How can we transform uni-functional proteins to sensors?”, 20th YABEC, Chayi, Taiwan (11/7, 2014), selected as a plenary speaker.




* The numbers are colored according to the research projects as follow:
Open-sandwich immunoassayQuenchbodiesOther immunoassaysProtein engineeringBioluminescenceChimeric receptorOthers