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PUBLICATIONS

Citation Metrics of the publications can be found on the Google Scholar and Web of Science profiles.

Publications that are in early view or in press status may be listed on the ORCID profile. 

2024

34

Saquer, N.; Iqbal, R.; Ellis, J. D.; Yoshimatsu, K.  Infrared spectra prediction using attention-based graph
neural network.
Digital Discovery 2024, Accepteddoi:10.1039/D3DD00254C

 

 

2023

33

Ellis, J. D.; Iqbal, R.; Yoshimatsu, K.  Deep Q-Learning-Based Molecular Graph Generation for Chemical Structure Prediction From Infrared Spectra. IEEE Transactions on Artificial Intelligence 2023, Early Accessdoi:10.1109/TAI.2023.3287947

32

Koide, H.; Saito, K.; Yoshimatsu, K.; Chou, B.; Hoshino, Y.; Yonezawa, S.; Oku, N.; Asai, T.; Shea, K. J.  Design of an Anti-HMGB1 Synthetic Antibody for In Vivo Ischemic/Reperfusion Injury Therapy. Journal of the American Chemical Society 2023, 145, 23143–23151. doi:10.1021/jacs.3c06799

31

Koide, H.; Saito, K.; Yoshimatsu, K.; Chou, B.; Hoshino, Y.; Yonezawa, S.; Oku, N.; Asai, T.; Shea, K. J.  Cooling-induced, localized release of cytotoxic peptides from engineered polymer nanoparticles in living mice for cancer therapy. Journal of Controlled Release 2023, 355, 745-759. doi:10.1016/j.jconrel.2023.02.020

2021

30

Koide, H.; Okishima, A.; Hoshino, Y.; Kamon, Y.; Yoshimatsu, K.; Saito, K.; Yamauchi, I.; Ariizumi, S.; Zhou, Y.; Xiao, T.-H.; Goda, K.; Oku, N.; Asai, T.; Shea, K. J.  Synthetic hydrogel nanoparticles for sepsis therapy. Nature Communications 2021, 12, 5552. doi:10.1038/s41467-021-25847-2

29

Ellis, J. D.; Iqbal, R.; Yoshimatsu, K.  Verification of the neural network training process for spectrum-based chemical substructure prediction using metamorphic testing. Journal of Computational Science 2021, 55, 101456. doi:10.1016/j.jocs.2021.101456

28

Yoshimatsu, K.; Fruehauf, K. R.; Zhu, Q.; Weisman, A.; Fan, J.; Xue, M.; Beierle, J. M.; Rose, P. E.; Aral, J.; Epstein, L. F.; Tagari, P.; Miranda, L. P.; Shea, K. J.  Metal-Free Polymer-Based Affinity Medium for Selective Purification of His6-Tagged Proteins. Biomacromolecules 2021, 22, 4, 1695-1705.

doi:10.1021/acs.biomac.1c00119

27

Odom, T. L.; Blankenship, J. R.; Campos, G.; Mart, D. C.; Liu, W.; Wang, R.; Yoshimatsu, K.  Effect of vortex‐induced physical stress on fluorescent properties of dye‐containing poly(ethylene glycol)‐block‐poly(lactic acid) micelles. Journal of Applied Polymer Science 2021, 138, 4, 49743. doi:10.1002/app.49743

2020

26

Ellis, J. D.; Iqbal, R.; Yoshimatsu, K.  A new approach for IR spectra matching using normalized local change. Analytica Chimica Acta 2020, 1103, 49-57. doi:10.1016/j.aca.2019.12.055

2019

25

Koide, H.; Fukuta, T.; Okishima, A.; Ariizumi, S.; Kiyokawa, C.; Tsuchida, H.; Nakamoto, M.; Yoshimatsu, K.; Ando, H.; Dewa, T.; Asai, T.; Oku, N.; Hoshino, Y.; Shea, K. J.  Engineering the binding kinetics of synthetic polymer nanoparticles for siRNA delivery. Biomacromolecules 2019, 20, 10, 3648-3657.

doi:10.1021/acs.biomac.9b00611

24

Yoshida, H.; Kojima, K.; Shiota, M.; Yoshimatsu, K.; Yamazaki, T.; Ferri, S.; Tsugawa, W.; Kamitori, S.; Sode, K.  X-ray structure of the direct electron transfer-type FAD glucose dehydrogenase catalytic subunit complexed with a hitchhiker protein. Acta Crystallographica Section D: Structural Biology 2019, 75, 841-851. 

doi:10.1107/S2059798319010878

23

Koide, H.; Yoshimatsu, K.; Hoshino, Y.; Ariizumi, S.; Okishima, A.; Ide, T.; Egami, H.; Hamashima, Y.; Nishimura, Y.; Kanazawa, H.; Miura, Y.; Asai, T.; Oku, N.; Shea, K. J.  Sequestering and inhibiting a vascular endothelial growth factor in vivo by systemic administration of a synthetic polymer nanoparticle. 

Journal of Controlled Release 2019, 295, 13-20. doi:10.1016/j.jconrel.2018.12.033

2018

22

Miyazaki, R.; Yamazaki, T.; Yoshimatsu, K.; Kojima, K.; Asano, R.; Sode, K.; Tsugawa, W.  Elucidation of the intra- and inter-molecular electron transfer pathways of glucoside 3-dehydrogenase. Bioelectrochemistry 2018, 122, 115-122. doi:10.1016/j.bioelechem.2018.03.001

2017

21

Koide, H.; Yoshimatsu, K.; Hoshino, Y.; Lee, S.-H.; Okajima, A.; Ariizumi, S.; Narita, Y.; Yonamine, Y.; Weisman, A. C.; Nishimura, Y.; Oku, N.; Miura, Y.; Shea, K. J.  A polymer nanoparticle with engineered affinity for a vascular endothelial growth factor (VEGF165). Nature Chemistry 20179, 715-722. doi:10.1038/nchem.2749

2016

20

Shiota, M.; Yamazaki, T.; Yoshimatsu, K.; Kojima, K.; Tsugawa, W.; Sode, K.  An Fe–S cluster in the conserved Cys-rich region in the catalytic subunit of FAD-dependent dehydrogenase complexes.  

Bioelectrochemistry 2016112, 178-183. doi:10.1016/j.bioelechem.2016.01.010

2015

 

19

Yoshimatsu, K.; Koide, H.; Hoshino, Y.; Shea, K. J.  Preparation of abiotic polymer nanoparticles for sequestration and neutralization of a target peptide toxin.  Nature Protocols 201510, 4, 595–604. doi:10.1038/nprot.2015.032

 

18

Cho, K.; Fasoli, J. B.; Yoshimatsu, K.; Shea, K. J.; Corn, R. M.  Measuring Melittin Uptake into Hydrogel Nanoparticles with Near-Infrared Single Nanoparticle Surface Plasmon Resonance Microscopy.  Analytical Chemistry 201587, 9, 4973-4979. doi:10.1021/acs.analchem.5b00776

 

 

2014


17

Beierle, J. M.; Yoshimatsu, K.; Chou, B.; Mathews, M. A. A.; Lesel, B. K.; Shea, K. J. Polymer Nanoparticle Hydrogels with Autonomous Affinity Switching for the Protection of Proteins from Thermal Stress.  Angewandte Chemie International Edition 201453, 35, 9275–9279. doi:10.1002/anie.201404881


16

Yoshimatsu, K.; Yamazaki, T.; Hoshino, Y.; Rose, P. E.; Epstein, L. F.; Miranda, L. P.; Tagari, P.; Beierle, J. M.; Yonamine, Y.; Shea, K. J.  Epitope Discovery for a Synthetic Polymer Nanoparticle: A New Strategy for Developing a Peptide Tag.  Journal of the American Chemical Society 2014, 136, 4, 1194–1197. doi:10.1021/ja410817p

 

15

Malm, B.; Yoshimatsu, K.; Ye, L.; Krozer, A. Characterization of molecularly imprinted polymer nanoparticles by photon correlation spectroscopy.  Journal of Molecular Recognition 2014, 27, 12, 714–721. doc:10.1002/jmr.2397

 


2013

 

14

Pevarnik, M.; Schiel, M.; Yoshimatsu, K.; Vlassiouk, I. V.; Kwon, J. S.; Shea, K. J.; Siwy, Z. S.  Particle Deformation and Concentration Polarization in Electroosmotic Transport of Hydrogels through Pores.  ACS NANO 2013, 7, 4, 3720–3728. doi:10.1021/nn400774e

 

13

Yonamine, Y.; Yoshimatsu, K.; Lee, S.-H.; Hoshino, Y.; Okahata, Y.; Shea, K. J.  Polymer Nanoparticle–Protein Interface. Evaluation of the Contribution of Positively Charged Functional Groups to Protein Affinity.  ACS Applied Materials & Interfaces 2013, 5, 2, 374–379. doi:10.1021/am302404q

12

Yanagida, M.; Numata, Y.; Yoshimatsu, K.; Satoh, S.; Han, L.  Effective charge collection in dye-sensitized nanocrystalline TiO2.  Advances in Natural Sciences: Nanoscience and Nanotechnology 2013, 4, (1), 015006. doi:10.1088/2043-6262/4/1/015006


2012

 

11

Yoshimatsu, K.; Lesel, B. K.; Yonamine, Y.; Beierle, J. M.; Hoshino, Y.; Shea, K. J.  Temperature-Responsive “Catch and Release” of Proteins by using Multifunctional Polymer-Based Nanoparticles.  Angewandte Chemie International Edition 2012, 51, 10, 2405–2408. doi:10.1002/anie.201107797  (Highlighted in Materials Today, 2012, 15, 3, 81)
 

10

Yanagida, M.; Numata, Y.; Yoshimatsu, K.; Ochiai, M.; Naito, H.; Han, L. Y.  Structure of electron collection electrode in dye-sensitized nanocrystalline TiO2.  Electrochimica Acta 2013, 87, 309–316. doi:10.1016/j.electacta.2012.09.049

 

9

Trikka, F. A.; Yoshimatsu, K.; Ye, L.; Kyriakidis, D. A.  Molecularly imprinted polymers for histamine recognition in aqueous environment.  Amino Acids 2012, 45, 5, 2113–2124. doi:10.1007/s00726-012-1297-8

 

8

Yoshimatsu, K.; Yamazaki, T.; Chronakis, I. S.; Ye, L.  Influence of Template/Functional Monomer/Cross-Linking Monomer Ratio on Particle Size and Binding Properties of Molecularly Imprinted Nanoparticles.  Journal of Applied Polymer Science 2012, 124, 2, 1249–1255. doi:10.1002/app.35150
 

 

2010

 

7

Suksrichavalit, T.; Yoshimatsu, K.; Prachayasittikul, V.; Bülow, L.; Ye, L.  "Clickable" affinity ligands for effective separation of glycoproteins.  Journal of Chromatography A 2010, 1217, 23, 3635–3641. doi:10.1016/j.chroma.2010.03.050

 

 

2009

 

6

Yoshimatsu, K.; LeJeune, J.; Spivak, D. A.; Ye, L.  Peptide-imprinted polymer microspheres prepared by precipitation polymerization using a single bi-functional monomer.  The Analyst 2009, 134, 4, 719–724. doi:10.1039/b814967d
 

 

2008

 

5

Yoshimatsu, K.; Ye, L.; Stenlund, P.; Chronakis, I. S.  A simple method for preparation of molecularly imprinted nanofiber materials with signal transduction ability.  Chemical Communications 2008, 17, 2022–2024. doi:10.1039/b719586a

4

Yoshimatsu, K.; Ye, L.; Lindberg, J.; Chronakis, I. S.  Selective molecular adsorption using electrospun nanofiber affinity membranes.  Biosensors and Bioelectronics 2008, 23, 7, 1208–1215. 

doi:10.1016/j.bios.2007.12.002
 

 

3

Reimhult, K.; Yoshimatsu, K.; Risveden, K.; Chen, S.; Ye, L.; Krozer, A.  Characterization of QCM sensor surfaces coated with molecularly imprinted nanoparticles.  Biosensors and Bioelectronics 2008, 23, 12, 1908–1914. 

doi:10.1016/j.bios.2008.02.011

 

 

2007

 

2

Yoshimatsu, K.; Reimhult, K.; Krozer, A.; Mosbach, K.; Sode, K.; Ye, L.  Uniform molecularly imprinted microspheres and nanoparticles prepared by precipitation polymerization: The control of particle size suitable for different analytical applications.  Analytica Chimica Acta 2007, 584, 1, 112–121. 

doi:10.1016/j.aca.2006.11.004
(Ranked 2nd in the Hottest/Most Downloaded Articles in Anal. Chim. Acta during January to March, 2007)

 

 

2006

 

1

Ye, L.; Yoshimatsu, K.; Kolodziej, D.; Francisco, J. D. C.; Dey, E. S.  Preparation of Molecularly Imprinted Polymers in Supercritical Carbon Dioxide.  Journal of Applied Polymer Science 2006, 102, 3, 2863–2867. 

doi:10.1002/app.24648

BOOK CHAPTER

2023

1

Yoshimatsu, K.  Biosensors: Biomimetic Sensors. In Encyclopedia of Sensors and Biosensors, Vol. 1; Ikebukuro, K., Ed.; Elsevier Ltd., 2023; pp 393-404. doi:10.1016/B978-0-12-822548-6.00088-1

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