{"id":358,"date":"2025-06-09T16:52:39","date_gmt":"2025-06-09T16:52:39","guid":{"rendered":"https:\/\/www.creol.ucf.edu\/nanoscopy\/?page_id=358"},"modified":"2026-03-19T23:44:21","modified_gmt":"2026-03-19T23:44:21","slug":"publications","status":"publish","type":"page","link":"https:\/\/creol.ucf.edu\/nanoscopy\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"\t\t
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[53] Katelyn Canedo, A Husain, D Park, J Kim, KY Han “Characterization of primary and labeled secondary antibody interactions using single-molecule fluorescence imaging” Submitted.\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[52] NC Venkata, J Kim, G Faber, S Misra, A Bektash, P Chaturvedi, G Hernanadez, J Dopie, M Kanemaki, KY Han, Y Shav-Tal, AS Belmont “Highly active chromosome regions preferentially associate with two perispeckle networks that partition the interchromatin space”\u00a0[bioRxiv]<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[51] J Kim, GA Hernandez-Gonzalez, NC Venkata, KY Han, AS Belmont “Nonrandom interchromatin trafficking through dynamic multiphase speckle connections”\u00a0[bioRxiv]<\/a>\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[50] Le-Mei Wang, D Pandey, W Zhang, KY Han, “Multiplane 2.5D microscopy for high-throughput high-resolution tissue imaging”\u00a0J. Biomed. Opt.\u00a0<\/em><\/span>30, 106502<\/em>\u00a0(2025).\u00a0<\/a>[Selected as a journal cover]\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[49] S Hasan, GS Kenath, M Goswami, L Yuan, J Huang, Y Lou, AA Karanastasis, H Vijayamohanan, EF Palermo, KY Han, CK Ullal “Volumetric patterning of gels via super resolved interference lithography” ACS Appl. Mater. Interfaces, <\/em><\/strong>17, 43512\u201343521 (2025).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[48] Chun Hung Weng, KY Han “Photobleaching analysis of fluorescent proteins in two-photon microscopy at high repetition rates” Opt. Commun.<\/em><\/strong>, 574, 131059 (2025).<\/a> <\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[47] Abdullah Husain, S Yerolatsitis, R Amezcua-Correa, KY Han “Photonic lantern TIRF microscopy for highly efficient, uniform, artifact-free imaging”\u00a0Opt. Express<\/em><\/strong>, 32, 37046-37058 (2024).<\/a>\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[46] G Lukinavicius, J Alvelid, R Gerasimaite, C Rodilla-Ramirez, VT Nguyen, G Vicidomini, F Bottanelli, KY Han, I Testa “Stimulated emission depletion microscopy” Nature Review Methods Primers<\/em><\/strong>, 4, 56 (2024).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[45] Le-Mei Wang, J Kim, KY Han “Highly sensitive volumetric single-molecule imaging”\u00a0Nanophotonics<\/em><\/strong>, 13, 3805\u20133814 (2024).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[44] S Basu, M Song, L Adams, G Je, S Guhathakurta, J Jiang, N Boparai, W Dai, F Cardozo-Pelaez, SA Tatulian, KY Han, J Elliott, J Baum, DW Dickson, PJ McLean, YS Kim “Transcriptional mutagenesis of \u03b1-synuclein caused by DNA oxidation in Parkinson\u2019s disease pathogenesis” Acta Neuropathol.<\/em><\/strong>, 146, 685\u2013705 (2023).<\/a> <\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[43] Vahid Ebrahimi, T Stephan, Jiah Kim, P Carravilla, C Eggeling, S Jakobs, KY Han “Deep learning enables fast, gentle STED microscopy”\u00a0Communications Biol.<\/em><\/strong>, 6, 674 (2023).<\/a>\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[42] K Amar, S Saha, A Debnath, Chun Hung Weng, A Roy, KY Han, F Chowdhury “Reduced cell-ECM interactions in the EpiSC colony center cause heterogeneous differentiation” Cells<\/em><\/strong>, 12, 326 (2023).<\/a><\/p>

[41] Vahid Ebrahimi*, J Tang*, KY Han “Incoherent superposition of polychromatic light enables single-shot nondiffracting light-sheet microscopy”\u00a0Opt. Express<\/em><\/strong>, 29, 32691-32699 (2021).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[40] Jinhan Ren, KY Han “2.5D microscopy with polarization independent SLM for enhanced detection efficiency and aberration correction”\u00a0Opt. Express<\/em><\/strong>, 29, 27530-27541 (2021).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[39] Chun Hung Weng, J Tang, KY Han “Optimizing the performance of multiline-scanning confocal microscopy”\u00a0J. Phys. D: Appl. Phys.<\/em><\/strong>, 54, 105401 (2021).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[38] Jinhan Ren, KY Han “2.5D microscopy: Fast, high-throughput imaging via volumetric projection for quantitative subcellular analysis”\u00a0ACS Photonics<\/em><\/strong>, 8, 933-942 (2021).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[37] Benjamin Croop, J Tang, KY Han “Single-shot, shadowless total internal reflection fluorescence microscopy via annular fiber bundle” Opt. Lett.<\/em><\/strong>, 45, 6470-6473 (2020).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[36] Jialei Tang, KY Han “Instantaneous non-diffracting light-sheet generation by controlling spatial coherence”, Opt. Commun.<\/em><\/strong>\u00a0474, 126154 (2020).<\/a>\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[35] Jialei Tang*, Jinhan Ren*, KY Han “Fluorescence imaging with tailored light” Nanophotonics<\/em><\/strong>, 8, 2111-2128 (2019).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[34] JC Lee, Y Ma, KY Han, T Ha “Accurate background subtraction in STED nanoscopy by polarization switching” ACS Photonics<\/em><\/strong>\u00a06, 1789-1797 (2019).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[33] Jialei Tang, KY Han “Low-photobleaching line-scanning confocal microscopy using dual inclined beams” J. Biophotonics<\/em><\/strong>, e201900075 (2019).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[32] J Kim, KY Han, N Khanna, T Ha, AS Belmont “Nuclear speckle fusion via long-range directional motion regulates speckle morphology after transcriptional inhibition” J. Cell. Sci.<\/em><\/strong>, 132, jcs226563 (2019).<\/a> [Selected as a journal cover]\u00a0<\/p>

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[31] Jialei Tang, CH Weng, JB Oleske, KY Han “A guide to Build a highly inclined swept tile microscope for extended field-of-view single-molecule imaging” JoVE<\/em><\/strong>, e59360 (2019).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[30] Benjamin Croop, KY Han “Facile single-molecule pull-down assay for analysis of endogenous proteins” Phys. Biol.<\/em><\/strong>, 16, 035002 (2019).<\/a><\/p>

[29] Benjamin Croop*, C Zhang*, Y Lim*, RM Gelfand, KY Han “Recent advancement of light-based single-molecule approaches for studying biomolecules” WIREs Syst. Biol. Med.<\/em><\/strong>, 11, e1445 (2019).\u00a0<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[28] Jialei Tang, KY Han “Extended field-of-view single-molecule imaging by highly inclined swept illumination” Optica<\/em><\/strong>, 5, 1063-1069 (2018).<\/a>\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[27] KY Han, T Ha “Measuring molecular mass with light” Nature Photonics<\/em><\/strong>\u00a0(News & Views,) 12, 380\u2013381 (2018).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[26] Ian Khaw*, Benjamin Croop*, J Tang, A M\u00f6hl, U Fuchs, KY Han “Flat-field illumination for quantitative fluorescence imaging” Opt. Express<\/em><\/strong>, 26, 15276-15288 (2018).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[25] B Hua, Y Wang, S Park, KY Han, D Singh, JH Kim, W Cheng, T Ha “Single-molecule centroid localization algorithm improves the accuracy of fluorescence binding assays” Biochemistry<\/em><\/strong>, 57, 1572\u20131576 (2018).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[24] Goun Je, Benjamin Croop, S Basu, J Tang, KY Han*, YS Kim* “Endogenous alpha-synuclein protein analysis from human brain tissues using single-molecule pull-down assay” Anal. Chem.<\/em><\/strong>, 89, 13044-13048 (2017).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[23] Jialei Tang, Y Sun, S Pang, KY Han “Spatially encoded fast single-molecule fluorescence spectroscopy with full field-of-view” Sci. Rep.<\/em><\/strong>\u00a07, 10945 (2017).<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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[22] I Masuda, T Igarasgi, R Sakaguchi, R Nitharwal, R Takase, KY Han, BJ Leslie, C Liu, H Gamper, T Ha, S Sanyal, YM Hou “A genetically encoded fluorescent tRNA is active in live-cell protein synthesis” Nucleic Acids Res.<\/em><\/strong>, 45, 4081-4093 (2017).\u00a0<\/a><\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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“A chemical controller of SNARE-driven membrane fusion that primes vesicles for Ca2+-triggered millisecond exocytosis”<\/a>
Heo P, Yang Y, Han KY, Kong B, Shin J, Jung Y, Jeong C, Shin JH, Shin YK, Ha T, Kweon DH
J. Am. Chem. Soc.<\/em><\/strong>\u00a0138, 4512-4521 (2016)<\/p>

“RESOLFT nanoscopy with photoswitchable organic fluorophores”<\/a>
Kwon J, Hwang J, Park J, Han GR, Han KY*, Kim SK*
Sci. Reports<\/em><\/strong>\u00a05, 17804 (2015)<\/p>

“Tandem Spinach array for mRNA imaging in living bacterial cells”<\/a>
Zhang J, Fei J, Leslie BJ, Han KY, Kuhlman TE, Ha T
Sci. Reports<\/em><\/strong>\u00a05, 17295 (2015)<\/p>

“Dual-color three-dimensional STED microscopy with a single high-repetition-rate laser”<\/a>
Han KY, Ha T
Opt. Lett.<\/em><\/strong>\u00a040, 2653-2656 (2015)<\/p>

“An Improved surface passivation method for single-molecule studies”<\/a>
Hua B, Han KY, …, Ha T
Nature Methods<\/em><\/strong>\u00a011, 1233-1236 (2014)<\/p>

“Understanding the photophysics of the Spinach-DFHBI RNA aptamer-fluorogen complex to improve live cell RNA imaging”<\/a>
Han KY, Leslie BJ, Fei J, Zhang J, Ha T
J. Am. Chem. Soc.<\/em><\/strong>\u00a0135, 19033-19038 (2013)<\/p>

“Preparation of non-aggregated fluorescent nanodiamonds (FNDs) by non-covalent coating with a block copolymer and proteins for enhancement of intracellular uptake”<\/a>
Lee JW, Lee S, Jang S, Han KY, Kim Y, Hyun J, Kim SK, Lee Y
Molecular BioSystems<\/em><\/strong>\u00a09, 1004-1011 (2013)<\/p>

“Dark state photophysics of nitrogen\u2013vacancy centres in diamond”<\/a>
Han KY*, Wildanger D*, Rittweger E, Meijer J, Pezzagna S, Hell SW, Eggeling C
New J. Phys.<\/em><\/strong>\u00a014, 123002 (2012)<\/p>

“Sharper low-power STED nanoscopy by time gating”<\/a>
Vicidomini G*, Moneron G*, Han KY*, Westphal V, Ta T, Reuss M, Engelhardt J, Eggeling C, Hell SW
Nature Methods<\/em><\/strong>\u00a08, 571-573 (2011)<\/p>

“Metastable dark states enable ground state depletion microscopy of nitrogen vacancy centers in diamond with diffraction-unlimited resolution”<\/a>
Han KY, Kim SK, Eggeling C, Hell SW
Nano Lett.<\/em><\/strong>\u00a010, 3199-3203 (2010)<\/p>

“Three-dimensional stimulated emission depletion microscopy of nitrogen-vacancy centers in diamond using continuous-wave light”<\/a>
Han KY, Willig KI, Rittweger E, Jelezko F, Eggeling C, Hell SW
Nano Lett.<\/em><\/strong>\u00a09, 3323-3329 (2009)<\/p>

“STED microscopy reveals crystal colour centres with nanometric resolution”<\/a>
Rittweger E*, Han KY*, Irvine SE*, Eggeling C, Hell SW
Nature Photonics<\/em><\/strong>\u00a03,144-147 (2009)<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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Patents<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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[4] Jialei Tang, Vahid Ebrahimi & Kyu Young Han, \u201cInstantaneous non-diffracting light sheets\u201d, pending.\u00a0<\/p>

[3] Jialei Tang & Kyu Young Han, \u201cMultiple inclined beam line-scanning imaging apparatus, methods, and applications”, US11237370B2.<\/p>

[2] Jialei Tang & Kyu Young Han, “Highly inclined swept tile (HIST) imaging apparatus, methods, and applications”, US11231570B2.<\/p>

[1] Stefan W Hell, Johann Engelhardt, Matthias Reuss, Volker Westphal, Christian Eggeling, Gael Moneron, Kyu Young Han, Giuseppe Vicidomini & Katrin Willig, \u201cSTED microscopy with pulsed excitation, continuous stimulation, and gated registration of spontaneously emitted fluorescence light\u201d, WO2012069076; JP2013543980; US2013256564.\u00a0# Licensed to Leica Microsystems & Abberior Instruments.\u00a0<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t

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\n\t\t\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"Publications [53] Katelyn Canedo, A Husain, D Park, J Kim, KY Han “Characterization of primary and labeled secondary antibody interactions using single-molecule fluorescence imaging” Submitted.\u00a0 [52] NC Venkata, J Kim, G Faber, S Misra, A Bektash, P Chaturvedi, G Hernanadez, J Dopie, M Kanemaki, KY Han, Y Shav-Tal, AS Belmont “Highly active chromosome regions preferentially…","protected":false},"author":123,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"template-fullscreen.php","meta":{"_acf_changed":false,"footnotes":""},"class_list":["post-358","page","type-page","status-publish","hentry"],"acf":[],"_links":{"self":[{"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/pages\/358","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/users\/123"}],"replies":[{"embeddable":true,"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/comments?post=358"}],"version-history":[{"count":271,"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/pages\/358\/revisions"}],"predecessor-version":[{"id":1133,"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/pages\/358\/revisions\/1133"}],"wp:attachment":[{"href":"https:\/\/creol.ucf.edu\/nanoscopy\/wp-json\/wp\/v2\/media?parent=358"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}