1.Cui, Y.#, Sun, G.#, Li, Y., Tang, A., Zhu, L., and Kong, D.* (2020) DNA-Based pH-Responsive Core-Shell Drug Nanocarrier for Tumor-Targeted Chemo-Photodynamic Therapy, Adv. Mater. Interfaces, 7, 2000292. (#equal contribution)
2.Cui, Y.#, Feng, X.#, Li, X., Zhang, Y., Tang, A., and Kong, D.* (2019) Trifunctional Integrated DNA Based Universal Sensing Platform for Detection of Diverse Biomolecules in One-pot Isothermal Exponential Amplification Mode, Chem. Comm., 53, 7603-7606. (#equal contribution)
3.Cui, Y., Feng, X., Wang, Y., Pan, H., Pan H., and Kong, D.* (2019) An integrated-molecular-beacon based multiple exponential strand displacement amplification strategy for ultrasensitive detection of DNA methyltransferase activity, Chem. Sci., 10, 2290-2297.
4.Cui, Y., Kong, D.*, Ghimire, C., Xu, C., and Mao, H.* (2016) Mutually Exclusive Formation of G-Quadruplex and i-Motif Is a General Phenomenon Governed by Steric Hindrance in Duplex DNA, Biochemistry, 55, 2291-2299.
5.Cui, Y., Koirala, D., Kang, H., Dhakal, S., Yangyuoru, P. M., Hurley, L.*, and Mao, H.* (2014) Molecular Population Dynamics of DNA Structures in a Bcl-2 Promoter Sequence is Regulated by Small-molecules and the Transcription Factor hnRNP LL, Nucleic Acids Res., 42, 5755-5764.
6.Yu, Z.#, Cui, Y.#, Selvam, S., Ghimire, C., and Mao, H.* (2015) Dissecting Cooperative Communications in a Protein with a High-Throughput Single-Molecule Scalpel, ChemphysChem, 16, 223-232. (#equal contribution)
7.Wang, D.-X., Wang, J., Wang, Y.-X., Du, Y.-C., Huang, Y., Tang A.-N., Cui, Y.-X.*, and Kong, D.-M.* (2021) DNA Nanostructure-Based Nucleic Acid Probes: Construction and Biological Applications, Chem. Sci., https://doi.org/10.1039/D1SC00587A.
8.Wang, Y., Zhang, H.*, Cui, Y.*, Duan, S., Lin, W., and Liu, B. (2021)A complementary-DNA-enhanced fiber-optic sensor based on microfiber-assisted Mach-Zehnder interferometry for biocompatible pH sensing, Sensors and Actuators B-Chemical, 332, 129516.
9.Wang, Y., Zhang, H.*,Cui, Y.*, Lin, W., Liu, B., and Xiang, D. (2020)Real-Time Conformational Change Monitoring of G-Quadruplex Using Capillary-Based Biocompatible Whispering Gallery Mode Microresonator, IEEE Sens. J., 20, 12558-12564.
10.Wang, Y., Wang, D., Wang, J., Du, Y., Cui, Y., Jiang, H., Tang A., and Kong, D.* (2021)Reversible assembly/disassembly of DNA frames and applications in logic design, ratiometric sensing and bioimaging, Sensors and Actuators B-Chemical, 330, 129335.
11.Karna, D.,Stilgenbauer, M., Jonchhe, S., Ankai, K., Kawamata, I., Cui, Y., Zheng, Y., Susuki, Y.*, and Mao, H.* (2021)Chemo-Mechanical Modulation of Cell Motions Using DNA Nanosprings, Bioconjugate Chem., 32, 311-317.
12.Jonchhe, S., Pandey, S., Karna, D., Pokhrel, P., Cui, Y., Mishra, S., Sugiyama, H.*, Endo, M., and Mao, H.* (2020)Duplex DNA Is Weakened in Nanoconfinement, J. Am. Chem. Soc., 136, 18062-18069.
13.Li, X.-Y., Cui, Y.-X., Du, Y.-C., Tang A.-N., Kong, D.-M.* (2020)Isothermal cross-boosting extension-nicking reaction mediated exponential signal amplification for ultrasensitive detection of polynucleotide kinase, Analyst,145, 3742-3748.
14.Feng, X.-N., Cui, Y.-X., Zhang, J., Tang A.-N., Mao, H.-B., and Kong, D.-M.* (2020) Chiral Interaction Is a Decisive Factor To Replace D-DNA with L-DNA Aptamers, Analytical Chem., 91, 13165-13173.
15.Zhang, J., Cui, Y., Feng, X., Cheng, M., Tang, A.*, Kong, D.* (2019)pH-Controlled Intracellular in Situ Reversible Assembly of a Photothermal Agent for Smart Chemo-Photothermal Synergetic Therapy and ATP Imaging, ACS Appl. Mater. & Inter., 11, 39624-39632.
16.Wang, D.-X., Wang, J., Cui, Y.-X., Wang, Y.-X., Tang A.-N., and Kong, D.-M.* (2019) Nanolantern-Based DNA Probe and Signal Amplifier for Tumor-Related Biomarker Detection in Living Cells, Analytical Chem., 91, 13165-13173.
17.Zhang, Y., Cui, Y., Li, X., Du, Y., Tang, A., and Kong, D.* (2019) Modified exponential amplification reaction (EXPAR) with improved signal-to-noise ratio for ultrasensitive detection of polynucleotide kinase, Chem. Comm., 55, 7611-7614.
18.Sun, G.; Du, Y., Cui, Y., Wang, J.; Li, X., Tang, A., Kong, D.* (2019)Terminal Deoxynucleotidyl Transferase-Catalyzed Preparation of pH-Responsive DNA Nanocarriers for Tumor-Targeted Drug Delivery and Therapy, ACS Appl. Mater. & Inter., 11, 14684-14692.
19.Mandal, S., Kawamoto, Y., Yue, Z., Hashiya, K., Cui, Y., Bando, T., Panday, S., Hoque, M., Hossain, M., Sugiyama, H.* and Mao, H.* (2019) Submolecular dissection reveals strong and specific binding of polyamide-pyridostatin conjugates to human telomere interface. Nucleic Acids Res., 47, 3295-3305.
20.Cheng, M., Cui, Y., Wang, J., Zhang, J., Zhu, L.*, and Kong, D.* (2019) G-Quadruplex/Porphyrin Composite Photosensitizer: A Facile Way to Promote Absorption Redshift and Photodynamic Therapy Efficacy, ACS Appl. Mater. & Inter., 4, 13158-13167,
21.Zhang L., Cui, Y., Zhu, L.*, Chu, J., Kong, D.*, (2019)Cationic porphyrins with large side arm substituents as resonance light scattering ratiometric probes for specific recognition of nucleic acid G-quadruplexes, Nucleic Acids Res., 47, 2727-2738.
22.Li, X.-Y., Cui, Y.-X., Du, Y.-C., Tang A.-N., Kong, D.-M.* (2019) Label-Free Telomerase Detection in Single Cell Using a Five-Base Telomerase Product-Triggered Exponential Rolling Circle Amplification Strategy, ACS Sensors, 4, 1090-1096.
23.Jonchhe, S., Ghimire, C., Cui, Y., Sasaki, S., McCool, M., Park, S., Iida, K., Nagasawa, Kazuo., Sugiyama, H.* and Mao, H.* (2019) Binding of a Telomestatin Derivative Changes Mechanical Anisotropy of Human Telomeric G-quadruplex, Angew. Chem. Int. Edit., 58, 877-881.
24.Punnoose, J., Ma, Y., Hoque, M., Cui, Y., Sasaki, S., Guo, H., Nagasawa K., Mao, H.* (2018) Random formation of G-quadruplexes in human telomere overhangs leads to a kinetic folding pattern with targetable vacant G-tracts, Biochemistry, 57, 6946-6955.
25.Mandal, S., Selvam, S., Cui, Y., Hoque, M., and Mao, H.* (2018) Mechanical Cooperativity in DNA Cruciform Structures, ChemPhysChem, 19, 2627-2634.
26.Du, Y.-C., Cui, Y.-X., Li, X.-Y., Sun, G.-Y., Zhang Y.-P., Tang A.-N., Kim K., and Kong, D.-M.* (2018) Terminal Deoxynucleotidyl Transferase and T7 Exonuclease-Aided Amplification Strategy for Ultrasensitive Detection of Uracil-DNA Glycosylase, Analytical Chem., 90, 8629-8634.
27.Xu, Y., Cui, Y., Zhao, Q., Tang, A.-N.*, and Kong, D.* (2018) Label-free and sensitive detection of uracil-DNA glycosylase using exponential real-time rolling circle amplification, Analytical Methods, 10, 2405-2410.
28.Shrestha, P., Cui, Y., Wei, J., Jonchhe, S., and Mao, H.* (2018) Single-Molecule Mechanochemical pH Sensing Revealing the Proximity Effect of Hydroniums Generated by an Alkaline Phosphatase, Analytical Chem., 90, 1718-1724.
29.Zhang, L.-N., Zhang, R., Cui, Y.-X., Liu, K.-K., Kong, D.-M.*, Li, X.-Z.*, and Zhu, L.-N.* (2017) Highly specific G-quadruplex recognition covering physiological pH range by a new water-soluble cationic porphyrin with low self-aggregation tendency, Dyes and Pigments, 145, 404-417.
30.Sutherland, C., Cui, Y., Mao, H., and Hurley, L. H.* (2016) A Mechanosensor Mechanism Controls the G-Quadruplex/i-Motif Molecular Switch in the MYC Promoter NHE III1, J. Am. Chem. Soc., 138, 14138-14151.
31.Kang, H., Cui, Y., Yin, H., Scheid, A., Hendricks, W., Schmidt, J., Sekulic, A., Kong, D., Trent, J., Gokhale, V., Mao, H., and Hurley, L. H.* (2016) A Pharmacological Chaperone Molecule Induces Cancer Cell Death by Restoring Tertiary DNA Structures in Mutant hTERT Promoters, J. Am. Chem. Soc., 138, 13673-13692.
32.Shrestha, P., Emura, T., Koirala, D., Cui, Y., Hidaka, K., Maximuck, W. J., Endo, M., Sugiyama, H.*, and Mao, H.* (2016) Mechanical properties of DNA origami nanoassemblies are determined by Holliday junction mechanophores, Nucleic Acids Res., 44, 6574-6582.
33.Jiang, H.-X., Cui, Y., Zhao, T., Fu, H.-W., Koirala, D., Punnoose, J. A., Kong, D.-M.*, and Mao, H.* (2015) Divalent cations and molecular crowding buffers stabilize G-triplex at physiologically relevant temperatures, Sci. Rep., 5, 9255.
34.Punnoose, J. A., Cui, Y., Koirala, D., Yangyuoru, P. M., Ghimire, C., Shrestha, P., and Mao, H.* (2014) Interaction of G-Quadruplexes in the Full-Length 3′Human Telomeric Overhang, J. Am. Chem. Soc., 136, 18062-18069.
35.Dhakal, S., Cui, Y., Koirala, D., Ghimire, C., Kushwaha, S., Yu, Z., Yangyuoru, P. M., and Mao, H.* (2013) Structural and mechanical properties of individual human telomeric G-quadruplexes in molecularly crowded solutions, Nucleic Acids Res., 41, 3915-3923.
36.Yu, Z., Koirala, D., Cui, Y., Easterling, L. F., Zhao, Y., and Mao, H.* (2012) Click Chemistry Assisted Single-Molecule Fingerprinting Reveals a 3D Biomolecular Folding Funnel, J. Am. Chem. Soc., 134, 12338-12341.
37.Dhakal, S., Yu, Z., Konik, R., Cui, Y., Koirala, D., and Mao, H.* (2012) G-Quadruplex and i-Motif Are Mutually Exclusive in ILPR Double-Stranded DNA, Biophys. J., 102, 2575–2584.
38.Yu, Z., Gaerig, V., Cui, Y., Kang, H., Gokhale, V., Zhao, Y., Hurley, L. H.*, and Mao, H.* (2012) Tertiary DNA Structure in the Single-Stranded hTERT Promoter Fragment Unfolds and Refolds by Parallel Pathways via Cooperative or Sequential Events, J. Am. Chem. Soc., 134, 5157-5164.
