Pursuing excitonic energy transfer with programmable DNA-based optical breadboards

Mathur, Divita; Díaz, Sebastián A.; Hildebrandt, Niko; Pensack, Ryan D.; Yurke, Bernard; Biaggne, Austin; Li, Lan; Melinger, Joseph S.; Ancona, Mario G.; Knowlton, William B.; Medintz, Igor L.

doi:10.1039/D0CS00936A

Title: Pursuing excitonic energy transfer with programmable DNA-based optical breadboards

Journal Article · 12 November 2023 · Chemical Society Reviews

DOI: https://doi.org/10.1039/D0CS00936A · OSTI ID:2203471

^[1];

^[2];

^[3];

^[4]; Yurke, Bernard ^[4];

^[4]; Li, Lan ^[5];

^[6];

^[7]; Knowlton, William B. ^[4];

^[2]

Department of Chemistry, Case Western Reserve University, Cleveland OH 44106, USA
Center for Bio/Molecular Science and Engineering, Code 6900, USA
Department of Chemistry, Seoul National University, Seoul 08826, South Korea, Department of Engineering Physics, McMaster University, Hamilton, L8S 4L7, Canada
Micron School of Materials Science & Engineering, Boise State University, Boise, ID 83725, USA
Micron School of Materials Science & Engineering, Boise State University, Boise, ID 83725, USA, Center for Advanced Energy Studies, Idaho Falls, ID 83401, USA
Electronics Science and Technology Division, Code 6800, U.S. Naval Research Laboratory, Washington, DC 20375, USA
Electronics Science and Technology Division, Code 6800, U.S. Naval Research Laboratory, Washington, DC 20375, USA, Department of Electrical and Computer Engineering, Florida State University, Tallahassee, FL 32310, USA

Nanoscale dye-based excitonic systems assembled on DNA origami in solution excited by a laser. Dyes engage in cascaded FRET with exciton movement guided by programmed elements engaging in homo- and hetero-energy transfer.

View Journal Article

Cite

Export

Save

Research Organization:: Boise State Univ., ID (United States)

Sponsoring Organization:: USDOE; USDOE Office of Science (SC), Basic Energy Sciences (BES). Materials Sciences & Engineering Division (MSE)

Grant/Contract Number:: SC0020089

OSTI ID:: 2203471

Journal Information:: Chemical Society Reviews, Journal Name: Chemical Society Reviews Journal Issue: 22 Vol. 52; ISSN 0306-0012; ISSN CSRVBR

Publisher:: Royal Society of Chemistry (RSC)Copyright Statement

Country of Publication:: United Kingdom

Language:: English

References (467)

Deoxyribonucleic Acid Photonic Wires with Three Primary Color Emissions for Information Encryption Yang, Fei Fan; Li, Chun Hong; Lv, Wen Yi Advanced Functional Materials, Vol. 31, Issue 19 https://doi.org/10.1002/adfm.202100322	journal	February 2021
The Growing Development of DNA Nanostructures for Potential Healthcare‐Related Applications Mathur, Divita; Medintz, Igor L. Advanced Healthcare Materials, Vol. 8, Issue 9 https://doi.org/10.1002/adhm.201801546	journal	March 2019
Smart Drug Delivery Nanocarriers with Self-Assembled DNA Nanostructures Li, Jiang; Fan, Chunhai; Pei, Hao Advanced Materials, Vol. 25, Issue 32 https://doi.org/10.1002/adma.201300875	journal	June 2013
Thousand-Fold Increase in Optical Storage Density by Polychromatic Address Multiplexing on Self-Assembled DNA Nanostructures Mottaghi, Mohammad D.; Dwyer, Chris Advanced Materials, Vol. 25, Issue 26 https://doi.org/10.1002/adma.201301141	journal	May 2013
Core–Shell and Layer‐by‐Layer Assembly of 3D DNA Crystals McNeil, Ronald; Paukstelis, Paul J. Advanced Materials, Vol. 29, Issue 28 https://doi.org/10.1002/adma.201701019	journal	May 2017
Maximizing the Accessibility in DNA Origami Nanoantenna Plasmonic Hotspots Close, Cindy; Trofymchuk, Kateryna; Grabenhorst, Lennart Advanced Materials Interfaces, Vol. 9, Issue 24 https://doi.org/10.1002/admi.202200255	journal	July 2022
Extending DNA-Based Molecular Photonic Wires with Homogeneous Förster Resonance Energy Transfer Díaz, Sebastián A.; Buckhout-White, Susan; Ancona, Mario G. Advanced Optical Materials, Vol. 4, Issue 3 https://doi.org/10.1002/adom.201500554	journal	January 2016
Dendrimeric DNA Nanostructures as Scaffolds for Efficient Bidirectional BRET–FRET Cascades Brown, Carl W.; Samanta, Anirban; Díaz, Sebastián A. Advanced Optical Materials, Vol. 5, Issue 14 https://doi.org/10.1002/adom.201700181	journal	June 2017
Utilizing HomoFRET to Extend DNA‐Scaffolded Photonic Networks and Increase Light‐Harvesting Capability Klein, William P.; Díaz, Sebastián A.; Buckhout‐White, Susan Advanced Optical Materials, Vol. 6, Issue 1 https://doi.org/10.1002/adom.201700679	journal	October 2017
Utilizing the Organizational Power of DNA Scaffolds for New Nanophotonic Applications Bui, Hieu; Díaz, Sebastián A.; Fontana, Jake Advanced Optical Materials, Vol. 7, Issue 18 https://doi.org/10.1002/adom.201900562	journal	July 2019
Emission Manipulation by DNA Origami‐Assisted Plasmonic Nanoantennas Yeşilyurt, Ayşe Tuğça Mina; Huang, Jer‐Shing Advanced Optical Materials, Vol. 9, Issue 21 https://doi.org/10.1002/adom.202100848	journal	August 2021
Förster Resonance Energy Transfer in Linear DNA Multifluorophore Photonic Wires: Comparing Dual versus Split Rail Building Block Designs Cunningham, Paul D.; Spillmann, Christopher M.; Melinger, Joseph S. Advanced Optical Materials, Vol. 9, Issue 21 https://doi.org/10.1002/adom.202100884	journal	July 2021
Enhancement of Energy Transfer Efficiency with Structural Control of Multichromophore Light‐Harvesting Assembly Oh, Inhwan; Lee, Hosoowi; Kim, Tae Wu Advanced Science, Vol. 7, Issue 20 https://doi.org/10.1002/advs.202001623	journal	August 2020
Exciton Transport in Molecular Aggregates - From Natural Antennas to Synthetic Chromophore Systems Brixner, Tobias; Hildner, Richard; Köhler, Jürgen Advanced Energy Materials, Vol. 7, Issue 16 https://doi.org/10.1002/aenm.201700236	journal	July 2017
Zwischenmolekulare Energiewanderung und Fluoreszenz Förster, Th. Annalen der Physik, Vol. 437, Issue 1-2, p. 55-75 https://doi.org/10.1002/andp.19484370105	journal	January 1948
Oligofunctional DNA–Gold Nanoparticle Conjugates Niemeyer, Christof M.; Ceyhan, Bülent; Hazarika, Pompi Angewandte Chemie International Edition, Vol. 42, Issue 46 https://doi.org/10.1002/anie.200352744	journal	November 2003
Quantum Dots as Efficient Energy Acceptors in a Time‐Resolved Fluoroimmunoassay Hildebrandt, Niko; Charbonnière, Loïc J.; Beck, Michael Angewandte Chemie International Edition, Vol. 44, Issue 46 https://doi.org/10.1002/anie.200501552	journal	November 2005
Materials for Fluorescence Resonance Energy Transfer Analysis: Beyond Traditional Donor–Acceptor Combinations Sapsford, Kim E.; Berti, Lorenzo; Medintz, Igor L. Angewandte Chemie International Edition, Vol. 45, Issue 28 https://doi.org/10.1002/anie.200503873	journal	July 2006
Helical Arrangement of Interstrand Stacked Pyrenes in a DNA Framework Malinovskii, Vladimir L.; Samain, Florent; Häner, Robert Angewandte Chemie International Edition, Vol. 46, Issue 24 https://doi.org/10.1002/anie.200700891	journal	May 2007
White Luminescence from Multiple‐Dye‐Doped Electrospun DNA Nanofibers by Fluorescence Resonance Energy Transfer Ner, Yogesh; Grote, James G.; Stuart, Jeffrey A. Angewandte Chemie International Edition, Vol. 48, Issue 28 https://doi.org/10.1002/anie.200900885	journal	June 2009
Coherent Quenching of a Fluorophore for the Design of a Highly Sensitive In-Stem Molecular Beacon Hara, Yuichi; Fujii, Taiga; Kashida, Hiromu Angewandte Chemie International Edition, Vol. 49, Issue 32 https://doi.org/10.1002/anie.201001459	journal	July 2010
J-Aggregates: From Serendipitous Discovery to Supramolecular Engineering of Functional Dye Materials Würthner, Frank; Kaiser, Theo E.; Saha-Möller, Chantu R. Angewandte Chemie International Edition, Vol. 50, Issue 15 https://doi.org/10.1002/anie.201002307	journal	March 2011
Site‐Specific Assembly of DNA‐Based Photonic Wires by Using Programmable Polyamides Su, Wu; Schuster, Markus; Bagshaw, Clive R. Angewandte Chemie International Edition, Vol. 50, Issue 12 https://doi.org/10.1002/anie.201006735	journal	March 2011
A DNA-Based Light-Harvesting Antenna Garo, Florian; Häner, Robert Angewandte Chemie International Edition, Vol. 51, Issue 4 https://doi.org/10.1002/anie.201103295	journal	December 2011
DNA-Programmed Dynamic Assembly of Quantum Dots for Molecular Computation He, Xuewen; Li, Zhi; Chen, Muzi Angewandte Chemie International Edition, Vol. 53, Issue 52 https://doi.org/10.1002/anie.201408479	journal	October 2014
Integrating DNA Photonic Wires into Light-Harvesting Supramolecular Polymers Kownacki, Mariusz; Langenegger, Simon M.; Liu, Shi-Xia Angewandte Chemie International Edition, Vol. 58, Issue 3 https://doi.org/10.1002/anie.201809914	journal	November 2018
Efficient Light‐Harvesting Antennae Resulting from the Dense Organization of Dyes into DNA Junctions through d‐Threoninol Kashida, Hiromu; Azuma, Hidenori; Maruyama, Ryoko Angewandte Chemie International Edition, Vol. 59, Issue 28 https://doi.org/10.1002/anie.202004221	journal	May 2020
A Nanobody‐on‐Quantum Dot Displacement Assay for Rapid and Sensitive Quantification of the Epidermal Growth Factor Receptor (EGFR) Su, Ruifang; Wu, Yu‐Tang; Doulkeridou, Sofia Angewandte Chemie International Edition, Vol. 61, Issue 33 https://doi.org/10.1002/anie.202207797	journal	July 2022
Two‐Dimensional Excitonic Networks Directed by DNA Templates as an Efficient Model Light‐Harvesting and Energy Transfer System Zhou, Xu; Satyabola, Deeksha; Liu, Hao Angewandte Chemie International Edition, Vol. 61, Issue 51 https://doi.org/10.1002/anie.202211200	journal	November 2022
Hybridization-Sensitive On–Off DNA Probe: Application of the Exciton Coupling Effect to Effective Fluorescence Quenching Ikeda, Shuji; Okamoto, Akimitsu Chemistry – An Asian Journal, Vol. 3, Issue 6 https://doi.org/10.1002/asia.200800014	journal	June 2008
50 years of DNA ‘Breathing’: Reflections on old and new approaches [For special issue of biopolymers on 50 years of nucleic acids research] von Hippel, Peter H.; Johnson, Neil P.; Marcus, Andrew H. Biopolymers https://doi.org/10.1002/bip.22347	journal	July 2013
Advances in Quantitative FRET-Based Methods for Studying Nucleic Acids Preus, Søren; Wilhelmsson, L. Marcus ChemBioChem, Vol. 13, Issue 14 https://doi.org/10.1002/cbic.201200400	journal	August 2012
DNA-Assisted Self-Assembly of Pyrene Foldamers Häner, Robert; Samain, Florent; Malinovskii, Vladimir L. Chemistry - A European Journal, Vol. 15, Issue 23 https://doi.org/10.1002/chem.200900369	journal	June 2009
Analysis of Coherent Heteroclustering of Different Dyes by Use of Threoninol Nucleotides for Comparison with the Molecular Exciton Theory Fujii, Taiga; Kashida, Hiromu; Asanuma, Hiroyuki Chemistry - A European Journal, Vol. 15, Issue 39 https://doi.org/10.1002/chem.200900962	journal	October 2009
Design of Molecular Photonic Wires Based on Multistep Electronic Excitation Transfer Tinnefeld, Philip; Heilemann, Mike; Sauer, Markus ChemPhysChem, Vol. 6, Issue 2 https://doi.org/10.1002/cphc.200400513	journal	February 2005
DNA Tile Based Self-Assembly: Building Complex Nanoarchitectures Lin, Chenxiang; Liu, Yan; Rinker, Sherri ChemPhysChem, Vol. 7, Issue 8 https://doi.org/10.1002/cphc.200600260	journal	August 2006
Single‐Molecule FRET Ruler Based on Rigid DNA Origami Blocks Stein, Ingo H.; Schüller, Verena; Böhm, Philip ChemPhysChem, Vol. 12, Issue 3 https://doi.org/10.1002/cphc.201000781	journal	February 2011
Homo‐FRET Imaging as a Tool to Quantify Protein and Lipid Clustering Bader, Arjen N.; Hoetzl, Sandra; Hofman, Erik G. ChemPhysChem, Vol. 12, Issue 3 https://doi.org/10.1002/cphc.201000801	journal	December 2010
HomoFRET Fluorescence Anisotropy Imaging as a Tool to Study Molecular Self‐Assembly in Live Cells Chan, Fiona T. S.; Kaminski, Clemens F.; Kaminski Schierle, Gabriele S. ChemPhysChem, Vol. 12, Issue 3 https://doi.org/10.1002/cphc.201000833	journal	December 2010
FRET Imaging by k_t/k_f Roberti, M. Julia; Giordano, Luciana; Jovin, Thomas M. ChemPhysChem, Vol. 12, Issue 3 https://doi.org/10.1002/cphc.201000925	journal	January 2011
Artificial Molecular Photosynthetic Systems: Towards Efficient Photoelectrochemical Water Oxidation Yamamoto, Masanori; Tanaka, Koji ChemPlusChem, Vol. 81, Issue 10 https://doi.org/10.1002/cplu.201600236	journal	October 2016
A High‐Throughput Process for the Solid‐Phase Purification of Synthetic DNA Sequences Grajkowski, Andrzej; Cieślak, Jacek; Beaucage, Serge L. Current Protocols in Nucleic Acid Chemistry, Vol. 69, Issue 1 https://doi.org/10.1002/cpnc.31	journal	June 2017
Quantitative Analyses of Förster Resonance Energy Transfer between Identical Pyrene Chromophores (Homo‐FRET) In DNA Scaffolds. Kashida, Hiromu; Kawai, Hayato; Azuma, Hidenori ChemPhotoChem, Vol. 5, Issue 2 https://doi.org/10.1002/cptc.202000199	journal	September 2020
Oblique Packing and Tunable Excitonic Coupling in DNA‐Templated Squaraine Rotaxane Dimer Aggregates Barclay, Matthew S.; Wilson, Christopher K.; Roy, Simon K. ChemPhotoChem, Vol. 6, Issue 7 https://doi.org/10.1002/cptc.202200039	journal	May 2022
TOTO and YOYO: New very bright fluorochromes for DNA content analyses by flow cytometry Hirons, G. T.; Fawcett, J. J.; Crissman, H. A. Cytometry, Vol. 15, Issue 2 https://doi.org/10.1002/cyto.990150206	journal	February 1994
Dynamic conformational transitions of the EGF receptor in living mammalian cells determined by FRET and fluorescence lifetime imaging microscopy: EGFR Conformations Determined in Live Cells by FLIM Ziomkiewicz, Iwona; Loman, Anastasia; Klement, Reinhard Cytometry Part A, Vol. 83, Issue 9 https://doi.org/10.1002/cyto.a.22311	journal	July 2013
Development and testing of a general amber force field Wang, Junmei; Wolf, Romain M.; Caldwell, James W. Journal of Computational Chemistry, Vol. 25, Issue 9 https://doi.org/10.1002/jcc.20035	journal	January 2004
UCSF Chimera?A visualization system for exploratory research and analysis Pettersen, Eric F.; Goddard, Thomas D.; Huang, Conrad C. Journal of Computational Chemistry, Vol. 25, Issue 13 https://doi.org/10.1002/jcc.20084	journal	January 2004
GROMACS: Fast, flexible, and free Van Der Spoel, David; Lindahl, Erik; Hess, Berk Journal of Computational Chemistry, Vol. 26, Issue 16 https://doi.org/10.1002/jcc.20291	journal	January 2005
PEGylated Luminescent Gold Nanoclusters: Synthesis, Characterization, Bioconjugation, and Application to One‐ and Two‐Photon Cellular Imaging Oh, Eunkeu; Fatemi, Fredrik K.; Currie, Marc Particle & Particle Systems Characterization, Vol. 30, Issue 5 https://doi.org/10.1002/ppsc.201200140	journal	February 2013
Comparison of multiple Amber force fields and development of improved protein backbone parameters Hornak, Viktor; Abel, Robert; Okur, Asim Proteins: Structure, Function, and Bioinformatics, Vol. 65, Issue 3 https://doi.org/10.1002/prot.21123	journal	November 2006
Facile synthesis of peptide nucleic acids and peptide nucleic acid‐peptide conjugates on an automated peptide synthesizer Joshi, Rajendra; Jha, Deepti; Su, Wu Journal of Peptide Science, Vol. 17, Issue 1 https://doi.org/10.1002/psc.1305	journal	October 2010
Self-Assembled DNA-Based Fluorescence Waveguide with Selectable Output Hannestad, Jonas K.; Gerrard, Simon R.; Brown, Tom Small, Vol. 7, Issue 22 https://doi.org/10.1002/smll.201101144	journal	September 2011
Fluorescence in Nanobiotechnology: Sophisticated Fluorophores for Novel Applications Hötzer, Benjamin; Medintz, Igor L.; Hildebrandt, Niko Small, Vol. 8, Issue 15 https://doi.org/10.1002/smll.201200109	journal	June 2012
Construction of a Fuzzy and Boolean Logic Gates Based on DNA Zadegan, Reza M.; Jepsen, Mette D. E.; Hildebrandt, Lasse L. Small, Vol. 11, Issue 15 https://doi.org/10.1002/smll.201402755	journal	January 2015
Multiplexed Nucleic Acid Hybridization Assays Using Single‐FRET‐Pair Distance‐Tuning Qiu, Xue; Guo, Jiajia; Jin, Zongwen Small, Vol. 13, Issue 25 https://doi.org/10.1002/smll.201700332	journal	April 2017
Transducing Protease Activity into DNA Output for Developing Smart Bionanosensors Bui, Hieu; Brown, Carl W.; Buckhout‐White, Susan Small, Vol. 15, Issue 14 https://doi.org/10.1002/smll.201805384	journal	February 2019
DNA Origami Nanostructures Elicit Dose‐Dependent Immunogenicity and Are Nontoxic up to High Doses In Vivo Lucas, Christopher R.; Halley, Patrick D.; Chowdury, Amjad A. Small, Vol. 18, Issue 26 https://doi.org/10.1002/smll.202108063	journal	May 2022
Energy Transfer Cassettes for Facile Labeling of Sequencing and PCR Primers Berti, Lorenzo; Xie, Jin; Medintz, Igor L. Analytical Biochemistry, Vol. 292, Issue 2 https://doi.org/10.1006/abio.2001.5069	journal	May 2001
DNA-Based Machines Wang, Fuan; Willner, Bilha; Willner, Itamar Molecular Machines and Motors https://doi.org/10.1007/128_2013_515	book	January 2014
Principles of Fluorescence Spectroscopy Lakowicz, Joseph R. Springer New York, NY https://doi.org/10.1007/978-0-387-46312-4	book	January 2006
Polyhistidine-Tag-Enabled Conjugation of Quantum Dots and Enzymes to DNA Nanostructures Green, Christopher M.; Mathur, Divita; Susumu, Kimihiro Bioluminescence https://doi.org/10.1007/978-1-0716-2473-9_6	book	January 2022
Theory of Molecular Excitons Davydov, Aleksandr Sergeevich https://doi.org/10.1007/978-1-4899-5169-4	book	January 1971
Tiamat: A Three-Dimensional Editing Tool for Complex DNA Structures Williams, Sean; Lund, Kyle; Lin, Chenxiang DNA Computing https://doi.org/10.1007/978-3-642-03076-5_8	book	January 2009
DNA Assembly of Dye Aggregates—A Possible Path to Quantum Computing Yurke, Bernard Natural Computing Series https://doi.org/10.1007/978-981-19-9891-1_9	book	January 2023
Theory of excitons and solitons in molecular systems (Review) Davydov, A. S. Journal of Applied Spectroscopy, Vol. 33, Issue 4 https://doi.org/10.1007/BF00608372	journal	October 1980
Cyanine Dye–DNA Interactions: Intercalation, Groove Binding, and Aggregation Armitage, Bruce A. Topics in Current Chemistry https://doi.org/10.1007/b100442	book	January 2005
Fluorescent hybridization probes for nucleic acid detection Guo, Jia; Ju, Jingyue; Turro, Nicholas J. Analytical and Bioanalytical Chemistry, Vol. 402, Issue 10 https://doi.org/10.1007/s00216-011-5526-x	journal	November 2011
Aptamer and nanomaterial based FRET biosensors: a review on recent advances (2014–2019) Pehlivan, Zeki Semih; Torabfam, Milad; Kurt, Hasan Microchimica Acta, Vol. 186, Issue 8 https://doi.org/10.1007/s00604-019-3659-3	journal	July 2019
Improved peptidyl linkers for self-assembly of semiconductor quantum dot bioconjugates Berti, Lorenzo; D’Agostino, Paola Serena; Boeneman, Kelly Nano Research, Vol. 2, Issue 2 https://doi.org/10.1007/s12274-009-9008-9	journal	February 2009
Studies of polaron motion Holstein, T. Annals of Physics, Vol. 8, Issue 3 https://doi.org/10.1016/0003-4916(59)90002-8	journal	November 1959
Extended dipole model for aggregates of dye molecules Czikklely, V.; Forsterling, H. D.; Kuhn, H. Chemical Physics Letters, Vol. 6, Issue 3 https://doi.org/10.1016/0009-2614(70)80220-2	journal	August 1970
Nucleic acid junctions and lattices Seeman, Nadrian C. Journal of Theoretical Biology, Vol. 99, Issue 2 https://doi.org/10.1016/0022-5193(82)90002-9	journal	November 1982
Solid phase synthesis of directly linked PNA-DNA-hybrids Bergmann, F. Tetrahedron Letters, Vol. 36, Issue 38 https://doi.org/10.1016/00404-0399(50)14057-	journal	September 1995
The solution spectroscopy of drugs and the drug-nucleic acid interactions Porumb, Horea Progress in Biophysics and Molecular Biology, Vol. 34 https://doi.org/10.1016/0079-6107(79)90017-8	journal	January 1979
Theory of exciton-vibrational dynamics in molecular dimers Kühn, Oliver; Renger, Thomas; May, Volkhard Chemical Physics, Vol. 204, Issue 1 https://doi.org/10.1016/0301-0104(95)00448-3	journal	March 1996
Analyzing Förster Resonance Energy Transfer with Fluctuation Algorithms Felekyan, Suren; Sanabria, Hugo; Kalinin, Stanislav Methods in Enzymology https://doi.org/10.1016/B978-0-12-405539-1.00002-6	book	January 2013
The Molecular Exciton Model McRae, E. G.; Kasha, M. Physical Processes in Radiation Biology https://doi.org/10.1016/B978-1-4831-9824-8.50007-4	book	January 1964
Correcting Confocal Acquisition to Optimize Imaging of Fluorescence Resonance Energy Transfer by Sensitized Emission van Rheenen, Jacco; Langeslag, Michiel; Jalink, Kees Biophysical Journal, Vol. 86, Issue 4 https://doi.org/10.1016/S0006-3495(04)74307-6	journal	April 2004
Resonance energy transfer from a cylindrical distribution of donors to a plane of acceptors. Location of apo-B100 protein on the human low-density lipoprotein particle Bastiaens, P.; de Beus, A.; Lacker, M. Biophysical Journal, Vol. 58, Issue 3 https://doi.org/10.1016/S0006-3495(90)82409-7	journal	September 1990
Designing matrix models for fluorescence energy transfer between moving donors and acceptors van der Meer, B. W.; Raymer, M. A.; Wagoner, S. L. Biophysical Journal, Vol. 64, Issue 4 https://doi.org/10.1016/S0006-3495(93)81490-5	journal	April 1993
Deoxynucleoside phosphoramidites—A new class of key intermediates for deoxypolynucleotide synthesis Beaucage, S. L.; Caruthers, M. H. Tetrahedron Letters, Vol. 22, Issue 20, p. 1859-1862 https://doi.org/10.1016/S0040-4039(01)90461-7	journal	January 1981
Lineshapes of molecular aggregates, exchange narrowing and intersite correlation Knapp, E. W. Chemical Physics, Vol. 85, Issue 1 https://doi.org/10.1016/S0301-0104(84)85174-5	journal	March 1984
A novel generalized design methodology and realization of Boolean operations using DNA Zoraida, B. S. E.; Arock, Michael; Ronald, B. S. M. Biosystems, Vol. 97, Issue 3 https://doi.org/10.1016/j.biosystems.2009.05.010	journal	September 2009
Effective syntheses of 2′,4′-BNANC monomers bearing adenine, guanine, thymine, and 5-methylcytosine, and the properties of oligonucleotides fully modified with 2′,4′-BNANC Fujisaka, Aki; Hari, Yoshiyuki; Takuma, Hiroko Bioorganic & Medicinal Chemistry, Vol. 27, Issue 8 https://doi.org/10.1016/j.bmc.2019.02.034	journal	April 2019
Cy3 and Cy5 dyes attached to oligonucleotide terminus stabilize DNA duplexes: Predictive thermodynamic model Moreira, Bernardo G.; You, Yong; Owczarzy, Richard Biophysical Chemistry, Vol. 198 https://doi.org/10.1016/j.bpc.2015.01.001	journal	March 2015
Fretting about FRET: Failure of the Ideal Dipole Approximation Muñoz-Losa, Aurora; Curutchet, Carles; Krueger, Brent P. Biophysical Journal, Vol. 96, Issue 12 https://doi.org/10.1016/j.bpj.2009.03.052	journal	June 2009
Orientation of Cyanine Fluorophores Terminally Attached to DNA via Long, Flexible Tethers Ouellet, Jonathan; Schorr, Stephanie; Iqbal, Asif Biophysical Journal, Vol. 101, Issue 5 https://doi.org/10.1016/j.bpj.2011.07.007	journal	September 2011
Characterization of Dark Quencher Chromophores as Nonfluorescent Acceptors for Single-Molecule FRET Le Reste, Ludovic; Hohlbein, Johannes; Gryte, Kristofer Biophysical Journal, Vol. 102, Issue 11 https://doi.org/10.1016/j.bpj.2012.04.028	journal	June 2012
Crystal Structures of Cyanine Fluorophores Stacked onto the End of Double-Stranded RNA Liu, Yijin; Lilley, David M. J. Biophysical Journal, Vol. 113, Issue 11 https://doi.org/10.1016/j.bpj.2017.10.002	journal	December 2017
Functionalized DNA nanostructures for light harvesting and charge separation Albinsson, Bo; Hannestad, Jonas K.; Börjesson, Karl Coordination Chemistry Reviews, Vol. 256, Issue 21-22 https://doi.org/10.1016/j.ccr.2012.02.024	journal	November 2012
Emerging non-traditional Förster resonance energy transfer configurations with semiconductor quantum dots: Investigations and applications Algar, W. Russ; Kim, Hyungki; Medintz, Igor L. Coordination Chemistry Reviews, Vol. 263-264 https://doi.org/10.1016/j.ccr.2013.07.015	journal	March 2014
Recent progress in the bioconjugation of quantum dots Blanco-Canosa, Juan B.; Wu, Miao; Susumu, Kimihiro Coordination Chemistry Reviews, Vol. 263-264 https://doi.org/10.1016/j.ccr.2013.08.030	journal	March 2014
Extracting single and two-exciton couplings in photosynthetic complexes by coherent two-dimensional electronic spectra Abramavicius, Darius; Palmieri, Benoit; Mukamel, Shaul Chemical Physics, Vol. 357, Issue 1-3 https://doi.org/10.1016/j.chemphys.2008.10.010	journal	February 2009
Exciton quantum dynamics in the molecular logic gates for quantum computing Yonetani, Yoshiteru Chemical Physics, Vol. 570 https://doi.org/10.1016/j.chemphys.2023.111860	journal	June 2023
Engineering couplings for exciton transport using synthetic DNA scaffolds Hart, Stephanie M.; Chen, Wei Jia; Banal, James L. Chem, Vol. 7, Issue 3 https://doi.org/10.1016/j.chempr.2020.12.020	journal	March 2021
DNA-templated programmable excitonic wires for micron-scale exciton transport Zhou, Xu; Liu, Hao; Djutanta, Franky Chem, Vol. 8, Issue 9 https://doi.org/10.1016/j.chempr.2022.05.017	journal	September 2022
J-aggregation of cyanine dyes by self-assembly Steiger, Rolf; Pugin, Raphaël; Heier, Jakob Colloids and Surfaces B: Biointerfaces, Vol. 74, Issue 2 https://doi.org/10.1016/j.colsurfb.2009.08.020	journal	December 2009
Recent progress on DNA based walkers Pan, Jing; Li, Feiran; Cha, Tae-Gon Current Opinion in Biotechnology, Vol. 34 https://doi.org/10.1016/j.copbio.2014.11.017	journal	August 2015
Accelerating fluorescence resonance energy transfer with plasmonic nanoresonators Faessler, V.; Hrelescu, C.; Lutich, A. A. Chemical Physics Letters, Vol. 508, Issue 1-3 https://doi.org/10.1016/j.cplett.2011.03.088	journal	May 2011
In silico modelling of DNA nanostructures Kekic, Tadija; Barisic, Ivan Computational and Structural Biotechnology Journal, Vol. 18 https://doi.org/10.1016/j.csbj.2020.05.016	journal	January 2020
Peptide nucleic acids: Advanced tools for biomedical applications Gupta, Anjali; Mishra, Anuradha; Puri, Nidhi Journal of Biotechnology, Vol. 259 https://doi.org/10.1016/j.jbiotec.2017.07.026	journal	October 2017
Insights into nucleic acid-based self-assembling nanocarriers for targeted drug delivery and controlled drug release Chen, Keren; Zhang, Yangzi; Zhu, Longjiao Journal of Controlled Release, Vol. 341 https://doi.org/10.1016/j.jconrel.2021.12.020	journal	January 2022
Coherent interactions of dyes assembled on DNA Asanuma, Hiroyuki; Fujii, Taiga; Kato, Tomohiro Journal of Photochemistry and Photobiology C: Photochemistry Reviews, Vol. 13, Issue 2 https://doi.org/10.1016/j.jphotochemrev.2012.04.002	journal	June 2012
Use of biomolecular scaffolds for assembling multistep light harvesting and energy transfer devices Spillmann, Christopher M.; Medintz, Igor L. Journal of Photochemistry and Photobiology C: Photochemistry Reviews, Vol. 23 https://doi.org/10.1016/j.jphotochemrev.2014.12.002	journal	June 2015
Three-dimensional molecular modeling with single molecule FRET Brunger, Axel T.; Strop, Pavel; Vrljic, Marija Journal of Structural Biology, Vol. 173, Issue 3 https://doi.org/10.1016/j.jsb.2010.09.004	journal	March 2011
DNA-directed self-assembly and optical properties of discrete 1D, 2D and 3D plasmonic structures Barrow, Steven J.; Funston, Alison M.; Wei, Xingzhan Nano Today, Vol. 8, Issue 2 https://doi.org/10.1016/j.nantod.2013.02.005	journal	April 2013
Quantitative FRET studies and integrative modeling unravel the structure and dynamics of biomolecular systems Dimura, Mykola; Peulen, Thomas O.; Hanke, Christian A. Current Opinion in Structural Biology, Vol. 40 https://doi.org/10.1016/j.sbi.2016.11.012	journal	October 2016
A review of DNA functionalized/grafted carbon nanotubes and their characterization Daniel, Sobhi; Rao, Talasila Prasada; Rao, Kota Sreenivasa Sensors and Actuators B: Chemical, Vol. 122, Issue 2 https://doi.org/10.1016/j.snb.2006.06.014	journal	March 2007
Advances in oligonucleotide-based detection coupled with fluorescence resonance energy transfer Rao Singuru, Murali Mohana; Sun, Sin-Cih; Chuang, Min-Chieh TrAC Trends in Analytical Chemistry, Vol. 123 https://doi.org/10.1016/j.trac.2019.115756	journal	February 2020
Quantum dots for Förster Resonance Energy Transfer (FRET) Cardoso Dos Santos, Marcelina; Algar, W. Russ; Medintz, Igor L. TrAC Trends in Analytical Chemistry, Vol. 125 https://doi.org/10.1016/j.trac.2020.115819	journal	April 2020
Assessment of Fluorescence Resonance Energy Transfer for Two-Color DNA Microarray Platforms Zhu, Jiang; Lu, Ying; Deng, Cheng Analytical Chemistry, Vol. 82, Issue 12 https://doi.org/10.1021/ac100804p	journal	May 2010
Analyzing Nanomaterial Bioconjugates: A Review of Current and Emerging Purification and Characterization Techniques Sapsford, Kim E.; Tyner, Katherine M.; Dair, Benita J. Analytical Chemistry, Vol. 83, Issue 12 https://doi.org/10.1021/ac200853a	journal	June 2011
Multiplexed Tracking of Protease Activity Using a Single Color of Quantum Dot Vector and a Time-Gated Förster Resonance Energy Transfer Relay Algar, W. Russ; Malanoski, Anthony P.; Susumu, Kimihiro Analytical Chemistry, Vol. 84, Issue 22 https://doi.org/10.1021/ac3028068	journal	November 2012
Excitons and Polarons in Organic Materials Ghosh, Raja; Spano, Frank C. Accounts of Chemical Research, Vol. 53, Issue 10 https://doi.org/10.1021/acs.accounts.0c00349	journal	October 2020
Multiplexed Biosensing and Bioimaging Using Lanthanide-Based Time-Gated Förster Resonance Energy Transfer Qiu, Xue; Xu, Jingyue; Cardoso Dos Santos, Marcelina Accounts of Chemical Research, Vol. 55, Issue 4 https://doi.org/10.1021/acs.accounts.1c00691	journal	January 2022
Engineering Exciton Dynamics with Synthetic DNA Scaffolds Hart, Stephanie M.; Gorman, Jeffrey; Bathe, Mark Accounts of Chemical Research, Vol. 56, Issue 15 https://doi.org/10.1021/acs.accounts.3c00086	journal	June 2023
Molecular Aggregate Photophysics beyond the Kasha Model: Novel Design Principles for Organic Materials Hestand, Nicholas J.; Spano, Frank C. Accounts of Chemical Research, Vol. 50, Issue 2 https://doi.org/10.1021/acs.accounts.6b00576	journal	January 2017
Nanoarchitectonics with Porphyrin Functionalized DNA Stulz, Eugen Accounts of Chemical Research, Vol. 50, Issue 4 https://doi.org/10.1021/acs.accounts.6b00583	journal	March 2017
Enzymatic Synthesis of Base-Functionalized Nucleic Acids for Sensing, Cross-linking, and Modulation of Protein–DNA Binding and Transcription Hocek, Michal Accounts of Chemical Research, Vol. 52, Issue 6 https://doi.org/10.1021/acs.accounts.9b00195	journal	June 2019
In Situ Rolling Circle Amplification Förster Resonance Energy Transfer (RCA-FRET) for Washing-Free Real-Time Single-Protein Imaging Francés-Soriano, Laura; Leino, Mattias; Cardoso Dos Santos, Marcelina Analytical Chemistry, Vol. 93, Issue 3 https://doi.org/10.1021/acs.analchem.0c04828	journal	December 2020
Fluorescent Aptasensors: Design Strategies and Applications in Analyzing Chemical Contamination of Food Li, Ying; Su, Ruifang; Li, Hongxia Analytical Chemistry, Vol. 94, Issue 1 https://doi.org/10.1021/acs.analchem.1c04294	journal	November 2021
Analyzing DNA Nanotechnology: A Call to Arms For The Analytical Chemistry Community Mathur, Divita; Medintz, Igor L. Analytical Chemistry, Vol. 89, Issue 5 https://doi.org/10.1021/acs.analchem.6b04033	journal	February 2017
DNA Nanostructures as Programmable Biomolecular Scaffolds Yang, Yuhe R.; Liu, Yan; Yan, Hao Bioconjugate Chemistry, Vol. 26, Issue 8 https://doi.org/10.1021/acs.bioconjchem.5b00194	journal	May 2015
Supramolecular Assembly of DNA-Phenanthrene Conjugates into Vesicles with Light-Harvesting Properties Bösch, Caroline D.; Jevric, Jovana; Bürki, Nutcha Bioconjugate Chemistry, Vol. 29, Issue 5 https://doi.org/10.1021/acs.bioconjchem.8b00263	journal	April 2018
Directed Energy Transfer through DNA-Templated J-Aggregates Mandal, Sarthak; Zhou, Xu; Lin, Su Bioconjugate Chemistry, Vol. 30, Issue 7 https://doi.org/10.1021/acs.bioconjchem.9b00043	journal	April 2019
Chemoenzymatic Sensitization of DNA Photonic Wires Mediated through Quantum Dot Energy Transfer Relays Dwyer, Chris L.; Díaz, Sebastián A.; Walper, Scott A. Chemistry of Materials, Vol. 27, Issue 19 https://doi.org/10.1021/acs.chemmater.5b02870	journal	September 2015
Quantum Dot Encapsulation Using a Peptide-Modified Tetrahedral DNA Cage Mathur, Divita; Samanta, Anirban; Oh, Eunkeu Chemistry of Materials, Vol. 29, Issue 14 https://doi.org/10.1021/acs.chemmater.7b00108	journal	July 2017
Photoluminescent Nanoparticles for Chemical and Biological Analysis and Imaging Algar, W. Russ; Massey, Melissa; Rees, Kelly Chemical Reviews, Vol. 121, Issue 15 https://doi.org/10.1021/acs.chemrev.0c01176	journal	July 2021
Light Absorption and Energy Transfer in the Antenna Complexes of Photosynthetic Organisms Mirkovic, Tihana; Ostroumov, Evgeny E.; Anna, Jessica M. Chemical Reviews, Vol. 117, Issue 2 https://doi.org/10.1021/acs.chemrev.6b00002	journal	March 2016
Energy Transfer with Semiconductor Quantum Dot Bioconjugates: A Versatile Platform for Biosensing, Energy Harvesting, and Other Developing Applications Hildebrandt, Niko; Spillmann, Christopher M.; Algar, W. Russ Chemical Reviews, Vol. 117, Issue 2 https://doi.org/10.1021/acs.chemrev.6b00030	journal	March 2016
Organic Optoelectronic Materials: Mechanisms and Applications Ostroverkhova, Oksana Chemical Reviews, Vol. 116, Issue 22 https://doi.org/10.1021/acs.chemrev.6b00127	journal	October 2016
DNA Origami: Scaffolds for Creating Higher Order Structures Hong, Fan; Zhang, Fei; Liu, Yan Chemical Reviews, Vol. 117, Issue 20 https://doi.org/10.1021/acs.chemrev.6b00825	journal	June 2017
Expanded Theory of H- and J-Molecular Aggregates: The Effects of Vibronic Coupling and Intermolecular Charge Transfer Hestand, Nicholas J.; Spano, Frank C. Chemical Reviews, Vol. 118, Issue 15 https://doi.org/10.1021/acs.chemrev.7b00581	journal	April 2018
Chemistries for DNA Nanotechnology Madsen, Mikael; Gothelf, Kurt V. Chemical Reviews https://doi.org/10.1021/acs.chemrev.8b00570	journal	February 2019
Principles and Applications of Nucleic Acid Strand Displacement Reactions Simmel, Friedrich C.; Yurke, Bernard; Singh, Hari R. Chemical Reviews, Vol. 119, Issue 10 https://doi.org/10.1021/acs.chemrev.8b00580	journal	February 2019
Excited-State Dipole and Quadrupole Moments: TD-DFT versus CC2 Jacquemin, Denis Journal of Chemical Theory and Computation, Vol. 12, Issue 8 https://doi.org/10.1021/acs.jctc.6b00498	journal	July 2016
Reversible Electronic Energy Transfer (Homo-FRET) in Cyclic Molecular and Supramolecular Systems: Fluorescence Anisotropy Decays for the Isotropic Interaction Cardoso, Sofia; Berberan-Santos, Mario N. The Journal of Physical Chemistry A, Vol. 125, Issue 38 https://doi.org/10.1021/acs.jpca.1c04975	journal	July 2021
Understanding Disorder, Vibronic Structure, and Delocalization in Electronically Coupled Dimers on DNA Duplexes Rolczynski, Brian S.; Díaz, Sebastián A.; Kim, Young C. The Journal of Physical Chemistry A, Vol. 125, Issue 44 https://doi.org/10.1021/acs.jpca.1c07205	journal	October 2021
Intramolecular Charge Transfer and Ultrafast Nonradiative Decay in DNA-Tethered Asymmetric Nitro- and Dimethylamino-Substituted Squaraines Wright, Nicholas D.; Huff, Jonathan S.; Barclay, Matthew S. The Journal of Physical Chemistry A, Vol. 127, Issue 5 https://doi.org/10.1021/acs.jpca.2c06442	journal	January 2023
Proximity-Induced H-Aggregation of Cyanine Dyes on DNA-Duplexes Nicoli, Francesca; Roos, Matthias K.; Hemmig, Elisa A. The Journal of Physical Chemistry A, Vol. 120, Issue 50 https://doi.org/10.1021/acs.jpca.6b10939	journal	December 2016
Coherent Exciton Delocalization in a Two-State DNA-Templated Dye Aggregate System Cannon, Brittany L.; Kellis, Donald L.; Patten, Lance K. The Journal of Physical Chemistry A, Vol. 121, Issue 37 https://doi.org/10.1021/acs.jpca.7b04344	journal	September 2017
Large Davydov Splitting and Strong Fluorescence Suppression: An Investigation of Exciton Delocalization in DNA-Templated Holliday Junction Dye Aggregates Cannon, Brittany L.; Patten, Lance K.; Kellis, Donald L. The Journal of Physical Chemistry A, Vol. 122, Issue 8 https://doi.org/10.1021/acs.jpca.7b12668	journal	February 2018
Exciton Delocalization in Indolenine Squaraine Aggregates Templated by DNA Holliday Junction Scaffolds Mass, Olga A.; Wilson, Christopher K.; Roy, Simon K. The Journal of Physical Chemistry B, Vol. 124, Issue 43 https://doi.org/10.1021/acs.jpcb.0c06480	journal	October 2020
Delocalized Two-Exciton States in DNA Scaffolded Cyanine Dimers Cunningham, Paul D.; Díaz, Sebastián A.; Yurke, Bernard The Journal of Physical Chemistry B, Vol. 124, Issue 37 https://doi.org/10.1021/acs.jpcb.0c06732	journal	July 2020
Controlled Fluorescence Enhancement of DNA-Binding Dye Through Chain Length Match between Oligoguanine and TOTO Fu, Fangjia; Liao, Kang; Liu, Ziteng The Journal of Physical Chemistry B, Vol. 125, Issue 2 https://doi.org/10.1021/acs.jpcb.0c09611	journal	January 2021
Excited-State Lifetimes of DNA-Templated Cyanine Dimer, Trimer, and Tetramer Aggregates: The Role of Exciton Delocalization, Dye Separation, and DNA Heterogeneity Huff, Jonathan S.; Turner, Daniel B.; Mass, Olga A. The Journal of Physical Chemistry B, Vol. 125, Issue 36 https://doi.org/10.1021/acs.jpcb.1c04517	journal	September 2021
Exciton Delocalization and Scaffold Stability in Bridged Nucleotide-Substituted, DNA Duplex-Templated Cyanine Aggregates Roy, Simon K.; Mass, Olga A.; Kellis, Donald L. The Journal of Physical Chemistry B, Vol. 125, Issue 50 https://doi.org/10.1021/acs.jpcb.1c07602	journal	December 2021
Understanding Self-Assembled Pseudoisocyanine Dye Aggregates in DNA Nanostructures and Their Exciton Relay Transfer Capabilities Chiriboga, Matthew; Diaz, Sebastian A.; Mathur, Divita The Journal of Physical Chemistry B, Vol. 126, Issue 1 https://doi.org/10.1021/acs.jpcb.1c09048	journal	December 2021
Fluorescence and Energy Transfer in Dye-Labeled DNA Crystals Melinger, Joseph S.; Sha, Ruojie; Mao, Chengde The Journal of Physical Chemistry B, Vol. 120, Issue 48 https://doi.org/10.1021/acs.jpcb.6b09385	journal	November 2016
Optical Properties of Vibronically Coupled Cy3 Dimers on DNA Scaffolds Cunningham, Paul D.; Kim, Young C.; Díaz, Sebastián A. The Journal of Physical Chemistry B, Vol. 122, Issue 19 https://doi.org/10.1021/acs.jpcb.8b02134	journal	April 2018
Enhancement and Suppression of Resonance Energy Transfer Near Metal Nanoparticles Jeong, Yeonjun; Schatz, George C. The Journal of Physical Chemistry C, Vol. 124, Issue 37 https://doi.org/10.1021/acs.jpcc.0c05937	journal	August 2020
Can a DNA Origami Structure Constrain the Position and Orientation of an Attached Dye Molecule? Mathur, Divita; Kim, Young C.; Díaz, Sebastián A. The Journal of Physical Chemistry C, Vol. 125, Issue 2 https://doi.org/10.1021/acs.jpcc.0c09258	journal	December 2020
DNA Origami-Enabled Plasmonic Sensing Dass, Mihir; Gür, Fatih N.; Kołątaj, Karol The Journal of Physical Chemistry C, Vol. 125, Issue 11 https://doi.org/10.1021/acs.jpcc.0c11238	journal	February 2021
Influence of Hydrophobicity on Excitonic Coupling in DNA-Templated Indolenine Squaraine Dye Aggregates Mass, Olga A.; Wilson, Christopher K.; Barcenas, German The Journal of Physical Chemistry C, Vol. 126, Issue 7 https://doi.org/10.1021/acs.jpcc.1c08981	journal	February 2022
Tunable Electronic Structure via DNA-Templated Heteroaggregates of Two Distinct Cyanine Dyes Huff, Jonathan S.; Díaz, Sebastián A.; Barclay, Matthew S. The Journal of Physical Chemistry C, Vol. 126, Issue 40 https://doi.org/10.1021/acs.jpcc.2c04336	journal	September 2022
Expanded Quantum Dot-Based Concentric Förster Resonance Energy Transfer: Adding and Characterizing Energy-Transfer Pathways for Triply Multiplexed Biosensing Massey, Melissa; Kim, Hyungki; Conroy, Erin M. The Journal of Physical Chemistry C, Vol. 121, Issue 24 https://doi.org/10.1021/acs.jpcc.7b02739	journal	May 2017
Lifting the Spectral Crosstalk in Multifluorophore Assemblies Moroz, Pavel; Klein, William P.; Akers, Kiernan The Journal of Physical Chemistry C, Vol. 121, Issue 47 https://doi.org/10.1021/acs.jpcc.7b09396	journal	November 2017
Tuning Optical Absorption and Emission Using Strongly Coupled Dimers in Programmable DNA Scaffolds Hart, Stephanie M.; Wang, Xiao; Guo, Jiajia The Journal of Physical Chemistry Letters, Vol. 13, Issue 7 https://doi.org/10.1021/acs.jpclett.1c03848	journal	February 2022
Characterizing Mode Anharmonicity and Huang–Rhys Factors Using Models of Femtosecond Coherence Spectra Barclay, Matthew S.; Huff, Jonathan S.; Pensack, Ryan D. The Journal of Physical Chemistry Letters, Vol. 13, Issue 24 https://doi.org/10.1021/acs.jpclett.1c04162	journal	June 2022
Tuning between Quenching and Energy Transfer in DNA-Templated Heterodimer Aggregates Chowdhury, Azhad U.; Díaz, Sebastián A.; Huff, Jonathan S. The Journal of Physical Chemistry Letters, Vol. 13, Issue 12 https://doi.org/10.1021/acs.jpclett.2c00017	journal	March 2022
Exciton Chirality Inversion in Dye Dimers Templated by DNA Holliday Junction Mass, Olga A.; Basu, Shibani; Patten, Lance K. The Journal of Physical Chemistry Letters, Vol. 13, Issue 46 https://doi.org/10.1021/acs.jpclett.2c02721	journal	November 2022
Bridging Lanthanide to Quantum Dot Energy Transfer with a Short-Lifetime Organic Dye Díaz, Sebastián A.; Lasarte Aragonés, Guillermo; Buckhout-White, Susan The Journal of Physical Chemistry Letters, Vol. 8, Issue 10 https://doi.org/10.1021/acs.jpclett.7b00584	journal	May 2017
Photophysics of J-Aggregate-Mediated Energy Transfer on DNA Banal, James L.; Kondo, Toru; Veneziano, Rémi The Journal of Physical Chemistry Letters, Vol. 8, Issue 23 https://doi.org/10.1021/acs.jpclett.7b01898	journal	November 2017
Increased Transfer Efficiency from Molecular Photonic Wires on Solid Substrates and Cryogenic Conditions Díaz, Sebastián A.; Oliver, Sean M.; Hastman, David A. The Journal of Physical Chemistry Letters, Vol. 9, Issue 13 https://doi.org/10.1021/acs.jpclett.8b00931	journal	June 2018
Three-Dimensional FRET Multiplexing for DNA Quantification with Attomolar Detection Limits Qiu, Xue; Guo, Jiajia; Xu, Jingyue The Journal of Physical Chemistry Letters, Vol. 9, Issue 15 https://doi.org/10.1021/acs.jpclett.8b01944	journal	July 2018
DNA-Templated Aggregates of Strongly Coupled Cyanine Dyes: Nonradiative Decay Governs Exciton Lifetimes Huff, Jonathan S.; Davis, Paul H.; Christy, Allison The Journal of Physical Chemistry Letters, Vol. 10, Issue 10 https://doi.org/10.1021/acs.jpclett.9b00404	journal	April 2019
Encoding Multiple Virtual Signals in DNA Barcodes with Single-Molecule FRET Kim, Sung Hyun; Kim, Hyunwoo; Jeong, Hawoong Nano Letters, Vol. 21, Issue 4 https://doi.org/10.1021/acs.nanolett.0c04502	journal	February 2021
DNA Origami Voltage Sensors for Transmembrane Potentials with Single-Molecule Sensitivity Ochmann, Sarah E.; Joshi, Himanshu; Büber, Ece Nano Letters, Vol. 21, Issue 20 https://doi.org/10.1021/acs.nanolett.1c02584	journal	October 2021
Determining the Cytosolic Stability of Small DNA Nanostructures In Cellula Mathur, Divita; Rogers, Katherine E.; Díaz, Sebastián A. Nano Letters, Vol. 22, Issue 12 https://doi.org/10.1021/acs.nanolett.2c00917	journal	May 2022
Programming Light-Harvesting Efficiency Using DNA Origami Hemmig, Elisa A.; Creatore, Celestino; Wünsch, Bettina Nano Letters, Vol. 16, Issue 4 https://doi.org/10.1021/acs.nanolett.5b05139	journal	March 2016
Plasmonic Nanoantennas Enable Forbidden Förster Dipole–Dipole Energy Transfer and Enhance the FRET Efficiency de Torres, Juan; Mivelle, Mathieu; Moparthi, Satish Babu Nano Letters, Vol. 16, Issue 10 https://doi.org/10.1021/acs.nanolett.6b02470	journal	September 2016
A DNA Walker as a Fluorescence Signal Amplifier Wang, Dongfang; Vietz, Carolin; Schröder, Tim Nano Letters, Vol. 17, Issue 9 https://doi.org/10.1021/acs.nanolett.7b01829	journal	August 2017
Fast, Background-Free DNA-PAINT Imaging Using FRET-Based Probes Auer, Alexander; Strauss, Maximilian T.; Schlichthaerle, Thomas Nano Letters, Vol. 17, Issue 10 https://doi.org/10.1021/acs.nanolett.7b03425	journal	September 2017
Rapid Visual Authentication Based on DNA Strand Displacement Berk, Kimberly L.; Blum, Steven M.; Funk, Vanessa L. ACS Applied Materials & Interfaces, Vol. 13, Issue 16 https://doi.org/10.1021/acsami.1c02429	journal	April 2021
DNA Origami-Based Förster Resonance Energy-Transfer Nanoarrays and Their Application as Ratiometric Sensors Choi, Youngeun; Kotthoff, Lisa; Olejko, Lydia ACS Applied Materials & Interfaces, Vol. 10, Issue 27 https://doi.org/10.1021/acsami.8b03585	journal	June 2018
DNA Origami Chromophore Scaffold Exploiting HomoFRET Energy Transport to Create Molecular Photonic Wires Klein, William P.; Rolczynski, Brian S.; Oliver, Sean M. ACS Applied Nano Materials, Vol. 3, Issue 4 https://doi.org/10.1021/acsanm.0c00038	journal	March 2020
DNA Photonic Nanowires for Homogeneous Entropy-Driven Biomolecular Assay of Thrombin Cao, Li Ping; Wang, Yao; Bai, Yan ACS Applied Nano Materials, Vol. 4, Issue 3 https://doi.org/10.1021/acsanm.0c03474	journal	March 2021
Exploiting Plasmon-Mediated Energy Transfer To Enhance End-to-End Efficiency in a DNA Origami Energy Transfer Array Anderson, Nathaniel T.; Ren, Shaokang; Chao, Jie ACS Applied Nano Materials, Vol. 2, Issue 9 https://doi.org/10.1021/acsanm.9b01137	journal	September 2019
Dendrimeric DNA-Based Nanoscaffolded BRET-FRET Optical Encryption Keys Klein, William P.; Díaz, Sebastián A.; Chiriboga, Matthew ACS Applied Nano Materials, Vol. 2, Issue 12 https://doi.org/10.1021/acsanm.9b01851	journal	November 2019
Asymmetric Copper-Catalyzed Azide–Alkyne Cycloadditions Brittain, William D. G.; Buckley, Benjamin R.; Fossey, John S. ACS Catalysis, Vol. 6, Issue 6 https://doi.org/10.1021/acscatal.6b00996	journal	May 2016
Determining the In-Plane Orientation and Binding Mode of Single Fluorescent Dyes in DNA Origami Structures Hübner, Kristina; Joshi, Himanshu; Aksimentiev, Aleksei ACS Nano, Vol. 15, Issue 3 https://doi.org/10.1021/acsnano.0c10259	journal	March 2021
A Single Molecule Polyphenylene-Vinylene Photonic Wire Madsen, Mikael; Bakke, Mette R.; Gudnason, Daniel A. ACS Nano, Vol. 15, Issue 6 https://doi.org/10.1021/acsnano.0c10922	journal	May 2021
Direct and Efficient Conjugation of Quantum Dots to DNA Nanostructures with Peptide-PNA Green, Christopher M.; Hastman, David A.; Mathur, Divita ACS Nano, Vol. 15, Issue 5 https://doi.org/10.1021/acsnano.1c02296	journal	May 2021
Understanding Förster Resonance Energy Transfer in the Sheet Regime with DNA Brick-Based Dye Networks Mathur, Divita; Samanta, Anirban; Ancona, Mario G. ACS Nano, Vol. 15, Issue 10 https://doi.org/10.1021/acsnano.1c05871	journal	October 2021
Exciton Delocalization in a DNA-Templated Organic Semiconductor Dimer Assembly Wang, Xiao; Sha, Ruojie; Knowlton, William B. ACS Nano, Vol. 16, Issue 1 https://doi.org/10.1021/acsnano.1c09143	journal	January 2022
DNA Self-Assembly of Single Molecules with Deterministic Position and Orientation Adamczyk, Aleksandra K.; Huijben, Teun A. P. M.; Sison, Miguel ACS Nano, Vol. 16, Issue 10 https://doi.org/10.1021/acsnano.2c06936	journal	September 2022
Quantum Dot-Based Molecular Beacons for Quantitative Detection of Nucleic Acids with CRISPR/Cas(N) Nucleases Green, Christopher M.; Spangler, Joseph; Susumu, Kimihiro ACS Nano, Vol. 16, Issue 12 https://doi.org/10.1021/acsnano.2c07749	journal	November 2022
Self-Assembled Resonance Energy Transfer Keys for Secure Communication over Classical Channels Nellore, Vishwa; Xi, Sam; Dwyer, Chris ACS Nano, Vol. 9, Issue 12 https://doi.org/10.1021/acsnano.5b04066	journal	October 2015
Programmed Switching of Single Polymer Conformation on DNA Origami Krissanaprasit, Abhichart; Madsen, Mikael; Knudsen, Jakob Bach ACS Nano, Vol. 10, Issue 2 https://doi.org/10.1021/acsnano.5b06894	journal	January 2016
Dynamic DNA Origami Device for Measuring Compressive Depletion Forces Hudoba, Michael W.; Luo, Yi; Zacharias, Angelita ACS Nano, Vol. 11, Issue 7 https://doi.org/10.1021/acsnano.6b07097	journal	June 2017
DNA Bipedal Motor Achieves a Large Number of Steps Due to Operation Using Microfluidics-Based Interface Tomov, Toma E.; Tsukanov, Roman; Glick, Yair ACS Nano, Vol. 11, Issue 4 https://doi.org/10.1021/acsnano.7b00547	journal	April 2017
Directional Photonic Wire Mediated by Homo-Förster Resonance Energy Transfer on a DNA Origami Platform Nicoli, Francesca; Barth, Anders; Bae, Wooli ACS Nano, Vol. 11, Issue 11 https://doi.org/10.1021/acsnano.7b05631	journal	September 2017
Multifluorophore DNA Origami Beacon as a Biosensing Platform Selnihhin, Denis; Sparvath, Steffen Møller; Preus, Søren ACS Nano, Vol. 12, Issue 6 https://doi.org/10.1021/acsnano.8b01510	journal	May 2018
Necessary Experimental Conditions for Single-Shot Diffraction Imaging of DNA-Based Structures with X-ray Free-Electron Lasers Sun, Zhibin; Fan, Jiadong; Li, Haoyuan ACS Nano, Vol. 12, Issue 8 https://doi.org/10.1021/acsnano.8b01838	journal	July 2018
Circular Dichroism of Chiral Molecules in DNA-Assembled Plasmonic Hotspots Kneer, Luisa M.; Roller, Eva-Maria; Besteiro, Lucas V. ACS Nano, Vol. 12, Issue 9 https://doi.org/10.1021/acsnano.8b03146	journal	August 2018
An All-Optical Excitonic Switch Operated in the Liquid and Solid Phases Kellis, Donald L.; Sarter, Christopher; Cannon, Brittany L. ACS Nano, Vol. 13, Issue 3 https://doi.org/10.1021/acsnano.8b07504	journal	February 2019
Custom-Size, Functional, and Durable DNA Origami with Design-Specific Scaffolds Engelhardt, Floris A. S.; Praetorius, Florian; Wachauf, Christian H. ACS Nano, Vol. 13, Issue 5 https://doi.org/10.1021/acsnano.9b01025	journal	April 2019
Construction of Tetrahedral DNA-Quantum Dot Nanostructure with the Integration of Multistep Förster Resonance Energy Transfer for Multiplex Enzymes Assay Hu, Juan; Liu, Ming-hao; Zhang, Chun-yang ACS Nano, Vol. 13, Issue 6 https://doi.org/10.1021/acsnano.9b02679	journal	June 2019
Synthesis of Substituted Cy5 Phosphoramidite Derivatives and Their Incorporation into Oligonucleotides Using Automated DNA Synthesis Meares, Adam; Susumu, Kimihiro; Mathur, Divita ACS Omega, Vol. 7, Issue 13 https://doi.org/10.1021/acsomega.1c06921	journal	March 2022
Time-Gated DNA Photonic Wires with Förster Resonance Energy Transfer Cascades Initiated by a Luminescent Terbium Donor Massey, Melissa; Ancona, Mario G.; Medintz, Igor L. ACS Photonics, Vol. 2, Issue 5 https://doi.org/10.1021/acsphotonics.5b00052	journal	March 2015
FRET from Multiple Pathways in Fluorophore-Labeled DNA Melinger, Joseph S.; Khachatrian, Ani; Ancona, Mario G. ACS Photonics, Vol. 3, Issue 4 https://doi.org/10.1021/acsphotonics.6b00006	journal	March 2016
Ultrafast Meets Ultrasmall: Controlling Nanoantennas and Molecules Piatkowski, Lukasz; Accanto, Nicolò; van Hulst, Niek F. ACS Photonics, Vol. 3, Issue 8 https://doi.org/10.1021/acsphotonics.6b00124	journal	May 2016
DNA Origami Route for Nanophotonics Kuzyk, Anton; Jungmann, Ralf; Acuna, Guillermo P. ACS Photonics, Vol. 5, Issue 4 https://doi.org/10.1021/acsphotonics.7b01580	journal	February 2018
Evaluating Dye-Labeled DNA Dendrimers for Potential Applications in Molecular Biosensing Brown, Carl W.; Buckhout-White, Susan; Díaz, Sebastián A. ACS Sensors, Vol. 2, Issue 3 https://doi.org/10.1021/acssensors.6b00778	journal	March 2017
Detecting Biothreat Agents: From Current Diagnostics to Developing Sensor Technologies Walper, Scott A.; Lasarte Aragonés, Guillermo; Sapsford, Kim E. ACS Sensors, Vol. 3, Issue 10 https://doi.org/10.1021/acssensors.8b00420	journal	August 2018
Hybrid Nucleic Acid-Quantum Dot Assemblies as Multiplexed Reporter Platforms for Cell-Free Transcription Translation-Based Biosensors Mathur, Divita; Thakur, Meghna; Díaz, Sebastián A. ACS Synthetic Biology, Vol. 11, Issue 12 https://doi.org/10.1021/acssynbio.2c00394	journal	November 2022
Driving the Scalability of DNA-Based Information Storage Systems Tomek, Kyle J.; Volkel, Kevin; Simpson, Alexander ACS Synthetic Biology, Vol. 8, Issue 6 https://doi.org/10.1021/acssynbio.9b00100	journal	May 2019
Complex Logic Functions Implemented with Quantum Dot Bionanophotonic Circuits Claussen, Jonathan C.; Hildebrandt, Niko; Susumu, Kimihiro ACS Applied Materials & Interfaces, Vol. 6, Issue 6 https://doi.org/10.1021/am404659f	journal	December 2013
DNA-Enabled Integrated Molecular Systems for Computation and Sensing LaBoda, Craig; Duschl, Heather; Dwyer, Chris L. Accounts of Chemical Research, Vol. 47, Issue 6 https://doi.org/10.1021/ar500054u	journal	May 2014
One-Dimensional Self-Assembly of Planar π-Conjugated Molecules: Adaptable Building Blocks for Organic Nanodevices Zang, Ling; Che, Yanke; Moore, Jeffrey S. Accounts of Chemical Research, Vol. 41, Issue 12 https://doi.org/10.1021/ar800030w	journal	December 2008
Multistep Fluorescence Resonance Energy Transfer in Sequential Chromophore Array Constructed on Oligo-DNA Assemblies Ohya, Yuichi; Yabuki, Kentaro; Hashimoto, Masafumi Bioconjugate Chemistry, Vol. 14, Issue 6 https://doi.org/10.1021/bc034028m	journal	September 2003
PNA-Induced Assembly of Fluorescent Proteins Using DNA as a Framework Gholami, Zahra; Brunsveld, Luc; Hanley, Quentin Bioconjugate Chemistry, Vol. 24, Issue 8 https://doi.org/10.1021/bc400202s	journal	August 2013
Controlled Assembly of SNAP–PNA–Fluorophore Systems on DNA Templates To Produce Fluorescence Resonance Energy Transfer Gholami, Zahra; Hanley, Quentin Bioconjugate Chemistry, Vol. 25, Issue 10 https://doi.org/10.1021/bc500319p	journal	September 2014
Sequence Dependence of Fluorescence Emission and Quenching of Doubly Thiazole Orange Labeled DNA: Effective Design of a Hybridization-Sensitive Probe Ikeda, Shuji; Kubota, Takeshi; Kino, Katsuhito Bioconjugate Chemistry, Vol. 19, Issue 8 https://doi.org/10.1021/bc800201m	journal	July 2008
Energy Transfer from a Cationic Conjugated Polyelectrolyte to a DNA Photonic Wire: Toward Label-Free, Sequence-Specific DNA Sensing Liu, Zhongwei; Wang, Hsing-Lin; Cotlet, Mircea Chemistry of Materials, Vol. 26, Issue 9 https://doi.org/10.1021/cm500592j	journal	April 2014
DNA-Multichromophore Systems Teo, Yin Nah; Kool, Eric T. Chemical Reviews, Vol. 112, Issue 7 https://doi.org/10.1021/cr100351g	journal	March 2012
Functionalizing Nanoparticles with Biological Molecules: Developing Chemistries that Facilitate Nanotechnology Sapsford, Kim E.; Algar, W. Russ; Berti, Lorenzo Chemical Reviews, Vol. 113, Issue 3 https://doi.org/10.1021/cr300143v	journal	February 2013
Coherent Multidimensional Optical Spectroscopy of Excitons in Molecular Aggregates; Quasiparticle versus Supermolecule Perspectives Abramavicius, Darius; Palmieri, Benoit; Voronine, Dmitri V. Chemical Reviews, Vol. 109, Issue 6 https://doi.org/10.1021/cr800268n	journal	June 2009
A molecular photonic wire Wagner, Richard W.; Lindsey, Jonathan S. Journal of the American Chemical Society, Vol. 116, Issue 21 https://doi.org/10.1021/ja00100a055	journal	October 1994
Synthesis of deoxyoligonucleotides on a polymer support Matteucci, M. D.; Caruthers, M. H. Journal of the American Chemical Society, Vol. 103, Issue 11 https://doi.org/10.1021/ja00401a041	journal	June 1981
Triple Fluorescence Energy Transfer in Covalently Trichromophore-Labeled DNA Tong, Anthony K.; Jockusch, Steffen; Li, Zengmin Journal of the American Chemical Society, Vol. 123, Issue 51 https://doi.org/10.1021/ja016904h	journal	November 2001
Tensegrity: Construction of Rigid DNA Triangles with Flexible Four-Arm DNA Junctions Liu, Dage; Wang, Mingsheng; Deng, Zhaoxiang Journal of the American Chemical Society, Vol. 126, Issue 8 https://doi.org/10.1021/ja031754r	journal	March 2004
Two-Step FRET as a Structural Tool Watrob, Heather M.; Pan, Chia-Pin; Barkley, Mary D. Journal of the American Chemical Society, Vol. 125, Issue 24 https://doi.org/10.1021/ja034564p	journal	June 2003
Paranemic Crossover DNA: A Generalized Holliday Structure with Applications in Nanotechnology Shen, Zhiyong; Yan, Hao; Wang, Tong Journal of the American Chemical Society, Vol. 126, Issue 6 https://doi.org/10.1021/ja038381e	journal	February 2004
A Simple Glycol Nucleic Acid Zhang, Lilu; Peritz, Adam; Meggers, Eric Journal of the American Chemical Society, Vol. 127, Issue 12 https://doi.org/10.1021/ja042564z	journal	March 2005
Can Luminescent Quantum Dots Be Efficient Energy Acceptors with Organic Dye Donors? Clapp, Aaron R.; Medintz, Igor L.; Fisher, Brent R. Journal of the American Chemical Society, Vol. 127, Issue 4 https://doi.org/10.1021/ja045676z	journal	January 2005
Selective Calcium Ion Sensing with a Bichromophoric Squaraine Foldamer Arunkumar, Easwaran; Ajayaghosh, Ayyappanpillai; Daub, Jörg Journal of the American Chemical Society, Vol. 127, Issue 9 https://doi.org/10.1021/ja045760e	journal	March 2005
DNA Logic Gates Okamoto, Akimitsu; Tanaka, Kazuo; Saito, Isao Journal of the American Chemical Society, Vol. 126, Issue 30 https://doi.org/10.1021/ja047628k	journal	July 2004
Multistep Energy Transfer in Single Molecular Photonic Wires Heilemann, Mike; Tinnefeld, Philip; Sanchez Mosteiro, Gabriel Journal of the American Chemical Society, Vol. 126, Issue 21 https://doi.org/10.1021/ja049351u	journal	June 2004
Quantum Dot-Based Multiplexed Fluorescence Resonance Energy Transfer Clapp, Aaron R.; Medintz, Igor L.; Uyeda, H. Tetsuo Journal of the American Chemical Society, Vol. 127, Issue 51 https://doi.org/10.1021/ja054630i	journal	December 2005
Dissecting and Reducing the Heterogeneity of Excited-State Energy Transport in DNA-Based Photonic Wires Heilemann, Mike; Kasper, Robert; Tinnefeld, Philip Journal of the American Chemical Society, Vol. 128, Issue 51 https://doi.org/10.1021/ja065585x	journal	December 2006
Fluorescent DNA Nanotags: Supramolecular Fluorescent Labels Based on Intercalating Dye Arrays Assembled on Nanostructured DNA Templates Benvin, Andrea L.; Creeger, Yehuda; Fisher, Gregory W. Journal of the American Chemical Society, Vol. 129, Issue 7 https://doi.org/10.1021/ja066354t	journal	January 2007
Programming Multiple Protein Patterns on a Single DNA Nanostructure Cohen, Justin D.; Sadowski, John P.; Dervan, Peter B. Journal of the American Chemical Society, Vol. 130, Issue 2 https://doi.org/10.1021/ja0772400	journal	December 2007
Accurate Distance Determination of Nucleic Acids via Förster Resonance Energy Transfer: Implications of Dye Linker Length and Rigidity Sindbert, Simon; Kalinin, Stanislav; Nguyen, Hien Journal of the American Chemical Society, Vol. 133, Issue 8 https://doi.org/10.1021/ja105725e	journal	March 2011
Self-Assembled Quantum Dot-Sensitized Multivalent DNA Photonic Wires Boeneman, Kelly; Prasuhn, Duane E.; Blanco-Canosa, Juan B. Journal of the American Chemical Society, Vol. 132, Issue 51 https://doi.org/10.1021/ja106465x	journal	December 2010
Single-Molecule Four-Color FRET Visualizes Energy-Transfer Paths on DNA Origami Stein, Ingo H.; Steinhauer, Christian; Tinnefeld, Philip Journal of the American Chemical Society, Vol. 133, Issue 12 https://doi.org/10.1021/ja1105464	journal	March 2011
DNA-Directed Artificial Light-Harvesting Antenna Dutta, Palash K.; Varghese, Reji; Nangreave, Jeanette Journal of the American Chemical Society, Vol. 133, Issue 31 https://doi.org/10.1021/ja1115138	journal	August 2011
Spatiotemporal Multicolor Labeling of Individual Cells Using Peptide-Functionalized Quantum Dots and Mixed Delivery Techniques Delehanty, James B.; Bradburne, Christopher E.; Susumu, Kimihiro Journal of the American Chemical Society, Vol. 133, Issue 27 https://doi.org/10.1021/ja200555z	journal	June 2011
Development of a Robust Model System of FRET using Base Surrogates Tethering Fluorophores for Strict Control of Their Position and Orientation within DNA Duplex Kato, Tomohiro; Kashida, Hiromu; Kishida, Hideo Journal of the American Chemical Society, Vol. 135, Issue 2 https://doi.org/10.1021/ja309279w	journal	January 2013
Self-Assembled Nanoscale DNA–Porphyrin Complex for Artificial Light Harvesting Woller, Jakob G.; Hannestad, Jonas K.; Albinsson, Bo Journal of the American Chemical Society, Vol. 135, Issue 7 https://doi.org/10.1021/ja311828v	journal	February 2013
A DNA-Directed Light-Harvesting/Reaction Center System Dutta, Palash K.; Levenberg, Symon; Loskutov, Andrey Journal of the American Chemical Society, Vol. 136, Issue 47 https://doi.org/10.1021/ja509018g	journal	November 2014
Self-Assembled DNA Photonic Wire for Long-Range Energy Transfer Hannestad, Jonas K.; Sandin, Peter; Albinsson, Bo Journal of the American Chemical Society, Vol. 130, Issue 47 https://doi.org/10.1021/ja803407t	journal	November 2008
Nucleic Acid Base Analog FRET-Pair Facilitating Detailed Structural Measurements in Nucleic Acid Containing Systems Börjesson, Karl; Preus, Søren; El-Sagheer, Afaf H. Journal of the American Chemical Society, Vol. 131, Issue 12 https://doi.org/10.1021/ja806944w	journal	April 2009
Antiparallel DNA Double Crossover Molecules As Components for Nanoconstruction Li, Xiaojun; Yang, Xiaoping; Qi, Jing Journal of the American Chemical Society, Vol. 118, Issue 26 https://doi.org/10.1021/ja960162o	journal	January 1996
Deoxyribonucleic Acid Encoded and Size-Defined π-Stacking of Perylene Diimides Gorman, Jeffrey; Orsborne, Sarah R. E.; Sridhar, Akshay Journal of the American Chemical Society, Vol. 144, Issue 1 https://doi.org/10.1021/jacs.1c10241	journal	December 2021
Active Nuclear Import of Mammalian Cell-Expressible DNA Origami Liedl, Anna; Grießing, Johanna; Kretzmann, Jessica A. Journal of the American Chemical Society, Vol. 145, Issue 9 https://doi.org/10.1021/jacs.2c12733	journal	February 2023
Designed DNA Crystal Habit Modifiers Zhang, Diana; Paukstelis, Paul J. Journal of the American Chemical Society, Vol. 139, Issue 5 https://doi.org/10.1021/jacs.6b12528	journal	January 2017
Toward Complete Sequence Flexibility of Nucleic Acid Base Analogue FRET Wranne, Moa S.; Füchtbauer, Anders Foller; Dumat, Blaise Journal of the American Chemical Society, Vol. 139, Issue 27 https://doi.org/10.1021/jacs.7b04517	journal	June 2017
Efficient Long-Range, Directional Energy Transfer through DNA-Templated Dye Aggregates Zhou, Xu; Mandal, Sarthak; Jiang, Shuoxing Journal of the American Chemical Society, Vol. 141, Issue 21 https://doi.org/10.1021/jacs.9b01548	journal	April 2019
Bright G-Quadruplex Nanostructures Functionalized with Porphyrin Lanterns Pathak, Pravin; Yao, Wei; Hook, Katherine Delaney Journal of the American Chemical Society, Vol. 141, Issue 32 https://doi.org/10.1021/jacs.9b03250	journal	July 2019
A DNA Origami Platform for Single-Pair Förster Resonance Energy Transfer Investigation of DNA–DNA Interactions and Ligation Bartnik, Kira; Barth, Anders; Pilo-Pais, Mauricio Journal of the American Chemical Society, Vol. 142, Issue 2 https://doi.org/10.1021/jacs.9b09093	journal	December 2019
Molecular Dynamics Simulations of the Ala-Pro Dipeptide in Water: Conformational Dynamics of Trans and Cis Isomers Using Different Water Models Mark, Pekka; Nilsson, Lennart The Journal of Physical Chemistry B, Vol. 105, Issue 33 https://doi.org/10.1021/jp0044781	journal	July 2001
DNA-Based Molecular Wires: Multiple Emission Pathways of Individual Constructs Sánchez-Mosteiro, Gabriel; van Dijk, Erik M. H. P.; Hernando, Jordi The Journal of Physical Chemistry B, Vol. 110, Issue 51 https://doi.org/10.1021/jp064701f	journal	December 2006
Photophysical and Dynamical Properties of Doubly Linked Cy3–DNA Constructs Stennett, Elana M. S.; Ma, Ning; van der Vaart, Arjan The Journal of Physical Chemistry B, Vol. 118, Issue 1 https://doi.org/10.1021/jp410976p	journal	December 2013
Resonance Energy Transfer in DNA Duplexes Labeled with Localized Dyes Cunningham, Paul D.; Khachatrian, Ani; Buckhout-White, Susan The Journal of Physical Chemistry B, Vol. 118, Issue 50 https://doi.org/10.1021/jp5065006	journal	December 2014
Electronic and Vibrational Coherences in Resonance Energy Transfer along MEH-PPV Chains at Room Temperature ^† Collini, Elisabetta; Scholes, Gregory D. The Journal of Physical Chemistry A, Vol. 113, Issue 16 https://doi.org/10.1021/jp810757x	journal	April 2009
Photophysics of Backbone Fluorescent DNA Modifications: Reducing Uncertainties in FRET Ranjit, Suman; Gurunathan, Kaushik; Levitus, Marcia The Journal of Physical Chemistry B, Vol. 113, Issue 22 https://doi.org/10.1021/jp810842u	journal	June 2009
Exciton Delocalization and Transport in Photosystem I of Cyanobacteria Synechococcus elongates : Simulation Study of Coherent Two-Dimensional Optical Signals Abramavicius, Darius; Mukamel, Shaul The Journal of Physical Chemistry B, Vol. 113, Issue 17 https://doi.org/10.1021/jp811339p	journal	April 2009
Beyond Förster Resonance Energy Transfer in Biological and Nanoscale Systems Beljonne, David; Curutchet, Carles; Scholes, Gregory D. The Journal of Physical Chemistry B, Vol. 113, Issue 19 https://doi.org/10.1021/jp900708f	journal	May 2009
Nucleobase-Specific Quenching of Fluorescent Dyes. 1. Nucleobase One-Electron Redox Potentials and Their Correlation with Static and Dynamic Quenching Efficiencies Seidel, Claus A. M.; Schulz, Andreas; Sauer, Markus H. M. The Journal of Physical Chemistry, Vol. 100, Issue 13 https://doi.org/10.1021/jp951507c	journal	January 1996
How Quantum Coherence Assists Photosynthetic Light-Harvesting Strümpfer, J.; Şener, M.; Schulten, K. The Journal of Physical Chemistry Letters, Vol. 3, Issue 4 https://doi.org/10.1021/jz201459c	journal	January 2012
Quantum-Coherent Electronic Energy Transfer: Did Nature Think of It First? Scholes, Gregory D. The Journal of Physical Chemistry Letters, Vol. 1, Issue 1 https://doi.org/10.1021/jz900062f	journal	November 2009
Nanometer-scale Fluorescence Resonance Optical Waveguides Vyawahare, Saurabh; Eyal, Shulamit; Mathews, Keith D. Nano Letters, Vol. 4, Issue 6 https://doi.org/10.1021/nl049660i	journal	April 2004
Single-Pair FRET Characterization of DNA Tweezers Müller, Barbara K.; Reuter, Andreas; Simmel, Friedrich C. Nano Letters, Vol. 6, Issue 12 https://doi.org/10.1021/nl0619406	journal	October 2006
A Reactive Peptidic Linker for Self-Assembling Hybrid Quantum Dot−DNA Bioconjugates Medintz, Igor L.; Berti, Lorenzo; Pons, Thomas Nano Letters, Vol. 7, Issue 6 https://doi.org/10.1021/nl070782v	journal	June 2007
DNA-Controlled Excitonic Switches Graugnard, Elton; Kellis, Donald L.; Bui, Hieu Nano Letters, Vol. 12, Issue 4 https://doi.org/10.1021/nl3004336	journal	January 2012
Self-Assembled DNA Crystals: The Impact on Resolution of 5′-Phosphates and the DNA Source Sha, Ruojie; Birktoft, Jens J.; Nguyen, Nam Nano Letters, Vol. 13, Issue 2 https://doi.org/10.1021/nl304550c	journal	January 2013
Fluorescence Quenching of Quantum Dots by Gold Nanoparticles: A Potential Long Range Spectroscopic Ruler Samanta, Anirban; Zhou, Yadong; Zou, Shengli Nano Letters, Vol. 14, Issue 9 https://doi.org/10.1021/nl501709s	journal	August 2014
Quantum Dot DNA Bioconjugates: Attachment Chemistry Strongly Influences the Resulting Composite Architecture Boeneman, Kelly; Deschamps, Jeffrey R.; Buckhout-White, Susan ACS Nano, Vol. 4, Issue 12 https://doi.org/10.1021/nn1021346	journal	November 2010
Multimodal Characterization of a Linear DNA-Based Nanostructure Buckhout-White, Susan; Ancona, Mario; Oh, Eunkeu ACS Nano, Vol. 6, Issue 2 https://doi.org/10.1021/nn204680r	journal	January 2012
Studying the Structural Dynamics of Bipedal DNA Motors with Single-Molecule Fluorescence Spectroscopy Masoud, Rula; Tsukanov, Roman; Tomov, Toma E. ACS Nano, Vol. 6, Issue 7 https://doi.org/10.1021/nn301709n	journal	June 2012
Assembly of a Concentric Förster Resonance Energy Transfer Relay on a Quantum Dot Scaffold: Characterization and Application to Multiplexed Protease Sensing Algar, W. Russ; Ancona, Mario G.; Malanoski, Anthony P. ACS Nano, Vol. 6, Issue 12 https://doi.org/10.1021/nn304736j	journal	November 2012
Achieving Effective Terminal Exciton Delivery in Quantum Dot Antenna-Sensitized Multistep DNA Photonic Wires Spillmann, Christopher M.; Ancona, Mario G.; Buckhout-White, Susan ACS Nano, Vol. 7, Issue 8 https://doi.org/10.1021/nn402468t	journal	July 2013
Competition between Förster Resonance Energy Transfer and Electron Transfer in Stoichiometrically Assembled Semiconductor Quantum Dot–Fullerene Conjugates Stewart, Michael H.; Huston, Alan L.; Scott, Amy M. ACS Nano, Vol. 7, Issue 10 https://doi.org/10.1021/nn403872x	journal	September 2013
Light-Harvesting Nanoparticle Core–Shell Clusters with Controllable Optical Output Sun, Dazhi; Tian, Ye; Zhang, Yugang ACS Nano, Vol. 9, Issue 6 https://doi.org/10.1021/nn507331z	journal	May 2015
Fluorescent DNA Nanotags Based on a Self-Assembled DNA Tetrahedron Özhalıcı-Ünal, Hayriye; Armitage, Bruce A. ACS Nano, Vol. 3, Issue 2 https://doi.org/10.1021/nn800727x	journal	January 2009
Combining Chemoselective Ligation with Polyhistidine-Driven Self-Assembly for the Modular Display of Biomolecules on Quantum Dots Prasuhn, Duane E.; Blanco-Canosa, Juan B.; Vora, Gary J. ACS Nano, Vol. 4, Issue 1 https://doi.org/10.1021/nn901393v	journal	January 2010
Excitonic AND Logic Gates on DNA Brick Nanobreadboards Cannon, Brittany L.; Kellis, Donald L.; Davis, Paul H. ACS Photonics, Vol. 2, Issue 3 https://doi.org/10.1021/ph500444d	journal	February 2015
Complex DNA Nanostructures from Oligonucleotide Ensembles Mathur, Divita; Henderson, Eric R. ACS Synthetic Biology, Vol. 2, Issue 4 https://doi.org/10.1021/sb3000518	journal	July 2012
A DNA-fuelled molecular machine made of DNA Yurke, Bernard; Turberfield, Andrew J.; Mills, Allen P. Nature, Vol. 406, Issue 6796 https://doi.org/10.1038/35020524	journal	August 2000
Combinatorial fluorescence energy transfer tags for multiplex biological assays Tong, Anthony K.; Li, Zengmin; Jones, Gregg S. Nature Biotechnology, Vol. 19, Issue 8 https://doi.org/10.1038/90810	journal	August 2001
Geneticist who unmasked lives of ancient humans wins medicine Nobel Callaway, Ewen; Ledford, Heidi Nature, Vol. 610, Issue 7930 https://doi.org/10.1038/d41586-022-03086-9	journal	October 2022
Chiroplasmonic DNA-based nanostructures Cecconello, Alessandro; Besteiro, Lucas V.; Govorov, Alexander O. Nature Reviews Materials, Vol. 2, Issue 9 https://doi.org/10.1038/natrevmats.2017.39	journal	July 2017
DNA nanotechnology Seeman, Nadrian C.; Sleiman, Hanadi F. Nature Reviews Materials, Vol. 3, Issue 1 https://doi.org/10.1038/natrevmats.2017.68	journal	November 2017
Folding DNA to create nanoscale shapes and patterns Rothemund, Paul W. K. Nature, Vol. 440, Issue 7082, p. 297-302 https://doi.org/10.1038/nature04586	journal	March 2006
Evidence for wavelike energy transfer through quantum coherence in photosynthetic systems Engel, Gregory S.; Calhoun, Tessa R.; Read, Elizabeth L. Nature, Vol. 446, Issue 7137 https://doi.org/10.1038/nature05678	journal	April 2007
Self-assembly of a nanoscale DNA box with a controllable lid Andersen, Ebbe S.; Dong, Mingdong; Nielsen, Morten M. Nature, Vol. 459, Issue 7243 https://doi.org/10.1038/nature07971	journal	May 2009
Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins Meyer, Matthias; Arsuaga, Juan-Luis; de Filippo, Cesare Nature, Vol. 531, Issue 7595 https://doi.org/10.1038/nature17405	journal	March 2016
Using coherence to enhance function in chemical and biophysical systems Scholes, Gregory D.; Fleming, Graham R.; Chen, Lin X. Nature, Vol. 543, Issue 7647 https://doi.org/10.1038/nature21425	journal	March 2017
Fractal assembly of micrometre-scale DNA origami arrays with arbitrary patterns Tikhomirov, Grigory; Petersen, Philip; Qian, Lulu Nature, Vol. 552, Issue 7683 https://doi.org/10.1038/nature24655	journal	December 2017
Multicolor molecular beacons for allele discrimination Tyagi, Sanjay; Bratu, Diana P.; Kramer, Fred Russell Nature Biotechnology, Vol. 16, Issue 1, p. 49-53 https://doi.org/10.1038/nbt0198-49	journal	January 1998
Self-illuminating quantum dot conjugates for in vivo imaging So, Min-Kyung; Xu, Chenjie; Loening, Andreas M. Nature Biotechnology, Vol. 24, Issue 3 https://doi.org/10.1038/nbt1188	journal	February 2006
FRET imaging Jares-Erijman, Elizabeth A.; Jovin, Thomas M. Nature Biotechnology, Vol. 21, Issue 11 https://doi.org/10.1038/nbt896	journal	October 2003
Lessons from nature about solar light harvesting Scholes, Gregory D.; Fleming, Graham R.; Olaya-Castro, Alexandra Nature Chemistry, Vol. 3, Issue 10 https://doi.org/10.1038/nchem.1145	journal	September 2011
Enzyme-free translation of DNA into sequence-defined synthetic polymers structurally unrelated to nucleic acids Niu, Jia; Hili, Ryan; Liu, David R. Nature Chemistry, Vol. 5, Issue 4 https://doi.org/10.1038/nchem.1577	journal	March 2013
Assembling programmable FRET-based photonic networks using designer DNA scaffolds Buckhout-White, Susan; Spillmann, Christopher M.; Algar, W. Russ Nature Communications, Vol. 5, Issue 1 https://doi.org/10.1038/ncomms6615	journal	December 2014
Universal tools for biomolecular attachment to surfaces Medintz, Igor Nature Materials, Vol. 5, Issue 11 https://doi.org/10.1038/nmat1776	journal	November 2006
Programmed coherent coupling in a synthetic DNA-based excitonic circuit Boulais, Étienne; Sawaya, Nicolas P. D.; Veneziano, Rémi Nature Materials, Vol. 17, Issue 2 https://doi.org/10.1038/nmat5033	journal	November 2017
A practical guide to single-molecule FRET Roy, Rahul; Hohng, Sungchul; Ha, Taekjip Nature Methods, Vol. 5, Issue 6 https://doi.org/10.1038/nmeth.1208	journal	May 2008
A primer to scaffolded DNA origami Castro, Carlos Ernesto; Kilchherr, Fabian; Kim, Do-Nyun Nature Methods, Vol. 8, Issue 3 https://doi.org/10.1038/nmeth.1570	journal	February 2011
A toolkit and benchmark study for FRET-restrained high-precision structural modeling Kalinin, Stanislav; Peulen, Thomas; Sindbert, Simon Nature Methods, Vol. 9, Issue 12 https://doi.org/10.1038/nmeth.2222	journal	November 2012
Large-scale de novo DNA synthesis: technologies and applications Kosuri, Sriram; Church, George M. Nature Methods, Vol. 11, Issue 5 https://doi.org/10.1038/nmeth.2918	journal	April 2014
A DNA nanomachine that maps spatial and temporal pH changes inside living cells Modi, Souvik; M. G., Swetha; Goswami, Debanjan Nature Nanotechnology, Vol. 4, Issue 5 https://doi.org/10.1038/nnano.2009.83	journal	April 2009
DNA-based programming of quantum dot valency, self-assembly and luminescence Tikhomirov, Grigory; Hoogland, Sjoerd; Lee, P. E. Nature Nanotechnology, Vol. 6, Issue 8 https://doi.org/10.1038/nnano.2011.100	journal	July 2011
Plasmon-induced resonance energy transfer for solar energy conversion Li, Jiangtian; Cushing, Scott K.; Meng, Fanke Nature Photonics, Vol. 9, Issue 9 https://doi.org/10.1038/nphoton.2015.142	journal	August 2015
Development of a genetically encodable FRET system using fluorescent RNA aptamers Jepsen, Mette D. E.; Sparvath, Steffen M.; Nielsen, Thorbjørn B. Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-017-02435-x	journal	January 2018
Gene-encoding DNA origami for mammalian cell expression Kretzmann, Jessica A.; Liedl, Anna; Monferrer, Alba Nature Communications, Vol. 14, Issue 1 https://doi.org/10.1038/s41467-023-36601-1	journal	February 2023
Dynamic protein assembly by programmable DNA strand displacement Chen, Rebecca P.; Blackstock, Daniel; Sun, Qing Nature Chemistry, Vol. 10, Issue 4 https://doi.org/10.1038/s41557-018-0016-9	journal	March 2018
Exploring the speed limit of toehold exchange with a cartwheeling DNA acrobat Li, Jieming; Johnson-Buck, Alexander; Yang, Yuhe Renee Nature Nanotechnology, Vol. 13, Issue 8 https://doi.org/10.1038/s41565-018-0130-2	journal	May 2018
Role of nanoscale antigen organization on B-cell activation probed using DNA origami Veneziano, Rémi; Moyer, Tyson J.; Stone, Matthew B. Nature Nanotechnology, Vol. 15, Issue 8 https://doi.org/10.1038/s41565-020-0719-0	journal	June 2020
Enzymatic DNA synthesis enters new phase Eisenstein, Michael Nature Biotechnology, Vol. 38, Issue 10 https://doi.org/10.1038/s41587-020-0695-9	journal	October 2020
Precision and accuracy of single-molecule FRET measurements—a multi-laboratory benchmark study Hellenkamp, Björn; Schmid, Sonja; Doroshenko, Olga Nature Methods, Vol. 15, Issue 9 https://doi.org/10.1038/s41592-018-0085-0	journal	August 2018
FRET as a biomolecular research tool — understanding its potential while avoiding pitfalls Algar, W. Russ; Hildebrandt, Niko; Vogel, Steven S. Nature Methods, Vol. 16, Issue 9 https://doi.org/10.1038/s41592-019-0530-8	journal	August 2019
Caveat fluorophore: an insiders’ guide to small-molecule fluorescent labels Grimm, Jonathan B.; Lavis, Luke D. Nature Methods, Vol. 19, Issue 2 https://doi.org/10.1038/s41592-021-01338-6	journal	December 2021
Quantitative evaluation of energy migration between identical chromophores enabled by breaking symmetry Kashida, Hiromu; Kawai, Hayato; Maruyama, Ryoko Communications Chemistry, Vol. 1, Issue 1 https://doi.org/10.1038/s42004-018-0093-0	journal	December 2018
Rotaxane rings promote oblique packing and extended lifetimes in DNA-templated molecular dye aggregates Barclay, Matthew S.; Roy, Simon K.; Huff, Jonathan S. Communications Chemistry, Vol. 4, Issue 1 https://doi.org/10.1038/s42004-021-00456-8	journal	February 2021
Addressable and unidirectional energy transfer along a DNA three-way junction programmed by pyrrole-imidazole polyamides Su, Wu; Bagshaw, Clive R.; Burley, Glenn A. Scientific Reports, Vol. 3, Issue 1 https://doi.org/10.1038/srep01883	journal	May 2013
A Versatile Multiple Target Detection System Based on DNA Nano-assembled Linear FRET Arrays Li, Yansheng; Du, Hongwu; Wang, Wenqian Scientific Reports, Vol. 6, Issue 1 https://doi.org/10.1038/srep26879	journal	May 2016
Bright luminescence from pure DNA-curcumin–based phosphors for bio hybrid light-emitting diodes Reddy, M. Siva Pratap; Park, Chinho Scientific Reports, Vol. 6, Issue 1 https://doi.org/10.1038/srep32306	journal	August 2016
Energy Transfer Sensitization of Luminescent Gold Nanoclusters: More than Just the Classical Förster Mechanism Oh, Eunkeu; Huston, Alan L.; Shabaev, Andrew Scientific Reports, Vol. 6, Issue 1 https://doi.org/10.1038/srep35538	journal	October 2016
DNA as supramolecular scaffold for functional molecules: progress in DNA nanotechnology Bandy, Thomas J.; Brewer, Ashley; Burns, Jonathan R. Chem. Soc. Rev., Vol. 40, Issue 1 https://doi.org/10.1039/B820255A	journal	January 2011
Nucleic acid-guided assembly of aromatic chromophores Malinovskii, Vladimir L.; Wenger, Daniel; Häner, Robert Chem. Soc. Rev., Vol. 39, Issue 2 https://doi.org/10.1039/B910030J	journal	January 2010
Directing energy transfer in discrete one-dimensional oligonucleotide-templated assemblies Ruiz-Carretero, Amparo; Janssen, Pim G. A.; Stevens, Amy L. Chem. Commun., Vol. 47, Issue 3 https://doi.org/10.1039/C0CC04128A	journal	January 2011
The DNA three-way junction as a mould for tripartite chromophore assembly Probst, Markus; Wenger, Daniel; Biner, Sarah M. Org. Biomol. Chem., Vol. 10, Issue 4 https://doi.org/10.1039/C1OB06400B	journal	January 2012
DNA nanostructure meets nanofabrication Zhang, Guomei; Surwade, Sumedh P.; Zhou, Feng Chem. Soc. Rev., Vol. 42, Issue 7 https://doi.org/10.1039/C2CS35302D	journal	January 2013
Heterogeneous azide–alkyne click chemistry: towards metal-free end products Dervaux, Bart; Du Prez, Filip E. Chem. Sci., Vol. 3, Issue 4 https://doi.org/10.1039/C2SC00848C	journal	January 2012
A modular LHC built on the DNA three-way junction Probst, Markus; Langenegger, Simon M.; Häner, Robert Chem. Commun., Vol. 50, Issue 2 https://doi.org/10.1039/C3CC47490A	journal	January 2014
Photophysical processes in single molecule organic fluorescent probes Stennett, Elana M. S.; Ciuba, Monika A.; Levitus, Marcia Chem. Soc. Rev., Vol. 43, Issue 4 https://doi.org/10.1039/C3CS60211G	journal	January 2014
An overview of nanoparticles commonly used in fluorescent bioimaging Wolfbeis, Otto S. Chemical Society Reviews, Vol. 44, Issue 14 https://doi.org/10.1039/C4CS00392F	journal	January 2015
A triangular three-dye DNA switch capable of reconfigurable molecular logic Buckhout-White, Susan; Claussen, Jonathan C.; Melinger, Joseph S. RSC Adv., Vol. 4, Issue 90 https://doi.org/10.1039/C4RA10580J	journal	January 2014
Nanoparticles and DNA – a powerful and growing functional combination in bionanotechnology Samanta, Anirban; Medintz, Igor L. Nanoscale, Vol. 8, Issue 17 https://doi.org/10.1039/C5NR08465B	journal	January 2016
Physical principles for DNA tile self-assembly Evans, Constantine G.; Winfree, Erik Chemical Society Reviews, Vol. 46, Issue 12 https://doi.org/10.1039/C6CS00745G	journal	January 2017
FRET enhancement close to gold nanoparticles positioned in DNA origami constructs Aissaoui, Nesrine; Moth-Poulsen, Kasper; Käll, Mikael Nanoscale, Vol. 9, Issue 2 https://doi.org/10.1039/C6NR04852H	journal	January 2017
Expanding molecular logic capabilities in DNA-scaffolded multiFRET triads Buckhout-White, Susan; Brown III, Carl W.; Hastman, David A. RSC Advances, Vol. 6, Issue 100 https://doi.org/10.1039/C6RA23079B	journal	January 2016
Exploring attachment chemistry with FRET in hybrid quantum dot dye-labeled DNA dendrimer composites Samanta, Anirban; Buckhout-White, Susan; Oh, Eunkeu Molecular Systems Design & Engineering, Vol. 3, Issue 2 https://doi.org/10.1039/C7ME00121E	journal	January 2018
DNA photonic nanowires with tunable FRET signals on the basis of toehold-mediated DNA strand displacement reactions Wang, Bei; Wang, Xiaojing; Wei, Bing Nanoscale, Vol. 9, Issue 9 https://doi.org/10.1039/C7NR00386B	journal	January 2017
Metrology of DNA arrays by super-resolution microscopy Green, Christopher M.; Schutt, Kelly; Morris, Noah Nanoscale, Vol. 9, Issue 29 https://doi.org/10.1039/C7NR00928C	journal	January 2017
FRET efficiency and antenna effect in multi-color DNA origami-based light harvesting systems Olejko, L.; Bald, I. RSC Advances, Vol. 7, Issue 39 https://doi.org/10.1039/C7RA02114C	journal	January 2017
Synthesis and characterization of porphyrin–DNA constructs for the self-assembly of modular energy transfer arrays Anderson, Nathaniel T.; Dinolfo, Peter H.; Wang, Xing Journal of Materials Chemistry C, Vol. 6, Issue 10 https://doi.org/10.1039/C7TC05272C	journal	January 2018
Measuring local conformations and conformational disorder of (Cy3) ₂ dimer labeled DNA fork junctions using absorbance, circular dichroism and two-dimensional fluorescence spectroscopy Heussman, Dylan; Kittell, Justin; Kringle, Loni Faraday Discussions, Vol. 216 https://doi.org/10.1039/C8FD00245B	journal	January 2019
Advanced microRNA-based cancer diagnostics using amplified time-gated FRET Qiu, Xue; Xu, Jingyue; Guo, Jiajia Chemical Science, Vol. 9, Issue 42 https://doi.org/10.1039/C8SC03121E	journal	January 2018
Recent advances in fluorescence resonance energy transfer-based probes in nucleic acid diagnosis Chen, Jiaxin; Shi, Cheng; Kang, Xin yue Analytical Methods, Vol. 12, Issue 7 https://doi.org/10.1039/C9AY02332A	journal	January 2020
A three-dimensional DNA walker amplified FRET sensor for detection of telomerase activity based on the MnO₂nanosheet-upconversion nanoparticle sensing platform Xu, Mingdi; Zhuang, Junyang; Jiang, Xiaoyu Chemical Communications, Vol. 55, Issue 66 https://doi.org/10.1039/C9CC05387E	journal	January 2019
On the design of molecular excitonic circuits for quantum computing: the universal quantum gates Castellanos, Maria A.; Dodin, Amro; Willard, Adam P. Physical Chemistry Chemical Physics, Vol. 22, Issue 5 https://doi.org/10.1039/C9CP05625D	journal	January 2020
Semi-biological approaches to solar-to-chemical conversion Fang, Xin; Kalathil, Shafeer; Reisner, Erwin Chemical Society Reviews, Vol. 49, Issue 14 https://doi.org/10.1039/C9CS00496C	journal	January 2020
Dynamic DNA nanotechnology: toward functional nanoscale devices DeLuca, Marcello; Shi, Ze; Castro, Carlos E. Nanoscale Horizons, Vol. 5, Issue 2 https://doi.org/10.1039/C9NH00529C	journal	January 2020
Plasmon-assisted Förster resonance energy transfer at the single-molecule level in the moderate quenching regime Bohlen, J.; Cuartero-González, Á.; Pibiri, E. Nanoscale, Vol. 11, Issue 16 https://doi.org/10.1039/C9NR01204D	journal	January 2019
Analyzing fidelity and reproducibility of DNA templated plasmonic nanostructures Mathur, Divita; Klein, William P.; Chiriboga, Matthew Nanoscale, Vol. 11, Issue 43 https://doi.org/10.1039/C9NR03711J	journal	January 2019
A multifunctional DNA nanostructure based on multicolor FRET for nuclease activity assay Hu, Juan; Li, Wen-can; Qiu, Jian-Ge The Analyst, Vol. 145, Issue 18 https://doi.org/10.1039/D0AN01212B	journal	January 2020
Harnessing the physicochemical properties of DNA as a multifunctional biomaterial for biomedical and other applications Chakraborty, Aishik; Ravi, Shruthi Polla; Shamiya, Yasmeen Chemical Society Reviews, Vol. 50, Issue 13 https://doi.org/10.1039/D0CS01387K	journal	January 2021
Recent progress in non-native nucleic acid modifications McKenzie, Luke K.; El-Khoury, Roberto; Thorpe, James D. Chemical Society Reviews, Vol. 50, Issue 8 https://doi.org/10.1039/D0CS01430C	journal	January 2021
Boolean logic gate based on DNA strand displacement for biosensing: current and emerging strategies Zhao, Shuang; Yu, Lianyu; Yang, Sha Nanoscale Horizons, Vol. 6, Issue 4 https://doi.org/10.1039/D0NH00587H	journal	January 2021
DNA-organized artificial LHCs – testing the limits of chromophore segmentation Bürki, Nutcha; Grossenbacher, Elena; Cannizzo, Andrea Organic & Biomolecular Chemistry, Vol. 18, Issue 35 https://doi.org/10.1039/D0OB01531H	journal	January 2020
Fundamental photophysics of isomorphic and expanded fluorescent nucleoside analogues Dziuba, Dmytro; Didier, Pascal; Ciaco, Stefano Chemical Society Reviews, Vol. 50, Issue 12 https://doi.org/10.1039/D1CS00194A	journal	January 2021
First-principles studies of substituent effects on squaraine dyes Barcenas, German; Biaggne, Austin; Mass, Olga A. RSC Advances, Vol. 11, Issue 31 https://doi.org/10.1039/D1RA01377G	journal	January 2021
Determining interchromophore effects for energy transport in molecular networks using machine-learning algorithms Rolczynski, Brian S.; Díaz, Sebastián A.; Kim, Young C. Physical Chemistry Chemical Physics, Vol. 25, Issue 5 https://doi.org/10.1039/D2CP04960K	journal	January 2023
Synthesizing the biochemical and semiconductor worlds: the future of nucleic acid nanotechnology Majikes, Jacob M.; Liddle, J. Alexander Nanoscale, Vol. 14, Issue 42 https://doi.org/10.1039/D2NR04040A	journal	January 2022
Towards control of excitonic coupling in DNA-templated Cy5 aggregates: the principal role of chemical substituent hydrophobicity and steric interactions Díaz, Sebastián A.; Pascual, Gissela; Patten, Lance K. Nanoscale, Vol. 15, Issue 7 https://doi.org/10.1039/D2NR05544A	journal	January 2023
Uptake and stability of DNA nanostructures in cells: a cross-sectional overview of the current state of the art Mathur, Divita; Galvan, Angelica Rose; Green, Christopher M. Nanoscale, Vol. 15, Issue 6 https://doi.org/10.1039/D2NR05868E	journal	January 2023
Molecular dynamics simulations of cyanine dimers attached to DNA Holliday junctions Biaggne, Austin; Kim, Young C.; Melinger, Joseph. S. RSC Advances, Vol. 12, Issue 43 https://doi.org/10.1039/D2RA05045E	journal	January 2022
Nucleotides part XXXII. Synthesis of a dithymidine dinucleotide containing a 3′: 5′-internucleotidic linkage Michelson, A. M.; Todd, Alexander R. J. Chem. Soc., Vol. 0, Issue 0 https://doi.org/10.1039/JR9550002632	journal	January 1955
LNA (locked nucleic acids): synthesis and high-affinity nucleic acid recognition Singh, Sanjay K.; Koshkin, Alexei A.; Wengel, Jesper Chemical Communications, Issue 4 https://doi.org/10.1039/a708608c	journal	January 1998
Sequential multistep energy transfer: enhancement of efficiency of long-range fluorescence resonance energy transfer Kawahara, Shun-ichi; Uchimaru, Tadafumi; Murata, Shigeo Chemical Communications, Issue 6 https://doi.org/10.1039/a809728c	journal	January 1999
Cyclic porphyrin arrays as artificial photosynthetic antenna: synthesis and excitation energy transfer Nakamura, Yasuyuki; Aratani, Naoki; Osuka, Atsuhiro Chemical Society Reviews, Vol. 36, Issue 6 https://doi.org/10.1039/b618854k	journal	January 2007
Pyrene modification leads to increased catalytic activity in minimal hammerhead ribozymes Looser, Verena; Langenegger, Simon M.; Häner, Robert Chemical Communications, Issue 42 https://doi.org/10.1039/b711170c	journal	January 2007
Enhanced resistance of DNA nanostructures to enzymatic digestion Keum, Jung-Won; Bermudez, Harry Chemical Communications, Issue 45 https://doi.org/10.1039/b917661f	journal	January 2009
ssDNA templated assembly of oligonucleotides and bivalent naphthalene guests Janssen, Pim G. A.; Brankaert, Niels J. M.; Vila, Xavier Soft Matter, Vol. 6, Issue 7 https://doi.org/10.1039/b924631b	journal	January 2010
Three dye energy transfer cascade within DNA thin films Navarathne, Daminda; Ner, Yogesh; Grote, James G. Chemical Communications, Vol. 47, Issue 44 https://doi.org/10.1039/c1cc14416b	journal	January 2011
Pyrene-functionalized oligonucleotides and locked nucleic acids (LNAs): Tools for fundamental research, diagnostics, and nanotechnology Østergaard, Michael E.; Hrdlicka, Patrick J. Chemical Society Reviews, Vol. 40, Issue 12 https://doi.org/10.1039/c1cs15014f	journal	January 2011
ECHO probes: a concept of fluorescence control for practical nucleic acid sensing Okamoto, Akimitsu Chemical Society Reviews, Vol. 40, Issue 12 https://doi.org/10.1039/c1cs15025a	journal	January 2011
DNA origami: a quantum leap for self-assembly of complex structures Tørring, Thomas; Voigt, Niels V.; Nangreave, Jeanette Chemical Society Reviews, Vol. 40, Issue 12 https://doi.org/10.1039/c1cs15057j	journal	January 2011
Photon harvesting by excimer-forming multichromophores Adeyemi, Oliver O.; Malinovskii, Vladimir L.; Biner, Sarah M. Chemical Communications, Vol. 48, Issue 77 https://doi.org/10.1039/c2cc34183b	journal	January 2012
Preparation of supramolecular chromophoric assemblies using a DNA duplex Kashida, Hiromu; Asanuma, Hiroyuki Physical Chemistry Chemical Physics, Vol. 14, Issue 20 https://doi.org/10.1039/c2cp40520b	journal	January 2012
J- vs. H-type assembly: pentamethine cyanine (Cy5) as a near-IR chiroptical reporter Markova, Larysa I.; Malinovskii, Vladimir L.; Patsenker, Leonid D. Chemical Communications, Vol. 49, Issue 46 https://doi.org/10.1039/c3cc42103a	journal	January 2013
Self-assembled DNA tetrahedral optofluidic lasers with precise and tunable gain control Chen, Qiushu; Liu, Huajie; Lee, Wonsuk Lab on a Chip, Vol. 13, Issue 17 https://doi.org/10.1039/c3lc50629k	journal	January 2013
Biophotonic logic devices based on quantum dots and temporally-staggered Förster energy transfer relays Claussen, Jonathan C.; Algar, W. Russ; Hildebrandt, Niko Nanoscale, Vol. 5, Issue 24 https://doi.org/10.1039/c3nr03655c	journal	January 2013
Extending FRET cascades on linear DNA photonic wires Spillmann, Christopher M.; Buckhout-White, Susan; Oh, Eunkeu Chemical Communications, Vol. 50, Issue 55 https://doi.org/10.1039/c4cc01072h	journal	January 2014
Peptide nucleic acid (PNA). A DNA mimic with a pseudopeptide backbone Nielsen, Peter E.; Haaima, Gerald Chemical Society Reviews, Vol. 26, Issue 2 https://doi.org/10.1039/cs9972600073	journal	January 1997
A brief review of DNA and RNA chemical synthesis Caruthers, Marvin H. Biochemical Society Transactions, Vol. 39, Issue 2 https://doi.org/10.1042/BST0390575	journal	March 2011
Preparation of LNA Phosphoramidites Pedersen, Daniel Sejer; Rosenbohm, Christoph; Koch, Troels Synthesis, Vol. 2002, Issue 06 https://doi.org/10.1055/s-2002-25756	journal	January 2002
Nonradiative Energy Transfer in Systems in which Rotatory Brownian Motion is Frozen Steinberg, Izchak Z. The Journal of Chemical Physics, Vol. 48, Issue 6 https://doi.org/10.1063/1.1669461	journal	March 1968
Multiple mode exciton-vibrational coupling in H-aggregates: Synergistic enhancement of the quantum yield Spano, F. C.; Silvestri, Leonardo The Journal of Chemical Physics, Vol. 132, Issue 9 https://doi.org/10.1063/1.3310810	journal	March 2010
Exciton dynamics in chromophore aggregates with correlated environment fluctuations Abramavicius, Darius; Mukamel, Shaul The Journal of Chemical Physics, Vol. 134, Issue 17 https://doi.org/10.1063/1.3579455	journal	May 2011
Biexciton states and two‐photon absorption in molecular monolayers Spano, Francis C.; Agranovich, Vladimir; Mukamel, Shaul The Journal of Chemical Physics, Vol. 95, Issue 2 https://doi.org/10.1063/1.461121	journal	July 1991
Fluorescence depolarization by electronic energy transfer in donor–acceptor pairs of like and unlike chromophores Berberan-Santos, M. N.; Valeur, B. The Journal of Chemical Physics, Vol. 95, Issue 11 https://doi.org/10.1063/1.461285	journal	December 1991
An analytical continuation approach for evaluating emission lineshapes of molecular aggregates and the adequacy of multichromophoric Förster theory Banchi, Leonardo; Costagliola, Gianluca; Ishizaki, Akihito The Journal of Chemical Physics, Vol. 138, Issue 18 https://doi.org/10.1063/1.4803694	journal	May 2013
Kinetic theory of exciton–exciton annihilation May, Volkhard The Journal of Chemical Physics, Vol. 140, Issue 5 https://doi.org/10.1063/1.4863259	journal	February 2014
Perspective: Detecting and measuring exciton delocalization in photosynthetic light harvesting Scholes, Gregory D.; Smyth, Cathal The Journal of Chemical Physics, Vol. 140, Issue 11 https://doi.org/10.1063/1.4869329	journal	March 2014
Optical determination of the electronic coupling and intercalation geometry of thiazole orange homodimer in DNA Cunningham, Paul D.; Bricker, William P.; Díaz, Sebastián A. The Journal of Chemical Physics, Vol. 147, Issue 5 https://doi.org/10.1063/1.4995431	journal	August 2017
Solvent effect on FRET spectroscopic ruler Qu, Songyuan; Liu, Chuanbo; Liu, Qiong The Journal of Chemical Physics, Vol. 148, Issue 12 https://doi.org/10.1063/1.5004205	journal	March 2018
Temperature-dependent conformations of exciton-coupled Cy3 dimers in double-stranded DNA Kringle, Loni; Sawaya, Nicolas P. D.; Widom, Julia The Journal of Chemical Physics, Vol. 148, Issue 8 https://doi.org/10.1063/1.5020084	journal	February 2018
Molecular model of J-aggregated pseudoisocyanine fibers Bricker, William P.; Banal, James L.; Stone, Matthew B. The Journal of Chemical Physics, Vol. 149, Issue 2 https://doi.org/10.1063/1.5036656	journal	July 2018
Temperature-dependent local conformations and conformational distributions of cyanine dimer labeled single-stranded–double-stranded DNA junctions by 2D fluorescence spectroscopy Heussman, Dylan; Kittell, Justin; von Hippel, Peter H. The Journal of Chemical Physics, Vol. 156, Issue 4 https://doi.org/10.1063/5.0076261	journal	January 2022
Bio-templated energy transfer system for constructing artificial light-harvesting antennae, white light generation, and photonic nanowires Pramanik, Srikrishna; Mukherjee, Saptarshi Chemical Physics Reviews, Vol. 4, Issue 3 https://doi.org/10.1063/5.0163152	journal	August 2023
Orientation dependence in fluorescent energy transfer between Cy3 and Cy5 terminally attached to double-stranded nucleic acids Iqbal, A.; Arslan, S.; Okumus, B. Proceedings of the National Academy of Sciences, Vol. 105, Issue 32 https://doi.org/10.1073/pnas.0801707105	journal	August 2008
Bioinspired optofluidic FRET lasers via DNA scaffolds Sun, Yuze; Shopova, Siyka I.; Wu, Chung-Shieh Proceedings of the National Academy of Sciences, Vol. 107, Issue 37 https://doi.org/10.1073/pnas.1003581107	journal	August 2010
Direct evidence of quantum transport in photosynthetic light-harvesting complexes Panitchayangkoon, G.; Voronine, D. V.; Abramavicius, D. Proceedings of the National Academy of Sciences, Vol. 108, Issue 52 https://doi.org/10.1073/pnas.1105234108	journal	December 2011
Energy transfer: a spectroscopic ruler. Stryer, L.; Haugland, R. P. Proceedings of the National Academy of Sciences, Vol. 58, Issue 2 https://doi.org/10.1073/pnas.58.2.719	journal	August 1967
Chemical synthesis of genes for human insulin. Crea, R.; Kraszewski, A.; Hirose, T. Proceedings of the National Academy of Sciences, Vol. 75, Issue 12 https://doi.org/10.1073/pnas.75.12.5765	journal	December 1978
Fluorescence energy transfer dye-labeled primers for DNA sequencing and analysis. Ju, J.; Ruan, C.; Fuller, C. W. Proceedings of the National Academy of Sciences, Vol. 92, Issue 10 https://doi.org/10.1073/pnas.92.10.4347	journal	May 1995
Double duplex invasion by peptide nucleic acid: A general principle for sequence-specific targeting of double-stranded DNA Lohse, J.; Dahl, O.; Nielsen, P. E. Proceedings of the National Academy of Sciences, Vol. 96, Issue 21 https://doi.org/10.1073/pnas.96.21.11804	journal	October 1999
Recent advances of lanthanide-doped upconversion nanoparticles for biological applications Li, Hui; Wang, Xin; Huang, Dingxin Nanotechnology, Vol. 31, Issue 7 https://doi.org/10.1088/1361-6528/ab4f36	journal	November 2019
DNA-mediated excitonic upconversion FRET switching Kellis, Donald L.; Rehn, Sarah M.; Cannon, Brittany L. New Journal of Physics, Vol. 17, Issue 11 https://doi.org/10.1088/1367-2630/17/11/115007	journal	November 2015
Entanglement dynamics of J-aggregate systems Thilagam, A. Journal of Physics A: Mathematical and Theoretical, Vol. 44, Issue 13 https://doi.org/10.1088/1751-8113/44/13/135306	journal	March 2011
WhenR > 0.8R₀: fluorescence anisotropy, non-additive intensity, and cluster size Zolmajd-Haghighi, Z.; Hanley, Q. S. Methods and Applications in Fluorescence, Vol. 4, Issue 2 https://doi.org/10.1088/2050-6120/4/2/024006	journal	June 2016
Fluorophore photostability and saturation in the hotspot of DNA origami nanoantennas Grabenhorst, Lennart; Trofymchuk, Kateryna; Steiner, Florian Methods and Applications in Fluorescence, Vol. 8, Issue 2 https://doi.org/10.1088/2050-6120/ab6ac8	journal	February 2020
Kappaphobia is the elephant in the fret room VanDerMeer, B. Wieb Methods and Applications in Fluorescence, Vol. 8, Issue 3 https://doi.org/10.1088/2050-6120/ab8f87	journal	June 2020
Quo vadis FRET? Förster’s method in the era of superresolution Szabó, Ágnes; Szendi-Szatmári, Tímea; Szöllősi, János Methods and Applications in Fluorescence, Vol. 8, Issue 3 https://doi.org/10.1088/2050-6120/ab9b72	journal	July 2020
Structural and optical variation of pseudoisocyanine aggregates nucleated on DNA substrates Chiriboga, Matthew; Green, Christopher M.; Mathur, Divita Methods and Applications in Fluorescence, Vol. 11, Issue 1 https://doi.org/10.1088/2050-6120/acb2b4	journal	January 2023
Cassette labeling for facile construction of energy transfer fluorescent primers Ju, J. Nucleic Acids Research, Vol. 24, Issue 6 https://doi.org/10.1093/nar/24.6.1144	journal	March 1996
New dye-labeled terminators for improved DNA sequencing patterns Rosenblum, B. Nucleic Acids Research, Vol. 25, Issue 22 https://doi.org/10.1093/nar/25.22.4500	journal	November 1997
Adenita: interactive 3D modelling and visualization of DNA nanostructures de Llano, Elisa; Miao, Haichao; Ahmadi, Yasaman Nucleic Acids Research, Vol. 48, Issue 15 https://doi.org/10.1093/nar/gkaa593	journal	July 2020
Rapid prototyping of 3D DNA-origami shapes with caDNAno Douglas, Shawn M.; Marblestone, Adam H.; Teerapittayanon, Surat Nucleic Acids Research, Vol. 37, Issue 15 https://doi.org/10.1093/nar/gkp436	journal	June 2009
Consensus guided mutagenesis of Renilla luciferase yields enhanced stability and light output Loening, A. M. Protein Engineering Design and Selection, Vol. 19, Issue 9 https://doi.org/10.1093/protein/gzl023	journal	July 2006
Photosynthetic light harvesting: excitons and coherence Fassioli, Francesca; Dinshaw, Rayomond; Arpin, Paul C. Journal of The Royal Society Interface, Vol. 11, Issue 92 https://doi.org/10.1098/rsif.2013.0901	journal	March 2014
Synthetic DNA Synthesis and Assembly: Putting the Synthetic in Synthetic Biology Hughes, Randall A.; Ellington, Andrew D. Cold Spring Harbor Perspectives in Biology, Vol. 9, Issue 1 https://doi.org/10.1101/cshperspect.a023812	journal	January 2017
High-Performance Multiplex SNP Analysis of Three Hemochromatosis-Related Mutations With Capillary Array Electrophoresis Microplates Medintz, Igor; Wong, Wendy W.; Berti, Lorenzo Genome Research, Vol. 11, Issue 3 https://doi.org/10.1101/gr.164701	journal	March 2001
Implementation of a Frenkel exciton-based controlled phase shifter Yurke, Bernard; Elliott, Richard; Sup, Aaron Physical Review A, Vol. 107, Issue 1 https://doi.org/10.1103/PhysRevA.107.012603	journal	January 2023
Passive linear nanoscale optical and molecular electronics device synthesis from nanoparticles Yurke, Bernard; Kuang, Wan Physical Review A, Vol. 81, Issue 3 https://doi.org/10.1103/PhysRevA.81.033814	journal	March 2010
Generalized Random-Walk Model for Singlet-Exciton Energy Transfer Soos, Zoltán G.; Powell, Richard C. Physical Review B, Vol. 6, Issue 10 https://doi.org/10.1103/PhysRevB.6.4035	journal	November 1972
Concentration dependence of Förster resonant energy transfer between donor and acceptor nanocrystal quantum dot layers: Effect of donor-donor interactions Lunz, Manuela; Bradley, A. Louise; Gerard, Valerie A. Physical Review B, Vol. 83, Issue 11 https://doi.org/10.1103/PhysRevB.83.115423	journal	March 2011
FRET based characterization of DNA-based assemblies Buckhout-White, Susan; Gray, Rochester; Ancona, Mario SPIE Proceedings https://doi.org/10.1117/12.2050923	conference	May 2014
Using DNA nanostructures to harvest light and create energy transfer and harvesting systems Díaz, Sebastián A.; Buckhout-White, Susan; Brown, Carl W. SPIE Proceedings https://doi.org/10.1117/12.2242727	conference	December 2016
Autonomously designed free-form 2D DNA origami Jun, Hyungmin; Zhang, Fei; Shepherd, Tyson Science Advances, Vol. 5, Issue 1 https://doi.org/10.1126/sciadv.aav0655	journal	January 2019
The sequence of events during folding of a DNA origami Schneider, Fabian; Möritz, Natalie; Dietz, Hendrik Science Advances, Vol. 5, Issue 5 https://doi.org/10.1126/sciadv.aaw1412	journal	May 2019
DNA Origami with Complex Curvatures in Three-Dimensional Space Han, D.; Pal, S.; Nangreave, J. Science, Vol. 332, Issue 6027 https://doi.org/10.1126/science.1202998	journal	April 2011
Three-Dimensional Structures Self-Assembled from DNA Bricks Ke, Y.; Ong, L. L.; Shih, W. M. Science, Vol. 338, Issue 6111 https://doi.org/10.1126/science.1227268	journal	November 2012
Rapid Folding of DNA into Nanoscale Shapes at Constant Temperature Sobczak, J. -P. J.; Martin, T. G.; Gerling, T. Science, Vol. 338, Issue 6113 https://doi.org/10.1126/science.1229919	journal	December 2012
Universal Computation by Multiparticle Quantum Walk Childs, A. M.; Gosset, D.; Webb, Z. Science, Vol. 339, Issue 6121 https://doi.org/10.1126/science.1229957	journal	February 2013
Sequence-selective recognition of DNA by strand displacement with a thymine-substituted polyamide Nielsen, P.; Egholm, M.; Berg, R. Science, Vol. 254, Issue 5037 https://doi.org/10.1126/science.1962210	journal	December 1991
Designer nanoscale DNA assemblies programmed from the top down Veneziano, R.; Ratanalert, S.; Zhang, K. Science, Vol. 352, Issue 6293 https://doi.org/10.1126/science.aaf4388	journal	May 2016
Quantum Information Processing Attributes of J-Aggregates Thilagam, A. J-Aggregates https://doi.org/10.1142/9789814365796_0010	book	March 2012
Developing FRET Networks for Sensing Algar, W. Russ; Krause, Katherine D. Annual Review of Analytical Chemistry, Vol. 15, Issue 1 https://doi.org/10.1146/annurev-anchem-061020-014925	journal	June 2022
Coherence in Energy Transfer and Photosynthesis Chenu, Aurélia; Scholes, Gregory D. Annual Review of Physical Chemistry, Vol. 66, Issue 1 https://doi.org/10.1146/annurev-physchem-040214-121713	journal	April 2015
The Structure and Dynamics of Molecular Excitons Bardeen, Christopher J. Annual Review of Physical Chemistry, Vol. 65, Issue 1 https://doi.org/10.1146/annurev-physchem-040513-103654	journal	April 2014
Chiral Plasmonic Nanostructures Enabled by Bottom-Up Approaches Urban, Maximilian J.; Shen, Chenqi; Kong, Xiang-Tian Annual Review of Physical Chemistry, Vol. 70, Issue 1 https://doi.org/10.1146/annurev-physchem-050317-021332	journal	June 2019
L ONG -R ANGE R ESONANCE E NERGY T RANSFER IN M OLECULAR S YSTEMS Scholes, Gregory D. Annual Review of Physical Chemistry, Vol. 54, Issue 1 https://doi.org/10.1146/annurev.physchem.54.011002.103746	journal	October 2003
T WO -D IMENSIONAL F EMTOSECOND S PECTROSCOPY Jonas, David M. Annual Review of Physical Chemistry, Vol. 54, Issue 1 https://doi.org/10.1146/annurev.physchem.54.011002.103907	journal	October 2003
Morpholino antisense oligonucleotides: tools for investigating vertebrate development Corey, David R.; Abrams, John M. Genome Biology, Vol. 2, Issue 5, p. reviews1015.1-1015.3 https://doi.org/10.1186/gb-2001-2-5-reviews1015	journal	January 2001
Accelerated FRET-PAINT microscopy Lee, Jongjin; Park, Sangjun; Hohng, Sungchul Molecular Brain, Vol. 11, Issue 1 https://doi.org/10.1186/s13041-018-0414-3	journal	November 2018
The Random Walk Between a Reflecting and an Absorbing Barrier Weesakul, B. The Annals of Mathematical Statistics, Vol. 32, Issue 3 https://doi.org/10.1214/aoms/1177704971	journal	September 1961
The DNA Duplex as an Aqueous One-Dimensional Soft Crystal Scaffold for Photochemistry Asanuma, Hiroyuki; Murayama, Keiji; Kamiya, Yukiko Bulletin of the Chemical Society of Japan, Vol. 91, Issue 12 https://doi.org/10.1246/bcsj.20180278	journal	December 2018
The exciton model in molecular spectroscopy Kasha, M.; Rawls, H. R.; Ashraf El-Bayoumi, M. Pure and Applied Chemistry, Vol. 11, Issue 3-4 https://doi.org/10.1351/pac196511030371	journal	January 1965
Combining semiconductor quantum dots and bioscaffolds into nanoscale energy transfer devices Spillmann, Christopher M.; Stewart, Michael H.; Susumu, Kimihiro Applied Optics, Vol. 54, Issue 31 https://doi.org/10.1364/AO.54.000F85	journal	August 2015
Tracing photon transmission in dye-doped DNA-CTMA optical nanofibers Long, Weihong; Zou, Weiwen; Li, Xing Optics Express, Vol. 22, Issue 6 https://doi.org/10.1364/OE.22.006249	journal	March 2014
Homodimerization of Amyloid Precursor Protein at the Plasma Membrane: A homoFRET Study by Time-Resolved Fluorescence Anisotropy Imaging Devauges, Viviane; Marquer, Catherine; Lécart, Sandrine PLoS ONE, Vol. 7, Issue 9 https://doi.org/10.1371/journal.pone.0044434	journal	September 2012
Next-Generation Sequencing: From Basic Research to Diagnostics Voelkerding, K. V.; Dames, S. A.; Durtschi, J. D. Clinical Chemistry, Vol. 55, Issue 4 https://doi.org/10.1373/clinchem.2008.112789	journal	February 2009
Strong plasmonic enhancement of single molecule photostability in silver dimer optical antennas Kaminska, Izabela; Vietz, Carolin; Cuartero-González, Álvaro Nanophotonics, Vol. 7, Issue 3 https://doi.org/10.1515/nanoph-2017-0081	journal	February 2018
Energy Transfer Mechanisms and the Molecular Exciton Model for Molecular Aggregates^{1, 2} Kasha, Michael Radiation Research, Vol. 178, Issue 2 https://doi.org/10.1667/RRAV03.1	journal	August 2012
Pyrene Excimer for DNA Sensors Wang, Chunming; Wu, Cuichen; Chen, Yan Current Organic Chemistry, Vol. 15, Issue 4 https://doi.org/10.2174/138527211794474465	journal	February 2011
Energy Transfer Mechanisms and the Molecular Exciton Model for Molecular Aggregates Kasha, Michael Radiation Research, Vol. 20, Issue 1 https://doi.org/10.2307/3571331	journal	September 1963
Large-Scale de novo Oligonucleotide Synthesis for Whole-Genome Synthesis and Data Storage: Challenges and Opportunities Song, Li-Fu; Deng, Zheng-Hua; Gong, Zi-Yi Frontiers in Bioengineering and Biotechnology, Vol. 9 https://doi.org/10.3389/fbioe.2021.689797	journal	June 2021
Strategies for Controlling the Spatial Orientation of Single Molecules Tethered on DNA Origami Templates Physisorbed on Glass Substrates: Intercalation and Stretching Cervantes-Salguero, Keitel; Biaggne, Austin; Youngsman, John M. International Journal of Molecular Sciences, Vol. 23, Issue 14 https://doi.org/10.3390/ijms23147690	journal	July 2022
Advanced Fluorescence Microscopy Techniques—FRAP, FLIP, FLAP, FRET and FLIM Ishikawa-Ankerhold, Hellen C.; Ankerhold, Richard; Drummen, Gregor P. C. Molecules, Vol. 17, Issue 4 https://doi.org/10.3390/molecules17044047	journal	April 2012
Recent Advances in Nucleic Acid Targeting Probes and Supramolecular Constructs Based on Pyrene-Modified Oligonucleotides Krasheninina, Olga A.; Novopashina, Darya S.; Apartsin, Evgeny K. Molecules, Vol. 22, Issue 12 https://doi.org/10.3390/molecules22122108	journal	November 2017
Solid-Phase Synthesis of Phosphorothioate/Phosphonothioate and Phosphoramidate/Phosphonamidate Oligonucleotides Kostov, Ondřej; Liboska, Radek; Páv, Ondřej Molecules, Vol. 24, Issue 10 https://doi.org/10.3390/molecules24101872	journal	May 2019
Bridged Nucleic Acids Reloaded Soler-Bistué, Alfonso; Zorreguieta, Angeles; Tolmasky, Marcelo E. Molecules, Vol. 24, Issue 12 https://doi.org/10.3390/molecules24122297	journal	June 2019
The Business of DNA Nanotechnology: Commercialization of Origami and Other Technologies Dunn, Katherine E. Molecules, Vol. 25, Issue 2 https://doi.org/10.3390/molecules25020377	journal	January 2020
Synthesis of DNA Origami Scaffolds: Current and Emerging Strategies Bush, Joshua; Singh, Shrishti; Vargas, Merlyn Molecules, Vol. 25, Issue 15 https://doi.org/10.3390/molecules25153386	journal	July 2020
Substituent Effects on the Solubility and Electronic Properties of the Cyanine Dye Cy5: Density Functional and Time-Dependent Density Functional Theory Calculations Biaggne, Austin; Knowlton, William B.; Yurke, Bernard Molecules, Vol. 26, Issue 3 https://doi.org/10.3390/molecules26030524	journal	January 2021
Clinical Perspectives of Theranostics Okamoto, Shozo; Shiga, Tohru; Tamaki, Nagara Molecules, Vol. 26, Issue 8 https://doi.org/10.3390/molecules26082232	journal	April 2021
Effect of Substituent Location on the Relationship between the Transition Dipole Moments, Difference Static Dipole, and Hydrophobicity in Squaraine Dyes for Quantum Information Devices Ketteridge, Maia; Biaggne, Austin; Rau, Ryan Molecules, Vol. 28, Issue 5 https://doi.org/10.3390/molecules28052163	journal	February 2023
Bioluminescence-Based Energy Transfer Using Semiconductor Quantum Dots as Acceptors Samanta, Anirban; Medintz, Igor L. Sensors, Vol. 20, Issue 10 https://doi.org/10.3390/s20102909	journal	May 2020
Single-stranded circular DNA theranostics Shen, Tingting; Zhang, Yu; Mei, Lei Theranostics, Vol. 12, Issue 1 https://doi.org/10.7150/thno.66466	journal	January 2022
Macrophage Targeted Theranostics as Personalized Nanomedicine Strategies for Inflammatory Diseases Patel, Sravan Kumar; Janjic, Jelena M. Theranostics, Vol. 5, Issue 2 https://doi.org/10.7150/thno.9476	journal	January 2015
FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices Lerner, Eitan; Barth, Anders; Hendrix, Jelle eLife, Vol. 10 https://doi.org/10.7554/eLife.60416	journal	March 2021

Similar Records

Two‐Dimensional Excitonic Networks Directed by DNA Templates as an Efficient Model Light‐Harvesting and Energy Transfer System

Journal Article · 2022 · Angewandte Chemie · OSTI ID:1903057

Zhou, Xu; Satyabola, Deeksha; Liu, Hao; +7 more

Tunable and Robust Optical and Structural Properties of a Cooperative Squaraine-Dye Aggregate-DNA DX-DAE Tile System

Journal Article · 2025 · Nanoscale · OSTI ID:2564989

Roy, Simon K.; Olaso, Nolan; Davis, Paul H.; +7 more

Two–Dimensional Excitonic Networks Directed by DNA Templates as an Efficient Model Light–Harvesting and Energy Transfer System

Journal Article · 2022 · Angewandte Chemie (International Edition) · OSTI ID:2420490

Zhou, Xu; Satyabola, Deeksha; Liu, Hao; +7 more

Related Subjects

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY
59 BASIC BIOLOGICAL SCIENCES
DNA nanotechnology
Excitonic energy transfer (ET)
Fluorophores
Optical applications
Self-assembly

Title: Pursuing excitonic energy transfer with programmable DNA-based optical breadboards

Citation Formats

References (467)

Similar Records

Related Subjects