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}
@article{doi:10.1021/acs.nanolett.7b05075,
author = {Zhang, Jingyuan Linda and Sun, Shuo and Burek, Michael J. and Dory, Constantin and Tzeng, Yan-Kai and Fischer, Kevin A. and Kelaita, Yousif and Lagoudakis, Konstantinos G. and Radulaski, Marina and Shen, Zhi-Xun and Melosh, Nicholas A. and Chu, Steven and Lončar, Marko and Vučković, Jelena},
title = {Strongly Cavity-Enhanced Spontaneous Emission from Silicon-Vacancy Centers in Diamond},
journal = {Nano Lett.},
volume = {18},
number = {2},
pages = {1360-1365},
year = {2018},
doi = {10.1021/acs.nanolett.7b05075}
}
@book{geddes2005radiative,
title={Radiative Decay Engineering},
author={Geddes, C.D. and Lakowicz, J.R.},
isbn={9780387226620},
lccn={91032671},
series={Topics in Fluorescence Spectroscopy},
year={2005},
publisher={Springer US},
url={http://link.springer.com/978-0-387-27617-5}
}
@article{russell2012large,
title={Large spontaneous emission enhancement in plasmonic nanocavities},
author={Russell, Kasey J and Liu, Tsung-Li and Cui, Shanying and Hu, Evelyn L},
journal={Nature Photonics},
volume={6},
number={7},
pages={459},
year={2012},
publisher={Nature Publishing Group},
doi={10.1038/nphoton.2012.112}
}
@article{PhysRevA.45.4879,
title = {Monte Carlo simulation of the atomic master equation for spontaneous emission},
author = {Dum, R. and Zoller, P. and Ritsch, H.},
journal = {Phys. Rev. A},
volume = {45},
issue = {7},
pages = {4879--4887},
numpages = {0},
year = {1992},
month = {Apr},
publisher = {American Physical Society},
doi = {10.1103/PhysRevA.45.4879},
url = {https://link.aps.org/doi/10.1103/PhysRevA.45.4879}
}
@article{Witthaut_2010,
doi = {10.1088/1367-2630/12/4/043052},
url = {https://doi.org/10.1088%2F1367-2630%2F12%2F4%2F043052},
year = 2010,
month = {apr},
publisher = {{IOP} Publishing},
volume = {12},
number = {4},
pages = {043052},
author = {D Witthaut and A S S{\o}rensen},
title = {Photon scattering by a three-level emitter in a one-dimensional waveguide},
journal = {New Journal of Physics},
abstract = {We discuss the scattering of photons from a three-level emitter in a one-dimensional waveguide, where the transport is governed by the interference of spontaneously emitted and directly transmitted waves. The scattering problem is solved in closed form for different level structures. Several possible applications are discussed: the state of the emitter can be switched deterministically by Raman scattering, thus enabling applications in quantum computing such as a single-photon transistor. An array of emitters gives rise to a photonic band gap structure, which can be tuned by a classical driving laser. A disordered array leads to Anderson localization of photons, where the localization length can again be controlled by an external driving.}
}
@article{PhysRevLett.106.053601,
title = {Two-Photon Scattering by a Driven Three-Level Emitter in a One-Dimensional Waveguide and Electromagnetically Induced Transparency},
author = {Roy, Dibyendu},
journal = {Phys. Rev. Lett.},
volume = {106},
issue = {5},
pages = {053601},
numpages = {4},
year = {2011},
month = {Feb},
publisher = {American Physical Society},
doi = {10.1103/PhysRevLett.106.053601},
url = {https://link.aps.org/doi/10.1103/PhysRevLett.106.053601}
}
@article{doi:10.1021/jp1043392,
author = {Chen, Hanning and McMahon, Jeffrey M. and Ratner, Mark A. and Schatz, George C.},
title = {Classical Electrodynamics Coupled to Quantum Mechanics for Calculation of Molecular Optical Properties: a {RT}-{TDDFT}/{FDTD} Approach},
journal = {The Journal of Physical Chemistry C},
volume = {114},
number = {34},
pages = {14384-14392},
year = {2010},
doi = {10.1021/jp1043392},
URL = {
https://doi.org/10.1021/jp1043392
},
eprint = {
https://doi.org/10.1021/jp1043392
}
}
@article{PhysRevLett.95.013904,
title = {Controlling the Spontaneous Emission Rate of Single Quantum Dots in a Two-Dimensional Photonic Crystal},
author = {Englund, Dirk and Fattal, David and Waks, Edo and Solomon, Glenn and Zhang, Bingyang and Nakaoka, Toshihiro and Arakawa, Yasuhiko and Yamamoto, Yoshihisa and Vu\ifmmode \check{c}\else \v{c}\fi{}kovi\ifmmode \acute{c}\else \'{c}\fi{}, Jelena},
journal = {Phys. Rev. Lett.},
volume = {95},
issue = {1},
pages = {013904},
numpages = {4},
year = {2005},
month = {Jul},
publisher = {American Physical Society},
doi = {10.1103/PhysRevLett.95.013904},
url = {https://link.aps.org/doi/10.1103/PhysRevLett.95.013904}
}
@article{10027784586,
author="PURCELL, E. M.",
title="Spontaneous emission probabilities at radio frequencies",
journal="Phys. Rev.",
ISSN="",
publisher="",
year="1946",
month="",
volume="69",
number="",
pages="681"
}
@Article{FriskKockum2019,
author={Frisk Kockum, Anton
and Miranowicz, Adam
and De Liberato, Simone
and Savasta, Salvatore
and Nori, Franco},
title={Ultrastrong coupling between light and matter},
journal={Nature Reviews Physics},
year={2019},
volume={1},
number={1},
pages={19-40},
abstract={Light-matter coupling with strength comparable to the bare transition frequencies of the system is called ultrastrong. This Review surveys how experiments have realized ultrastrong coupling in the past decade, the new phenomena predicted in this regime and the applications it enables.},
issn={2522-5820},
doi={10.1038/s42254-018-0006-2},
url={https://doi.org/10.1038/s42254-018-0006-2}
}
@article{RevModPhys.87.347,
title = {Interfacing single photons and single quantum dots with photonic nanostructures},
author = {Lodahl, Peter and Mahmoodian, Sahand and Stobbe, S\o{}ren},
journal = {Rev. Mod. Phys.},
volume = {87},
issue = {2},
pages = {347--400},
numpages = {54},
year = {2015},
month = {May},
publisher = {American Physical Society},
doi = {10.1103/RevModPhys.87.347},
url = {https://link.aps.org/doi/10.1103/RevModPhys.87.347}
}
@article{javadi2018numerical,
author = {Alisa Javadi and Sahand Mahmoodian and Immo S\"{o}llner and Peter Lodahl},
journal = {J. Opt. Soc. Am. B},
keywords = {Atomic and molecular physics; Quantum electrodynamics; Nanophotonics and photonic crystals ; Photonic crystal waveguides ; Photonic crystals ; Electric fields; Light matter interactions; Photonic crystal waveguides; Photonic crystals; Spontaneous emission; Waveguide modes},
number = {3},
pages = {514--522},
publisher = {OSA},
title = {Numerical modeling of the coupling efficiency of single quantum emitters in photonic-crystal waveguides},
volume = {35},
month = {Mar},
year = {2018},
doi = {10.1364/JOSAB.35.000514}
}
@Article{Hoang2015,
author={Hoang, Thang B.
and Akselrod, Gleb M.
and Argyropoulos, Christos
and Huang, Jiani
and Smith, David R.
and Mikkelsen, Maiken H.},
title={Ultrafast spontaneous emission source using plasmonic nanoantennas},
journal={Nature Communications},
year={2015},
month={Jul},
day={27},
publisher={The Author(s) SN -},
volume={6},
pages={7788 EP -},
note={Article},
url={https://doi.org/10.1038/ncomms8788}
}
@article{cao2000transition,
title = {Transition from amplified spontaneous emission to laser action in strongly scattering media},
author = {Cao, H. and Xu, J. Y. and Chang, S.-H. and Ho, S. T.},
journal = {Phys. Rev. E},
volume = {61},
issue = {2},
pages = {1985--1989},
numpages = {0},
year = {2000},
month = {Feb},
publisher = {American Physical Society},
doi = {10.1103/PhysRevE.61.1985}
}
@article{collins1997porous,
title={Porous silicon: from luminescence to LEDs},
author={Collins, Reuben T and Fauchet, Philippe and Tischler, Michael A},
journal={Physics Today},
volume={50},
pages={24--31},
year={1997}
}
@article{shi2010optical,
title={Optical response of a flat metallic surface coated with a monolayer array of latex spheres},
author={Shi, Lei and Liu, Xiaohan and Yin, Haiwei and Zi, Jian},
journal={Physics Letters A},
volume={374},
number={8},
pages={1059--1062},
year={2010},
publisher={Elsevier}
}
@article{li2012aluminum,
title={Aluminum oxide nanostructure-based substrates for fluorescence enhancement},
author={Li, Xiang and He, Yuan and Zhang, Tianhua and Que, Long},
journal={Optics express},
volume={20},
number={19},
pages={21272--21277},
year={2012},
publisher={Optical Society of America}
}
@article{Lee:18,
author = {Seung Yup Lee and Mary-Ann Mycek},
journal = {Opt. Lett.},
keywords = {Spectroscopy, fluorescence and luminescence; Spectroscopy, tissue diagnostics; Turbid media; Absorption coefficient; Diode lasers; Fluorescence spectroscopy; Geometric optical design; Time resolved spectroscopy; Total internal reflection},
number = {16},
pages = {3846--3849},
publisher = {OSA},
title = {Hybrid Monte Carlo simulation with ray tracing for fluorescence measurements in turbid media},
volume = {43},
month = {Aug},
year = {2018},
url = {http://ol.osa.org/abstract.cfm?URI=ol-43-16-3846},
doi = {10.1364/OL.43.003846},
abstract = {We present a hybrid Monte Carlo simulation method with geometrical ray tracing (hMC-GRT) to model fluorescence excitation and detection in turbid media by optical imaging or spectroscopy systems employing a variety of optical components. hMC-GRT computational verification was achieved via reflectance and fluorescence simulations on epithelial tissue models in comparison with a standard Monte Carlo code. The mean difference between the two simulations was less than 5\%. hMC-GRT experimental verification employed depth-sensitive steady-state fluorescence measurements using an aspherical lens on two-layered tissue phantoms. hMC-GRT predictions agreed well with experimental results, achieving less than 3.5\% error for measurements at the phantom surface. Verification results demonstrate that the hMC-GRT simulation has the potential to become a useful computational toolbox for designing tissue fluorescence imaging and spectroscopy systems. In addition, the hMC-GRT approach enables a wide variety of applications for computational modeling of fluorescence in turbid media. The source codes are available at https://github.com/ubioptronics/hMC-GRT.},
}
@article{Shcheslavskiy:18,
author = {Vladislav I. Shcheslavskiy and Marina V. Shirmanova and Varvara V. Dudenkova and Konstantin A. Lukyanov and Alena I. Gavrina and Anastasia V. Shumilova and Elena Zagaynova and Wolfgang Becker},
journal = {Opt. Lett.},
keywords = {Medical optics and biotechnology; Biology; Lifetime-based sensing; Spectroscopy, fluorescence and luminescence; Spectroscopy, tissue diagnostics; Diode lasers; Fluorescence resonance energy transfer; High power lasers; Imaging techniques; Light sheet microscopy; Three dimensional imaging},
number = {13},
pages = {3152--3155},
publisher = {OSA},
title = {Fluorescence time-resolved macroimaging},
volume = {43},
month = {Jul},
year = {2018},
url = {http://ol.osa.org/abstract.cfm?URI=ol-43-13-3152},
doi = {10.1364/OL.43.003152},
abstract = {While laser scanning fluorescence lifetime imaging (FLIM) is a powerful approach for cell biology, its small field of view (typically less than 1\&\#x00A0;mm) makes it impractical for the imaging of large biological samples that is often required for biomedical applications. Here we present a system that allows performing FLIM on macroscopic samples as large as 18\&\#x00A0;mm with a lateral resolution of 15\&\#x00A0;\&\#x03BC;m. The performance of the system is verified with FLIM of endogenous metabolic cofactor reduced nicotinamide adenine dinucleotide (phosphate), NAD(P)H, and genetically encoded fluorescent protein mKate2 in a mouse tumor in vivo.},
}
@article{Bradford:14,
author = {Matthew Bradford and Jung-Tsung Shen},
journal = {Opt. Lett.},
keywords = {Multiphoton processes; Photon statistics; Coherent states; Electric fields; Photon correlations; Photons; Resonance fluorescence; Spontaneous emission},
number = {19},
pages = {5558--5561},
publisher = {OSA},
title = {Numerical approach to statistical properties of resonance fluorescence},
volume = {39},
month = {Oct},
year = {2014},
url = {http://ol.osa.org/abstract.cfm?URI=ol-39-19-5558},
doi = {10.1364/OL.39.005558},
abstract = {We formulate a numerical scheme to investigate the correlation of photons scattered by a two-level atom coupled to a waveguide, and compute the second-order correlation function. We also show that a three-dimensional resonance fluorescence experiment can be mapped into the one-dimensional situation studied here. The correlation functions for both cases show excellent agreement.},
}
@article{Mukherjee:12,
author = {Ishita Mukherjee and Reuven Gordon},
journal = {Opt. Express},
keywords = {Numerical approximation and analysis; Photonic crystals ; Plasmonics; Field enhancement; Finite difference time domain; Local field effects; Numerical simulation; Photonic crystal cavities; Photonic crystals},
number = {15},
pages = {16992--17000},
publisher = {OSA},
title = {Analysis of hybrid plasmonic-photonic crystal structures using perturbation theory},
volume = {20},
month = {Jul},
year = {2012},
url = {http://www.opticsexpress.org/abstract.cfm?URI=oe-20-15-16992},
doi = {10.1364/OE.20.016992},
abstract = {A perturbation theory approach for the analysis of hybrid plasmonic- photonic crystal structures is presented. This theory allows for accurate calculation of the resonance frequency shift and quality factor change when introducing a resonant plasmonic structure into a photonic crystal microcavity. An example calculation is shown, agreeing to within 5\% with comprehensive finite difference time domain simulations but taking an order of magnitude less time. This theoretical approach overcomes the challenge of poor scaling in computations with hybrid plasmonic-photonic crystal structures, allowing for rapid design optimization in such hybrid geometries.},
}
@article{tan2011building,
title={Building plasmonic nanostructures with DNA},
author={Tan, Shawn J and Campolongo, Michael J and Luo, Dan and Cheng, Wenlong},
journal={Nature nanotechnology},
volume={6},
number={5},
pages={268},
year={2011},
publisher={Nature Publishing Group}
}
@article{sani2018anderson,
title={Anderson localization of surface plasmons in monolayer graphene},
author={Sani, Milad and Farzad, M Hosseini},
journal={Physical Review B},
volume={97},
number={8},
pages={085406},
year={2018},
publisher={APS}
}
@article{PhysRevLett.67.2601,
title = {Numerical method for the propagation of quantum-mechanical wave functions in phase space},
author = {Torres-Vega, Go. and Frederick, John H.},
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volume = {67},
issue = {19},
pages = {2601--2604},
numpages = {0},
year = {1991},
month = {Nov},
publisher = {American Physical Society},
doi = {10.1103/PhysRevLett.67.2601},
url = {https://link.aps.org/doi/10.1103/PhysRevLett.67.2601}
}
@article{PhysRevLett.65.137,
title = {New numerical method to study phase transitions},
author = {Lee, Jooyoung and Kosterlitz, J. M.},
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issue = {2},
pages = {137--140},
numpages = {0},
year = {1990},
month = {Jul},
publisher = {American Physical Society},
doi = {10.1103/PhysRevLett.65.137},
url = {https://link.aps.org/doi/10.1103/PhysRevLett.65.137}
}
@article{PhysRevX.6.011011,
title = {Immense Magnetic Response of Exciplex Light Emission due to Correlated Spin-Charge Dynamics},
author = {Wang, Yifei and Sahin-Tiras, Kevser and Harmon, Nicholas J. and Wohlgenannt, Markus and Flatt\'e, Michael E.},
journal = {Phys. Rev. X},
volume = {6},
issue = {1},
pages = {011011},
numpages = {12},
year = {2016},
month = {Feb},
publisher = {American Physical Society},
doi = {10.1103/PhysRevX.6.011011},
url = {https://link.aps.org/doi/10.1103/PhysRevX.6.011011}
}
@article{PhysRevA.97.042501,
title = {Theoretical and experimental determination of $K$- and $L$-shell x-ray relaxation parameters in Ni},
author = {Guerra, M. and Sampaio, J. M. and Parente, F. and Indelicato, P. and H\"onicke, P. and M\"uller, M. and Beckhoff, B. and Marques, J. P. and Santos, J. P.},
journal = {Phys. Rev. A},
volume = {97},
issue = {4},
pages = {042501},
numpages = {10},
year = {2018},
month = {Apr},
publisher = {American Physical Society},
doi = {10.1103/PhysRevA.97.042501},
url = {https://link.aps.org/doi/10.1103/PhysRevA.97.042501}
}
@article{martienssen1964coherence,
author = {Martienssen,W. and Spiller,E. },
title = {Coherence and Fluctuations in Light Beams},
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pages = {919-926},
year = {1964},
doi = {10.1119/1.1970023}
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title = {Young's double-slit experiment with atoms: A simple atom interferometer},
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issue = {21},
pages = {2689--2692},
numpages = {0},
year = {1991},
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}
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title = "See Supplemental Material at [URL will be inserted by publisher] for a detailed description of the proposed numerical method including a flowchart of the implemented algorithm.",
url = "https://journals.aps.org/prl/supplemental/..."
}
@book{goodman2015statistical,
title={Statistical optics},
author={Goodman, Joseph W},
year={2015},
publisher={John Wiley \& Sons}
}
@article{kretschmann1968radiative,
title={Radiative decay of non radiative surface plasmons excited by light},
author={Kretschmann, Erwin and Raether, Heinz},
journal={Zeitschrift f{\"u}r Naturforschung A},
volume={23},
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pages={2135--2136},
year={1968}
}
@article{roden2000convolutional,
author = {Roden, J. Alan and Gedney, Stephen D.},
title = {Convolution {PML} ({CPML}): An efficient {FDTD} implementation of the {CFS}-{PML} for arbitrary media},
journal = {Microwave and Optical Technology Letters},
volume = {27},
number = {5},
pages = {334-339},
keywords = {finite-difference time domain (FDTD), perfectly matched layer (PML), stretched coordinates},
doi = {10.1002/1098-2760(20001205)27:5<334::AID-MOP14>3.0.CO;2-A},
year = {2000}
}
@article{berenger2002application,
author={J. -. {Berenger}},
journal={IEEE Microwave and Wireless Components Letters},
title={Application of the {CFS} {PML} to the absorption of evanescent waves in waveguides},
year={2002},
volume={12},
number={6},
pages={218-220},
doi={10.1109/LMWC.2002.1010000},
ISSN={1531-1309},
month={June}
}
@article{jablonski1933efficiency,
title={Efficiency of anti-Stokes fluorescence in dyes},
author={Jablonski, Aleksander},
journal={Nature},
volume={131},
number={839-840},
pages={21},
year={1933},
doi={10.1038/131839b0}
}
@book{taflove2005computational,
title={Computational electrodynamics: the finite-difference time-domain method},
author={Taflove, Allen and Hagness, Susan C},
year={2005},
publisher={Artech house}
}
@book{taflove2013advances,
title={Advances in {FDTD} computational electrodynamics: photonics and nanotechnology},
author={Taflove, Allen and Oskooi, Ardavan and Johnson, Steven G},
year={2013},
publisher={Artech House}
}
@article{ribeiro2017artefact,
title={Artefact-free Evaluation of Metal Enhanced Fluorescence in Silica Coated Gold Nanoparticles},
author={Ribeiro, T{\^a}nia and Baleiz{\~a}o, Carlos and Farinha, Jos{\'e} Paulo S},
journal={Scientific Reports},
volume={7},
year={2017},
publisher={Nature Publishing Group},
doi={10.1038/s41598-017-02678-0}
}
@Article{Selvin2000,
author={Selvin, Paul R.},
title={The renaissance of fluorescence resonance energy transfer},
journal={Nature Structural Biology},
year={2000},
volume={7},
number={9},
pages={730-734},
abstract={Recent advances in fluorescence resonance energy transfer have led to qualitative and quantitative improvements in the technique, including increased spatial resolution, distance range, and sensitivity. These advances, due largely to new fluorescent dyes, but also to new optical methods and instrumentation, have opened up new biological applications.},
issn={1545-9985},
doi={10.1038/78948},
url={https://doi.org/10.1038/78948}
}
@Article{B802918K,
author ="Lakowicz, Joseph R. and Ray, Krishanu and Chowdhury, Mustafa and Szmacinski, Henryk and Fu, Yi and Zhang, Jian and Nowaczyk, Kazimierz",
title ="Plasmon-controlled fluorescence: a new paradigm in fluorescence spectroscopy",
journal ="Analyst",
year ="2008",
volume ="133",
issue ="10",
pages ="1308-1346",
publisher ="The Royal Society of Chemistry",
doi ="10.1039/B802918K",
url ="http://dx.doi.org/10.1039/B802918K"
}
@article{doi:10.1021/jz201392k,
author = {Ming, Tian and Chen, Huanjun and Jiang, Ruibin and Li, Qian and Wang, Jianfang},
title = {Plasmon-Controlled Fluorescence: Beyond the Intensity Enhancement},
journal = {The Journal of Physical Chemistry Letters},
volume = {3},
number = {2},
pages = {191-202},
year = {2012},
doi = {10.1021/jz201392k},
URL = {
https://doi.org/10.1021/jz201392k
},
eprint = {
https://doi.org/10.1021/jz201392k
}
}
@article{naiki2012highly,
title={Highly controlled plasmonic emission enhancement from metal-semiconductor quantum dot complex nanostructures},
author={Naiki, Hiroyuki and Masuhara, Akito and Masuo, Sadahiro and Onodera, Tsunenobu and Kasai, Hitoshi and Oikawa, Hidetoshi},
journal={The Journal of Physical Chemistry C},
volume={117},
number={6},
pages={2455--2459},
year={2012},
publisher={ACS Publications}
}
@article{zhao2014gold,
title={Gold nanorod enhanced two-photon excitation fluorescence of photosensitizers for two-photon imaging and photodynamic therapy},
author={Zhao, Tingting and Yu, Kuai and Li, Lin and Zhang, Taishi and Guan, Zhenping and Gao, Nengyue and Yuan, Peiyan and Li, Shuang and Yao, Shao Qin and Xu, Qing-Hua and others},
journal={ACS applied materials \& interfaces},
volume={6},
number={4},
pages={2700--2708},
year={2014},
publisher={ACS Publications}
}
@article{wang2015plasmon,
title={Plasmon-Enhanced Fluorescence-Based Core--Shell Gold Nanorods as a Near-IR Fluorescent Turn-On Sensor for the Highly Sensitive Detection of Pyrophosphate in Aqueous Solution},
author={Wang, Le and Song, Quanwei and Liu, Qiuling and He, Dacheng and Ouyang, Jin},
journal={Advanced Functional Materials},
volume={25},
number={45},
pages={7017--7027},
year={2015},
publisher={Wiley Online Library}
}
@article{anger2006enhancement,
title={Enhancement and quenching of single-molecule fluorescence},
author={Anger, Pascal and Bharadwaj, Palash and Novotny, Lukas},
journal={Phys. Rev. Lett.},
volume={96},
number={11},
pages={113002},
year={2006},
publisher={APS}
}
@article{pons2007quenching,
title={On the quenching of semiconductor quantum dot photoluminescence by proximal gold nanoparticles},
author={Pons, Thomas and Medintz, Igor L and Sapsford, Kim E and Higashiya, Seiichiro and Grimes, Amy F and English, Doug S and Mattoussi, Hedi},
journal={Nano letters},
volume={7},
number={10},
pages={3157--3164},
year={2007},
publisher={ACS Publications}
}
@article{li2009fluorescence,
title={Fluorescence quenching of quantum dots by gold nanorods and its application to DNA detection},
author={Li, Xin and Qian, Jun and Jiang, Li and He, Sailing},
journal={Applied Physics Letters},
volume={94},
number={6},
pages={063111},
year={2009},
publisher={AIP}
}
@article{reineck2013distance,
title={Distance and wavelength dependent quenching of molecular fluorescence by Au@ SiO2 core--shell nanoparticles},
author={Reineck, Philipp and G{\'o}mez, Daniel and Ng, Soon Hock and Karg, Matthias and Bell, Toby and Mulvaney, Paul and Bach, Udo},
journal={ACS nano},