Nonreciprocal excitation and entanglement dynamics of two giant atoms mediated by a waveguide.

We study the nonreciprocal excitation and entanglement dynamics of two giant atoms (GAs) coupling to a one-dimensional waveguide. With different positions of coupling points, three configurations of two separate GAs, two braided GAs, and two nested GAs are analyzed, respectively. The coupling strengths between different coupling points are considered as complex numbers with phases. For each coupling configuration, the nonreciprocal excitation dynamics and entanglement properties, which results from the phase differences of coupling strength and the phase induced by photon propagation between the two coupling points, are studied both in Markovian and non-Markovian regimes. The analytical solutions for nonreciprocal entanglement degree are given in the Markovian regime. It shows that the steady entanglement can be reached and strongly depends on the phases. Different from the case of the Markovian regime, the entanglement degree shows oscillating behavior in the non-Markovian regime. This work may find applications in the generation and controlling of entanglement in quantum networks based on waveguide quantum electrodynamics.

Frequency tunable single photon diode based on giant atom coupling to a waveguide.

The single photon scattering properties in a waveguide coupling to a giant atom with a three-level system are investigated theoretically. One of the transitions of the giant atom couples to the waveguide at two points while the other one is driven by a classical field. Using the analytical expressions of the single photon scattering amplitudes, the conditions for realizing perfect single photon nonreciprocal scattering are discussed in both Markovian regime and non-Markovian regime. In the Markovian regime, the perfect non-reciprocity can be realized by adjusting the external classical field, the energy dissipation of the giant atom, the phase difference between the two coupling strengths and the accumulated phase resulting from the photon propagating between the two coupling points. In the non-Markovian regime, the non-reciprocal scattering phenomenon becomes more abundant due to the time delay. However, the analytical results show that the perfect non-reciprocity can still be achieved. When the incident photon is resonant with the giant atom, the nonreciprocity can be switched by controlling the classical field. For the non-resonant single photon, one can adjust the Rabi frequency of the classical field to obtain the perfect non-reciprocal single photon transmission. Our work provides a manner to realize a frequency tunable single photon diode.

Tunable single photon nonreciprocal scattering based on giant atom-waveguide chiral couplings.

We theoretically investigate the single photon scattering properties in a waveguide chirally coupling to a giant atom. The single photon transmission spectrum depends on the direction of the single photon incident when the energy loss of the giant atom can not be neglected. The difference between the transmission probabilities corresponding to opposite transport direction ΔT is calculated. It shows that both of the position and width of the ΔT are dependent on the size of the giant atom. Furthermore, the position of the maximum ΔT and the frequency width of ΔT can be modulated by a classical laser beam. Our results will be beneficial to control single photons in quantum devices design involving giant atoms.

Optical nonreciprocity and nonreciprocal photonic devices with directional four-wave mixing effect.

A scheme for magnetic-free optical nonreciprocity in an ensemble of four-level cold atoms is proposed by exploiting the directional four-wave mixing effect. Using experimentally achievable parameters, the nonreciprocal optical responses of the system can be observed and the conversion on nonreciprocal transmission and nonreciprocal phase shift can be implemented. These nonreciprocal phenomena originate from the directional phase matching, which breaks the time-reversal symmetry and dynamic reciprocity of the cold atomic system. Moreover, by embedding the cold atoms into a Mach-Zehnder interferometer and choosing proper parameters, a two-port optical isolator with an isolation ratio of 79.70 dB and an insertion loss of 0.35 dB and a four-port optical circulator with a fidelity of 0.9985 and a photon survival probability of 0.9278 can be realized, which shows the high performance of isolation and circulation. The proposal may enable a new class of optically controllable cavity-free nonreciprocal devices in optical signal processing at the low light level.

Giant atom-mediated single photon routing between two waveguides.

In this work, the single photon scattering due to a giant atom coupled with a pair of waveguides is investigated theoretically. Using the real-space Hamiltonian, four scattering amplitudes are obtained, and the single photon routing properties are studied. Calculations reveal that the single photon routing properties are strongly dependent on the size of the giant atom. The possible physical mechanism is also discussed. To improve routing efficiency, the configuration where one waveguide is terminated is further studied. The calculated results indicate that an incident photon can be transferred to the other waveguide with unit efficiency by choosing the appropriate configuration for a fixed size of the giant atom. Our results may be used in quantum information processing and design quantum devices at single-photon level.

Imbalance Data Processing Strategy for Protein Interaction Sites Prediction.

Protein-protein interactions play essential roles in various biological progresses. Identifying protein interaction sites can facilitate researchers to understand life activities and therefore will be helpful for drug design. However, the number of experimental determined protein interaction sites is far less than that of protein sites in protein-protein interaction or protein complexes. Therefore, the negative and positive samples are usually imbalanced, which is common but bring result bias on the prediction of protein interaction sites by computational approaches. In this work, we presented three imbalance data processing strategies to reconstruct the original dataset, and then extracted protein features from the evolutionary conservation of amino acids to build a predictor for identification of protein interaction sites. On a dataset with 10,430 surface residues but only 2,299 interface residues, the imbalance dataset processing strategies can obviously reduce the prediction bias, and therefore improve the prediction performance of protein interaction sites. The experimental results show that our prediction models can achieve a better prediction performance, such as a prediction accuracy of 0.758, or a high F-measure of 0.737, which demonstrated the effectiveness of our method.

Potential Pathogenic Genes Prioritization Based on Protein Domain Interaction Network Analysis.

Pathogenicity-related studies are of great importance in understanding the pathogenesis of complex diseases and improving the level of clinical medicine. This work proposed a bioinformatics scheme to analyze cancer-related gene mutations, and try to figure out potential genes associated with diseases from the protein domain-domain interaction network. Herein, five measures of the principle of centrality lethality had been adopted to implement potential correlation analysis, and prioritize the significance of genes. This method was further applied to KEGG pathway analysis by taking the malignant melanoma as an example. The experimental results show that 25 domains can be found, and 18 of them have high potential to be pathogenically important related to malignant melanoma. Finally, a web-based tool, named Human Cancer Related Domain Interaction Network Analyzer, is developed for potential pathogenic genes prioritization for 26 types of human cancers, and the analysis results can be visualized and downloaded online.

Multipartite Entanglement Generation in a Structured Environment.

In this paper, we investigate the entanglement generation of n-qubit states in a model consisting of n independent qubits, each coupled to a harmonic oscillator which is in turn coupled to a bath of N additional harmonic oscillators with nearest-neighbor coupling. With analysis, we can find that the steady multipartite entanglement with different values can be generated after a long-time evolution for different sizes of the quantum system. Under weak coupling between the system and the harmonic oscillator, multipartite entanglement can monotonically increase from zero to a stable value. Under strong coupling, multipartite entanglement generation shows a speed-up increase accompanied by some oscillations as non-Markovian behavior. Our results imply that the strong coupling between the harmonic oscillator and the N additional harmonic oscillators, and the large size of the additional oscillators will enhance non-Markovian dynamics and make it take a very long time for the entanglement to reach a stable value. Meanwhile, the couplings between the additional harmonic oscillators and the decay rate of additional harmonic oscillators have almost no effect on the multipartite entanglement generation. Finally, the entanglement generation of the additional harmonic oscillators is also discussed.

Single photon polarization conversion via scattering by a pair of atoms.

The single photon scattering in one-dimensional waveguide coupled to two separated atoms is investigated. The first atom is considered as a Λ system and the second one is taken as V -type configuration. The analytical expressions of the single photon scattering spectra are obtained. The calculated results show that the polarization conversion of single photon can be realized by controlling the distance between the two atoms due to the interference effects. The conversion efficiency can reach unit in the ideal case. Furthermore, the polarization conversion of the single photon also depends on the initial state of the Λ system. The influences of dissipations on the single photon polarization conversion are also shown.

Vacuum induced transparency in metamaterials.

For the cavity-based electromagnetically induced transparent (EIT), as the coherent driving field is enhanced by the optical cavity, the weak probe field can propagate through the atomic ensemble without absorption even if the driving field is weak. The extreme case of vacuum in the cavity is called "vacuum-induced transparency" (VIT) to distinguish it from the cavity EIT. Here we construct a new kind of cavity made of Metamaterials, i.e. ε-negative (EN) and µ-negative (MN) slabs, and study the VIT phenomena of the atomic ensemble doped within it. When the impedances of the MN and EN slabs are matched to each other and the dissipation of the material is small, it behaves as a surface plasmon cavity with a huge Q factor. And the VIT phenomenon in this cavity appears. By adjusting the position of atoms, the coupling strength between the atom and the structure could be changed. Two kinds of extremes of VIT, the coherent population trapping (CPT) and the Autler-Townes splitting (ATS), can be achieved in this system easily. Our proposal could be used in the realization of ultra-strong coupling and integrated devices on quantum memory or optical switch.

Controllable single-photon nonreciprocal propagation between two waveguides chirally coupled to a quantum emitter.

We investigate coherent controlling single-photon nonreciprocal propagation in a pair of waveguides chirally coupled to an atom by using a classical optical field. The results show that for a nonresonant photon, the perfect single-photon nonreciprocal propagation can be realized by adjusting the Rabi frequency and detuning. Furthermore, the nonreciprocal propagation is switchable by using the classic field. The calculated results also show that the system can be used as a frequency filter to filter out some special frequencies for single-photon nonreciprocal propagation. The influences of nonperfect chiral coupling and dissipations on the nonreciprocal propagation are also shown.

Single photon transport in two waveguides chirally coupled by a quantum emitter.

We investigate single photon transport in two waveguides coupled to a two-level quantum emitter (QE). With the deduced analytical scattering amplitudes, we show that under condition of the chiral coupling between the QE and the photon in the two waveguides, the QE can play the role of ideal quantum router to redirect a single photon incident from one waveguide into the other waveguide with a probability of 100% in the ideal condition. The influences of cross coupling between two waveguides and dissipations on the routing are also shown.

Fano resonance analysis in a pair of semiconductor quantum dots coupling to a metal nanowire.

We investigate theoretically a surface plasmon transport in the metal nanowire coupling to a pair of quantum dots. The Fano-type transmission spectrum is analyzed. The phase shift and group velocity delay of the transmitted surface plasmon are explored. The electromagnetically-induced-transparency-type transmission spectrum is also discussed.

Optical bistability and nonlinearity of coherently coupled exciton-plasmon systems.

We theoretically investigated optical third-order nonlinearity of a coherently coupled exciton-plasmon hybrid system under a strong control field with a weak probe field. The analytic formulas of exciton population and effective third-order optical susceptibility of the hybrid of a metal nanoparticle (MNP) and a semiconductor quantum dot (SQD) were deduced. The bistable exciton population and the induced bistable nonlinear absorption and refraction response were revealed. The bistability region can be tuned by adjusting the size of metal nanoparticle, interparticle distance and intensity of control field. Our results have perspective applications in optical information processing based on resonant coupling of exciton-plasmon.

Surface plasmons amplifications in single Ag nanoring.

The stimulated amplifications of surface plasmons (SPs) propagating along a single silver nanoring is theoretically investigated by considering the interactions between SPs and activated semiconductor quantum dots (SQDs). Threshold condition for the stimulated amplifications, the SP density as a function of propagation length and the maximum SP density are obtained. The SPs can be nonlinearly amplified when the pumping rate of SQDs is larger than the threshold, and the maximum value of SP density increases linearly with the pumping rate of SQDs.

Surface plasmon propagation in a pair of metal nanowires coupled to a nanosized optical emitter.

The coupling, propagations, and far-field emissions of surface plasmons in a pair of Au nanowires with a dipole emitter have been investigated using the finite-difference time domain method. The surface plasmon wavelength is tunable from 650 to 380 nm by adjusting the distance between the two wires, which leads to an enhancement of coupling constant and density of states of the surface plasmon. The converted energy from the dipole emitter to the propagating surface plasmon as well as the far-field emission intensity of a pair of Au nanowires increase to approximately four times as large as those of a single nanowire.

Coherent exciton-plasmon interaction in the hybrid semiconductor quantum dot and metal nanoparticle complex.

We studied theoretically the exciton coherent dynamics in the hybrid complex composed of CdTe quantum dot (QDs) and rodlike Au nanoparticles (NPs) by the self-consistent approach. Through adjusting the aspect ratio of the rodlike Au NPs, the radiative rate of the exciton and the nonradiative energy transfer rate from the QD to the Au NP are tunable in the wide range 0.05-4 ns(-1) and 4.4 x 10(-4) to 2.6 ns(-1), respectively; consequently, the period of Rabi oscillations of exciton population is tunable in the range 0.6 pi-9 pi.