Challenges
Datasets
Workspaces
Papers
Discussions
Leaderboard
Log inSign up
Challenges
Datasets
Workspaces
Papers
Discussions
Leaderboard
Blog
Job Board
Q3AS

© 2026 Aqora Quantum S.A.S.

TermsPrivacyLegal Notice

Scientific Reports

Photonic reagents for concentration measurement of flu-orescent proteins with overlapping spectra

Alexei Goun, Denys I. Bondar, Ali O. Er, Zachary Quine, HERSCHEL A. RABITZ

Published May 16, 2016• 11 citations
Publisher

Abstract

By exploiting photonic reagents (i.e., coherent control by shaped laser pulses), we employ Optimal Dynamic Discrimination (ODD) as a novel means for quantitatively characterizing mixtures of fluorescent proteins with a large spectral overlap. To illustrate ODD, we simultaneously measured concentrations of in vitro mixtures of Enhanced Blue Fluorescent Protein (EBFP) and Enhanced Cyan Fluorescent Protein (ECFP). Building on this foundational study, the ultimate goal is to exploit the capabilities of ODD for parallel monitoring of genetic and protein circuits by suppressing the spectral cross-talk among multiple fluorescent reporters.

DOI
10.1038/srep25827

Related papers

Exploring the capabilities of quantum optimal dynamic discrimination

Vincent Beltrani, Pritha Ghosh, HERSCHEL A. RABITZ

Optimal dynamic discrimination (ODD) uses closed-loop learning control techniques to discriminate between similar quantum systems. ODD achieves discrimination by employing a shaped control (laser) pulse to simultaneously exploit the unique quantum dynamics particular to each system, even when they are quite similar. In this work, ODD is viewed in the context of multiobjective optimization, where the competing objectives are the degree of similarity of the quantum systems and the level of controlled discrimination that can be achieved. To facilitate this study, the D-MORPH gradient algorithm is extended to handle multiple quantum systems and multiple objectives. This work explores the trade-off between laser resources (e.g., the length of the pulse, fluence, etc.) and ODD's ability to discriminate between similar systems. A mechanism analysis is performed to identify the dominant pathways utilized to achieve discrimination between similar systems.

The Journal of Chemical Physics•Apr 27, 2009•17 citations

Optimal dynamic discrimination of similara quantum systems in the presence of decoherence

Baiqing Li, Wusheng Zhu, HERSCHEL A. RABITZ

Optimal dynamic discrimination (ODD) of a mixture of similar quantum systems with time series signals enables the extraction of the associated concentrations with reasonable levels of laser-pulse noise, signal detection errors, and imperfect signal detector resolution [Li et al., J. Chem. Phys. 122, 154103 (2005)]. The ODD paradigm is reexpressed in the density-matrix formulation to allow for the consideration of environmental decoherence on the quality of the extracted concentrations, along with the above listed factors. Simulations show that although starting in a thermally mixed state along with decoherence can be detrimental to discrimination, these effects can be counteracted by seeking a suitable optimal control pulse. Additional sampling of the temporal data also aids in extracting more information to better implement ODD.

The Journal of Chemical Physics•Jan 6, 2006•15 citations

Optimal dynamic discrimination of similar quantum systems with time series data

Baiqing Li, HERSCHEL A. RABITZ, Jean‐Pierre Wolf

Optimal dynamic discrimination (ODD) was proposed [Li et al., J. Phys. Chem. B 106, 8125 (2002)] as a paradigm for discriminating noninteracting similar quantum systems in a mixture. This paper extends the ODD concept to optimize a laser control pulse for guiding similar quantum systems such that each exhibits a distinct time series signal for maximum discrimination. The use of temporal data addresses various experimental difficulties, including noise in the laser pulse, signal detection errors, and finite time resolution in the signal. Simulations of ODD with time series data are presented to explore these effects. It is found that the use of an optimally chosen control pulse can significantly enhance the discrimination quality. The ODD technique is also adapted to the case where the sample contains an unknown background species.

The Journal of Chemical Physics•Apr 15, 2005•38 citations

Optimal Dynamic Discrimination of Similar Molecules through Quantum Learning Control

Baiqing Li, Gabriel Turinici, Viswanath Ramakrishna +1 more

A paradigm for discriminating similar quantum systems in the laboratory is presented based on optimal control principles with the aid of closed loop learning algorithms. The optimal dynamic discrimination (ODD) process is simulated for a noninteracting mixture of up to three similar finite-dimensional quantum systems. The optimal control field giving rise to species discrimination, that considers the presence of field and observation noise, is deduced with a genetic algorithm (GA). The similar quantum systems yield distinct dynamics and detection signals, although influenced by the same control laser pulse. The ODD process is shown to operate by drawing on constructive and destructive interference effects to simultaneously maximize or minimize the signals from each of the species in the mixture. The ODD technique may have applications to the analysis and separation of possibly even complex chemical species.

The Journal of Physical Chemistry B•Jul 3, 2002•76 citations

Mechanistic Analysis of Optimal Dynamic Discrimination of Similar Quantum Systems

Abhra Mitra, HERSCHEL A. RABITZ

Optimal dynamic discrimination (ODD) was recently introduced as a technique for maximally drawing out and detecting the differences between similar quantum systems by exploiting their controllable dynamical properties. As a simulation of ODD, optimal fields were found that successfully discriminated among similar species, but the underlying mechanisms of the process remained obscure. Hamiltonian encoding (HE) has been introduced as a technique for identifying the mechanisms of controlled quantum dynamics. The results of a HE based simulation analysis of ODD are presented in this paper. Different types and degrees of constructive and destructive interference are shown to underly the controlled discrimination processes. In general, it is found that successful discrimination relies on more complex interfering pathways for increasingly similar systems or increasing numbers of similar quantum systems.

The Journal of Physical Chemistry A•May 1, 2004•22 citations

Shaped laser pulses acting as photonic reagents

H. Rabitz

Shaped ultrafast laser pulses acting as photonic reagents are used to manipulate a broad variety of quantum dynamics phenomenon. The principles involved are discussed including the prospects for the future use of photonic reagents.

Quantum Electronics and Laser Science Conference•Dec 10, 2005•0 citations
By exploiting photonic reagents (i.e., coherent control by shaped laser pulses), we employ Optimal Dynamic Discrimination (ODD) as a novel means for quantitatively characterizing mixtures of fluorescent proteins with a large spectral overlap. To illustrate ODD, we simultaneously measured concentrations of in vitro mixtures of Enhanced Blue Fluorescent Protein (EBFP) and Enhanced Cyan Fluorescent Protein (ECFP). Building on this foundational study, the ultimate goal is to exploit the capabilities of ODD for parallel monitoring of genetic and protein circuits by suppressing the spectral cross-talk among multiple fluorescent reporters.
Optimal dynamic discrimination (ODD) uses closed-loop learning control techniques to discriminate between similar quantum systems. ODD achieves discrimination by employing a shaped control (laser) pulse to simultaneously exploit the unique quantum dynamics particular to each system, even when they are quite similar. In this work, ODD is viewed in the context of multiobjective optimization, where the competing objectives are the degree of similarity of the quantum systems and the level of controlled discrimination that can be achieved. To facilitate this study, the D-MORPH gradient algorithm is extended to handle multiple quantum systems and multiple objectives. This work explores the trade-off between laser resources (e.g., the length of the pulse, fluence, etc.) and ODD's ability to discriminate between similar systems. A mechanism analysis is performed to identify the dominant pathways utilized to achieve discrimination between similar systems.
Optimal dynamic discrimination (ODD) of a mixture of similar quantum systems with time series signals enables the extraction of the associated concentrations with reasonable levels of laser-pulse noise, signal detection errors, and imperfect signal detector resolution [Li et al., J. Chem. Phys. 122, 154103 (2005)]. The ODD paradigm is reexpressed in the density-matrix formulation to allow for the consideration of environmental decoherence on the quality of the extracted concentrations, along with the above listed factors. Simulations show that although starting in a thermally mixed state along with decoherence can be detrimental to discrimination, these effects can be counteracted by seeking a suitable optimal control pulse. Additional sampling of the temporal data also aids in extracting more information to better implement ODD.
Optimal dynamic discrimination (ODD) was proposed [Li et al., J. Phys. Chem. B 106, 8125 (2002)] as a paradigm for discriminating noninteracting similar quantum systems in a mixture. This paper extends the ODD concept to optimize a laser control pulse for guiding similar quantum systems such that each exhibits a distinct time series signal for maximum discrimination. The use of temporal data addresses various experimental difficulties, including noise in the laser pulse, signal detection errors, and finite time resolution in the signal. Simulations of ODD with time series data are presented to explore these effects. It is found that the use of an optimally chosen control pulse can significantly enhance the discrimination quality. The ODD technique is also adapted to the case where the sample contains an unknown background species.
A paradigm for discriminating similar quantum systems in the laboratory is presented based on optimal control principles with the aid of closed loop learning algorithms. The optimal dynamic discrimination (ODD) process is simulated for a noninteracting mixture of up to three similar finite-dimensional quantum systems. The optimal control field giving rise to species discrimination, that considers the presence of field and observation noise, is deduced with a genetic algorithm (GA). The similar quantum systems yield distinct dynamics and detection signals, although influenced by the same control laser pulse. The ODD process is shown to operate by drawing on constructive and destructive interference effects to simultaneously maximize or minimize the signals from each of the species in the mixture. The ODD technique may have applications to the analysis and separation of possibly even complex chemical species.
Optimal dynamic discrimination (ODD) was recently introduced as a technique for maximally drawing out and detecting the differences between similar quantum systems by exploiting their controllable dynamical properties. As a simulation of ODD, optimal fields were found that successfully discriminated among similar species, but the underlying mechanisms of the process remained obscure. Hamiltonian encoding (HE) has been introduced as a technique for identifying the mechanisms of controlled quantum dynamics. The results of a HE based simulation analysis of ODD are presented in this paper. Different types and degrees of constructive and destructive interference are shown to underly the controlled discrimination processes. In general, it is found that successful discrimination relies on more complex interfering pathways for increasingly similar systems or increasing numbers of similar quantum systems.