Multi-level equilibrium signaling for molecular communication

Akdeniz, Bayram Cevdet; Egan, Malcolm

doi:10.1145/3411295.3411318

Cited by 2 publications

(4 citation statements)

References 11 publications

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“…In the context of molecular communications, the use of the RDME was initiated by [56] and developed in several followup works [60,61,62,63,64,65]. The RDME has also been considered recently in the context of equilibrium signaling [54,55], which will be discussed further in Sec. 4.…”

Section: Reaction-diffusion Master Equationmentioning

confidence: 99%

“…A recently proposed approach [54,55,37], instead exploits the equilibrium behavior of the RDME in the presence of a reflective boundary-leading to a scheme known as equilibrium signaling, which is also applicable to a general family of Langevin diffusions [37]. In equilibrium signaling, T s is chosen to be sufficiently large such that the statistics for the number of molecules in the receiver can be approximated in closed-form via (15) or a Gaussian approximation for the RDME (see [54]).…”

Section: Detection In Rdme Channelsmentioning

confidence: 99%

“…One can view equilibrium signaling as lying in the family of CSK schemes, although-as noted earlier-it differs from how such schemes have been designed in practice. We also remark that equilibrium signaling can be used to increase the data rate for multi-level signaling [55]. The scheme is also highly robust to uncertainties in diffusion coefficients, the shape of the boundary, and locations of the transmitter and receiver [54] To illustrate the robustness of equilibrium signaling to uncertainties in the channel, suppose that a sequence of bits, s 1 , .…”

Section: Detection In Rdme Channelsmentioning

confidence: 99%

See 2 more Smart Citations

Stochastic reaction and diffusion systems in molecular communications: Recent results and open problems

Egan¹,

Akdeniz²,

Tang³

2022

Digital Signal Processing

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Chemical reactions and diffusion are two basic mechanisms governing the dynamics of molecules in a fluid.As such, they play a critical role in molecular communication for channel modeling, design of detection rules, implementation of molecular circuits for computation, and modeling interactions with external biochemical systems. For finite numbers of information-carrying molecules, stochastic models naturally arise with the simplest example given by the Wiener process, often known as Brownian motion. Nevertheless, the Wiener process fails to be accurate when external forces, friction, and chemical reactions are present. Recently, there have been several contributions that tailor molecular communication systems to these more challenging channel conditions. In this paper, we first overview a general family of stochastic models of reaction and diffusion systems, including both Langevin diffusion and the reaction-diffusion master equation. These models form a basis for the use of these models as molecular communication channels, from which modulation and detection schemes can be developed. We survey recent results on the design of these schemes, with a focus on a recently developed approach which is robust to a wide range of channel models, known as equilibrium signaling. We then turn to the implementation of these detection schemes and related parameter estimation problems via stochastic molecular circuits, based on stochastic chemical reaction networks. Finally, interactions between molecular communication systems and stochastic biological systems as well as open problems are discussed.Our overarching goal is to highlight how the consideration of general stochastic models of reaction and diffusion can be utilized in order to widen the application of molecular communications both within engineered systems, and also as motivation for advances in the mathematical characterization of these models.

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Section: Reaction-diffusion Master Equationmentioning

confidence: 99%

Section: Detection In Rdme Channelsmentioning

confidence: 99%

Section: Detection In Rdme Channelsmentioning

confidence: 99%

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Stochastic reaction and diffusion systems in molecular communications: Recent results and open problems

Egan¹,

Akdeniz²,

Tang³

2022

Digital Signal Processing

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“…We note that Scenario (i) can also be viewed as a form of multi-level equilibrium signaling developed further in[33].…”

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confidence: 99%

Molecular Communication for Equilibrium State Estimation in Biochemical Processes on a Lab-on-a-Chip

Akdeniz

Egan

2021

IEEE Trans.on Nanobioscience

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A basic problem in molecular biology is to estimate equilibrium states of biochemical processes. To this end, advanced spectroscopy methods have been developed in order to estimate chemical concentrations in situ or in vivo. However, such spectroscopy methods can require special conditions that do not allow direct observation of the biochemical process. A natural means of resolving this problem is to transmit chemical signals to another location within a lab-on-a-chip device; that is, employing molecular communication in order to perform spectroscopy in a different location. In this paper, we develop such a signaling strategy and estimation algorithms for equilibrium states of a biochemical process. In two biologically-inspired models, we then study via simulation the tradeoff between the rate of obtaining spectroscopy measurements and the estimation error, providing insights into requirements of spectroscopy devices for highthroughput biological assays.

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Multi-level equilibrium signaling for molecular communication

Cited by 2 publications

References 11 publications

Stochastic reaction and diffusion systems in molecular communications: Recent results and open problems

Stochastic reaction and diffusion systems in molecular communications: Recent results and open problems

Molecular Communication for Equilibrium State Estimation in Biochemical Processes on a Lab-on-a-Chip

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