Adam Noel

Adam Noel
The University of Warwick · School of Engineering

B.Eng., M.A.Sc., PhD

About

87
Publications
10,320
Reads
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2,125
Citations
Additional affiliations
January 2016 - April 2016
Université de Montréal
Position
  • PostDoc Position
August 2015 - January 2018
University of Ottawa
Position
  • PostDoc Position
September 2009 - September 2015
University of British Columbia - Vancouver
Position
  • Research Assistant
Description
  • Masters and PhD work

Publications

Publications (87)
Article
Full-text available
In this paper, we perform receiver design for a diffusive molecular communication environment. Our model can include flow in any direction, sources of information molecules in addition to the transmitter, and enzymes in the propagation environment to mitigate intersymbol interference. We characterize the mutual information between receiver observat...
Article
Full-text available
This paper studies the mitigation of intersymbol interference in a diffusive molecular communication system using enzymes that freely diffuse in the propagation environment. The enzymes form reaction intermediates with information molecules and then degrade them so that they cannot interfere with future transmissions. A lower bound expression on th...
Article
This paper introduces AcCoRD (Actor-based Communication via Reaction-Diffusion). AcCoRD is a sandbox reaction-diffusion solver designed for the study of molecular communication systems. It uses a hybrid of microscopic and mesoscopic simulation models that enables scalability via user control of local accuracy. AcCoRD is developed in C as an open so...
Article
Molecular communication (MC) is a new communication engineering paradigm where molecules are employed as information carriers. MC systems are expected to enable new revolutionary applications, such as sensing of target substances in biotechnology, smart drug delivery in medicine, and monitoring of oil pipelines or chemical reactors in industrial se...
Preprint
Full-text available
Molecular communication (MC) engineering is inspired by the use of chemical signals as information carriers in cell biology. The biological nature of chemical signaling makes MC a promising methodology for interdisciplinary applications requiring communication between cells and other microscale devices. However, since the life sciences and communic...
Article
A cooperative molecular communication (CMC) system is considered inside a cylindrical-shaped channel where a few cooperative nodes (CNs) are intermediately placed between a transmitter (TX) and a fusion center (FC). The expressions for the maximum achievable rate and probability of error at the FC considering AND and OR rules are derived. Furthermo...
Article
Molecular communications (MC) broadly defines information exchange using (bio-)chemical signals over multiple scales. The research in this area addresses various fields where MC plays an important role. Notable examples include 1) the modeling of living systems, which aims to gain new insights into biological systems; 2) their interface with the ou...
Preprint
This paper proposes a novel imperfect transmitter (TX) model, namely the membrane fusion (MF)-based TX, that adopts MF between a vesicle and the TX membrane to release molecules encapsulated within the vesicle. For the MF-based TX, the molecule release probability and the fraction of molecules released from the TX membrane are derived. Incorporatin...
Article
Full-text available
Liquid crystals (LCs), as a promising branch of highly-sensitive, quick-response, and low-cost materials, are widely applied to the detection of weak external stimuli and have attracted significant attention. Over the past decade, many research groups have been devoted to developing LC-based biosensors due to their self-assembly potential and funct...
Article
Full-text available
Molecular communication (MC) engineering is inspired by the use of chemical signals as information carriers in cell biology. The biological nature of chemical signaling makes MC a promising methodology for interdisciplinary applications requiring communication between cells and other microscale devices. However, since the life sciences and communic...
Article
In quorum sensing (QS), bacteria exchange molecular signals to work together. An analytically-tractable model is presented for characterizing QS signal propagation within a population of bacteria and the number of responsive cooperative bacteria (i.e., cooperators) in a two-dimensional (2D) environment. Unlike prior works with a deterministic topol...
Preprint
Full-text available
This paper proposes a novel imperfect spherical transmitter (TX) model, namely the membrane fusion (MF)-based TX, that adopts MF between a vesicle and the TX membrane to release molecules encapsulated within the vesicle. For the MF-based TX, the molecule release probability and the fraction of molecules released from the TX membrane are derived. In...
Preprint
Full-text available
In quorum sensing (QS), bacteria exchange molecular signals to work together. An analytically-tractable model is presented for characterizing QS signal propagation within a population of bacteria and the number of responsive cooperative bacteria (i.e., cooperators) in a two-dimensional (2D) environment. Unlike prior works with a deterministic topol...
Article
The molecular communication system with anomalous/fractional diffusion inside a one-dimensional (1- D) environment is considered. The time-dependent diffusivity is incorporated in terms of the power-law diffusivity, and the expression of first passage time density (FPTD) is derived. Further, the peak pulse time and peak concentration corresponding...
Preprint
Full-text available
This paper investigates the estimation of different parameters, e.g., propagation distance and flow velocity, by utilizing two fully-absorbing receivers (RXs) in a one-dimensional (1D) environment. The time-varying number of absorbed molecules at each RX and the number of absorbed molecules in a time interval as time approaches infinity are derived...
Article
This paper predicts the ability to externally control the firing times of a cortical neuron whose behavior follows the Izhikevich neuron model. The Izhikevich neuron model provides an efficient and biologically plausible method to track a cortical neuron’s membrane potential and its firing times. The external control is a simple optogenetic model r...
Article
This letter develops a one-dimensional (1D) diffusion-based molecular communication system to analyze channel responses between a single transmitter (TX) and two fully-absorbing receivers (RXs). Incorporating molecular degradation in the environment, rigorous analytical formulas for i) the fraction of molecules absorbed, ii) the corresponding hitti...
Preprint
Full-text available
This letter develops a one-dimensional (1D) diffusion-based molecular communication system to analyze channel responses between a single transmitter (TX) and two fully-absorbing receivers (RXs). Incorporating molecular degradation in the environment, rigorous analytical formulas for the fraction of molecules absorbed and the corresponding hitting r...
Conference Paper
The rhizobiome, namely the organisms living in association with a plant's roots, is one of nature's most complex environments. Yet, despite its huge economic and scientific importance, it is poorly understood. Here, a combination of agent-base modeling and molecular communication theory is proposed to construct a game-theoretical computational fram...
Article
Full-text available
Information delivery via molecular signals is abundant in nature and potentially useful for industry sensing. Many propagation channels (e.g., tissue membranes and catalyst beds) contain porous medium materials and the impact this has on communication performance is not well understood. Here, communication through realistic porous channels is inves...
Article
Full-text available
Diffusive molecular communication (DMC) is envisioned as a promising approach to help realize healthcare applications within bounded biological environments. In this paper, a DMC system within a biological spherical environment (BSE) is considered, inspired by bounded biological sphere-like structures throughout the body. As a biological environmen...
Article
A novel a priori Monte Carlo (APMC) algorithm is proposed to accurately simulate the molecules absorbed at spherical receiver(s) with low-computational complexity in diffusion-based molecular communication (MC) systems. It is demonstrated that the APMC algorithm achieves high-simulation efficiency since by using this algorithm, the fraction of mole...
Preprint
Full-text available
This paper predicts the ability to externally control the firing times of a cortical neuron whose behavior follows the Izhikevich neuron model. The Izhikevich neuron model provides an efficient and biologically plausible method to track a cortical neuron's membrane potential and its firing times. The external control is a simple optogenetic model r...
Preprint
Full-text available
Information delivery via molecular signals is abundant in nature and potentially useful for industry sensing. Many propagation channels (e.g., tissue membranes and catalyst beds) contain porous medium materials and the impact this has on communication performance is not well understood. Here, communication through realistic porous channels is analy...
Preprint
Full-text available
Molecular communication (MC) is a new communication engineering paradigm where molecules are employed as information carriers. MC systems are expected to enable new revolutionary applications such as sensing of target substances in biotechnology, smart drug delivery in medicine, and monitoring of oil pipelines or chemical reactors in industrial set...
Preprint
Full-text available
The exchange of small molecular signals within microbial populations is generally referred to as quorum sensing (QS). QS is ubiquitous in nature and enables microorganisms to respond to fluctuations of living environments by working together. In this work, a QS-based communication system within a microbial population in a two-dimensional (2D) envir...
Article
In this paper, an algorithm is presented to calculate the transition rates between adjacent mesoscopic subvolumes in the presence of flow and diffusion. These rates can be integrated in stochastic simulations of reaction-diffusion systems that follow a mesoscopic approach, i.e., that partition the environment into homogeneous subvolumes and apply t...
Preprint
Diffusive molecular communication (DMC) is envisioned as a promising approach to help realize healthcare applications within bounded biological environments. In this paper, a DMC system within a biological spherical environment is considered, inspired by bounded biological sphere-like structures throughout the body. As a biological environment, it...
Preprint
Full-text available
A novel a priori Monte Carlo (APMC) algorithm is proposed to accurately simulate the molecules absorbed at spherical receiver(s) with low computational complexity in diffusion-based molecular communication (MC) systems. It is demonstrated that the APMC algorithm achieves high simulation efficiency since by using this algorithm, the fraction of mole...
Preprint
Full-text available
In this paper, an algorithm is presented to calculate the transition rates between adjacent mesoscopic subvolumes in the presence of flow and diffusion. These rates can be integrated in stochastic simulations of reaction-diffusion systems that follow a mesoscopic approach, i.e., that partition the environment into homogeneous subvolumes and apply t...
Article
Full-text available
The simulation of diffusion-based molecular communication systems with absorbing receivers often requires a high computational complexity to produce accurate results. In this work, a new a priori Monte Carlo (APMC) algorithm is proposed to precisely simulate the molecules absorbed at a spherical receiver when the simulation time step length is rela...
Article
Full-text available
In this paper, symbol-by-symbol maximum likelihood (ML) detection is proposed for a cooperative diffusion-based molecular communication (MC) system. In this system, a fusion center (FC) chooses the transmitter (TX) symbol that is more likely, given the likelihood of its observations from multiple receivers (RXs), where the TX sends a common informa...
Preprint
Full-text available
This article introduces the application of game theory to understand noisy real-time signaling and the resulting behavioral dynamics in microscopic populations such as bacteria and other cells. It presents a bridge between the fields of molecular communication and microscopic game theory. Molecular communication uses conventional communication engi...
Article
Full-text available
Active transport is sought in molecular communication to extend coverage, improve reliability, and mitigate interference. One such active mechanism inherent to many liquid environments is fluid flow. Flow models are often over-simplified, e.g., assuming one-dimensional diffusion with constant drift. However, diffusion and flow are usually encounter...
Article
Full-text available
This paper predicts the ability to externally control the firing times of a cortical neuron whose behavior follows the Izhikevich neuron model. The Izhikevich model provides an efficient and biologically plausible method to track a cortical neuron's membrane potential and its firing times. The external control is a simple optogenetic model represen...
Article
Full-text available
Information delivery using chemical molecules is an integral part of biology at multiple distance scales and has attracted recent interest in bioengineering and communication theory. An under-explored area is the performance of large-scale molecular communications systems, where multiple transmitters are randomly distributed over space. The collect...
Article
Full-text available
Diffusion-based molecular communication (MC) systems experience significant reliability losses. To boost the reliability, an MC scheme where multiple receivers (RXs) work cooperatively to decide the signal of a transmitter (TX) by sending the same type of molecules to a fusion center (FC) is proposed in this paper. The FC observes the total number...
Article
Full-text available
Objective: This paper uses a simple optogenetic model to compare the timing distortion between a randomly-generated target spike sequence and an externally-stimulated neuron spike sequence. Optogenetics is an emerging field of neuroscience where neurons are genetically modified to express light-sensitive receptors that enable external control over...
Article
Full-text available
Bacteria populations rely on mechanisms such as quorum sensing to coordinate complex tasks that cannot be achieved by a single bacterium. Quorum sensing is used to measure the local bacteria population density, and it controls cooperation by ensuring that a bacterium only commits the resources for cooperation when it expects its neighbors to recipr...
Article
Full-text available
In this paper, symbol-by-symbol maximum likelihood (ML) detection is proposed for a collaborative diffusion-based molecular communication system. In this system, a fusion center (FC) chooses the transmitter's symbol that is more likely, given the likelihood of the observations from multiple receivers (RXs). First, two ML detection variants with dif...
Article
Full-text available
Optogenetics is an emerging field of neuroscience where neurons are genetically modified to express light-sensitive receptors that enable external control over when the neurons fire. Given the prominence of neuronal signaling within the brain and throughout the body, optogenetics has significant potential to improve the understanding of the nervous...
Article
This letter introduces a formalism for modeling time-variant channels for diffusive molecular communication systems. In particular, we consider a fluid environment where one transmitter nano-machine and one receiver nano-machine are subjected to Brownian motion in addition to the diffusive motion of the information molecules used for communication....
Article
Full-text available
Molecular communication via diffusion (MCvD) is inherently an energy efficient transportation paradigm, which requires no external energy during molecule propagation. Inspired by the fact that the emitted molecules have a finite probability to reach the receiver, this paper introduces an energy efficient scheme for the information molecule synthesi...
Conference Paper
Full-text available
Information delivery using chemical molecules is an integral part of biology at multiple distance scales and has attracted recent interest in bioengineering and communication. The collective signal strength at the receiver (i.e., the expected number of observed molecules inside the receiver), resulting from a large number of transmitters at random...
Conference Paper
Full-text available
This paper presents an analytical comparison of active and passive receiver models in diffusive molecular communication. In the active model, molecules are absorbed when they collide with the receiver surface. In the passive model, the receiver is a virtual boundary that does not affect molecule behavior. Two approaches are presented to derive tran...
Article
Full-text available
In this paper, the error performance achieved by cooperative detection among K distributed receivers in a diffusion-based molecular communication (MC) system is analyzed and optimized. In this system, the receivers first make local hard decisions on the transmitted symbol and then report these decisions to a fusion center (FC). The FC combines the...
Article
Full-text available
Molecular communication requires low-complexity symbol detection algorithms to deal with the many sources of uncertainty that are inherent in these channels. This paper proposes two variants of a high-performance asynchronous peak detection algorithm for a receiver that makes independent observations. The first variant has low complexity and measur...
Article
Full-text available
Molecular communication is a paradigm that utilizes molecules to exchange information between nano-machines. When considering such systems where multiple receivers are present, prior work has assumed for simplicity that they do not interfere with each other. This paper aims to address this issue and shows to what extent an interfering receiver, RI,...
Article
Full-text available
Molecular Communications is a promising area with significant potential applications. To enhance the reliability of the transmission process, self-orthogonal convolutional codes (SOCCs) are proposed and investigated with respect to both bit error rate (BER) and energy efficiency. The codes are compared to both an un-coded system and one that employ...
Article
Full-text available
Molecular communication is an emerging paradigm for systems that rely on the release of molecules as information carriers. Communication via molecular diffusion is a popular strategy that is ubiquitous in nature and very fast over distances on the order of a micron or less. Existing closed-form analysis of the diffusion channel impulse response gen...
Article
Full-text available
In this paper, a cooperative diffusion-based molecular communication system is considered where distributed receivers collaboratively determine a transmitter's signal. In this system, the receivers first make local hard decisions about the current transmitted bit and then report these decisions to a fusion center (FC). The FC combines the local har...
Research
Full-text available
In this paper, we present an analytical model for the diffusive molecular communication (MC) system with a reversible adsorption receiver in a fluid environment. The widely used concentration shift keying (CSK) is considered for modulation. The time-varying spatial distribution of the information molecules under the reversible adsorption and desorp...