arXiv subjects

Sean D Lawley

Publications and source records attributed to Sean D Lawley.

32 records · Page 2Linked to original sources

arXiv2021

What should patients do if they miss a dose of medication? A theoretical approach

Medication adherence is a major problem for patients with chronic diseases that require long term pharmacotherapy. Many unanswered questions surround adherence, including how adherence rates translate into treatment efficacy and how missed doses of medication should be handled. To address these questions, we formulate and analyze a mathematical model of the drug concentration in a patient with imperfect adherence. We find exact formulas for drug concentration statistics, including the mean, the coefficient of variation, and the deviation from perfect adherence. We determine how adherence rates translate into drug concentrations, and how this depends on the drug half-life, the dosing interval, and how missed doses are handled. While clinical recommendations require extensive validation and should depend on drug and patient specifics, as a general principle our theory suggests that nonadherence is best mitigated by taking double doses following missed doses if the drug has a long half-life. This conclusion contradicts some existing recommendations that cite long drug half-lives as the reason to avoid a double dose after a missed dose. Furthermore, we show that a patient who takes double doses after missed doses can have at most only slightly more drug in their body than a perfectly adherent patient if the drug half-life is long. We also investigate other ways of handling missed doses, including taking an extra fractional dose following a missed dose. We discuss our results in the context of hypothyroid patients taking levothyroxine.

q-bio.QM↗

arXiv2021

Designing drug regimens that mitigate nonadherence

Medication adherence is a well-known problem for pharmaceutical treatment of chronic diseases. Understanding how nonadherence affects treatment efficacy is made difficult by the ethics of clinical trials that force patients to skip doses of the medication being tested, the unpredictable timing of missed doses by actual patients, and the many competing variables that can either mitigate or magnify the deleterious effects of nonadherence, such as pharmacokinetic absorption and elimination rates, dosing intervals, dose sizes, adherence rates, etc. In this paper, we formulate and analyze a mathematical model of the drug concentration in an imperfectly adherent patient. Our model takes the form of the standard single compartment pharmacokinetic model with first order absorption and elimination, except that the patient takes medication only at a given proportion of the prescribed dosing times. Doses are missed randomly, and we use stochastic analysis to study the resulting random drug level in the body. We then use our mathematical results to propose principles for designing drug regimens that are robust to nonadherence. In particular, we quantify the resilience of extended release drugs to nonadherence, which is quite significant in some circumstances, and we show the benefit of taking a double dose following a missed dose if the drug absorption or elimination rate is slow compared to the dosing interval. We further use our results to compare some antiepileptic and antipsychotic drug regimens.

q-bio.QM↗

arXiv2021

Extreme hitting probabilities for diffusion

A variety of systems in physics, chemistry, biology, and psychology are modeled in terms of diffusing "searchers" looking for "targets." Examples range from gene regulation, to cell sensing, to human decision-making. A commonly studied statistic in these models is the so-called hitting probability for each target, which is the probability that a given single searcher finds that particular target. However, the decisive event in many systems is not the arrival of a given single searcher to a target, but rather the arrival of the fastest searcher to a target out of many searchers. In this paper, we study the probability that the fastest diffusive searcher hits a given target in the many searcher limit, which we call the extreme hitting probability. We first prove an upper bound for the decay of the probability that the searcher finds a target other than the closest target. This upper bound applies in very general settings and depends only on the relative distances to the targets. Furthermore, we find the exact asymptotics of the extreme hitting probabilities in terms of the short-time distribution of when a single searcher hits a target. These results show that the fastest searcher always hits the closest target in the many searcher limit. While this fact is intuitive in light of recent results on the time it takes the fastest searcher to find a target, our results give rigorous, quantitative estimates for the extreme hitting probabilities. We illustrate our results in several examples and numerical simulations.

math.PR↗

arXiv2021

Reaction-subdiffusion equations with species-dependent movement

Reaction-diffusion equations are one of the most common mathematical models in the natural sciences and are used to model systems that combine reactions with diffusive motion. However, rather than normal diffusion, anomalous subdiffusion is observed in many systems and is especially prevalent in cell biology. What are the reaction-subdiffusion equations describing a system that involves first-order reactions and subdiffusive motion? In this paper, we answer this question. We derive fractional reaction-subdiffusion equations describing an arbitrary number of molecular species which react at first-order rates and move subdiffusively with general space-dependent diffusivities and drifts. Importantly, different species may have different diffusivities and drifts, which contrasts previous approaches to this question which assume that each species has the same movement dynamics. We derive the equations by combining results on time-dependent fractional Fokker-Planck equations with methods of analyzing stochastically switching evolution equations. Furthermore, we construct the stochastic description of individual molecules whose deterministic concentrations follow these reaction-subdiffusion equations. This stochastic description involves subordinating a diffusion process whose dynamics are controlled by a subordinated Markov jump process. We illustrate our results in several examples and show that solutions of the reaction-subdiffusion equations agree with stochastic simulations of individual molecules.

cond-mat.stat-mech↗

arXiv2021

Extreme statistics of superdiffusive Levy flights and every other Levy subordinate Brownian motion

The search for hidden targets is a fundamental problem in many areas of science, engineering, and other fields. Studies of search processes often adopt a probabilistic framework, in which a searcher randomly explores a spatial domain for a randomly located target. There has been significant interest and controversy regarding optimal search strategies, especially for superdiffusive processes. The optimal search strategy is typically defined as the strategy that minimizes the time it takes a given single searcher to find a target, which is called a first hitting time (FHT). However, many systems involve multiple searchers and the important timescale is the time it takes the fastest searcher to find a target, which is called an extreme FHT. In this paper, we study extreme FHTs for any stochastic process that is a random time change of Brownian motion by a Levy subordinator. This class of stochastic processes includes superdiffusive Levy flights in any space dimension, which are processes described by a Fokker-Planck equation with a fractional Laplacian. We find the short-time distribution of a single FHT for any Levy subordinate Brownian motion and use this to find the full distribution and moments of extreme FHTs as the number of searchers grows. We illustrate these rigorous results in several examples and numerical simulations.

math.PR↗

arXiv2021

The effects of fast inactivation on conditional first passage times of mortal diffusive searchers

The first time a searcher finds a target is called a first passage time (FPT). In many physical, chemical, and biological processes, the searcher is "mortal," which means that the searcher might become inactivated (degrade, die, etc.) before finding the target. In the context of intracellular signaling, an important recent work discovered that fast inactivation can drastically alter the conditional FPT distribution of a mortal diffusive searcher, if the searcher is conditioned to find the target before inactivation. In this paper, we prove a general theorem which yields an explicit formula for all the moments of such conditional FPTs in the fast inactivation limit. This formula is quite universal, as it holds under very general conditions on the diffusive searcher dynamics, the target, and the spatial domain. These results prove in significant generality that if inactivation is fast, then the conditional FPT compared to the FPT without inactivation is (i) much faster, (ii) much less affected by spatial heterogeneity, and (iii) much less variable. Our results agree with recent computational and theoretical analysis of a certain discrete intracellular diffusion model and confirm a conjecture related to the effect of spatial heterogeneity on intracellular signaling.

math.PR↗

arXiv2021

Revising Berg-Purcell for finite receptor kinetics

From nutrient uptake, to chemoreception, to synaptic transmission, many systems in cell biology depend on molecules diffusing and binding to membrane receptors. Mathematical analysis of such systems often neglects the fact that receptors process molecules at finite kinetic rates. A key example is the celebrated formula of Berg and Purcell for the rate that cell surface receptors capture extracellular molecules. Indeed, this influential result is only valid if receptors transport molecules through the cell wall at a rate much faster than molecules arrive at receptors. From a mathematical perspective, ignoring receptor kinetics is convenient because it makes the diffusing molecules independent. In contrast, including receptor kinetics introduces correlations between the diffusing molecules since, for example, bound receptors may be temporarily blocked from binding additional molecules. In this work, we present a modeling framework for coupling bulk diffusion to surface receptors with finite kinetic rates. The framework uses boundary homogenization to couple the diffusion equation to nonlinear ordinary differential equations on the boundary. We use this framework to derive an explicit formula for the cellular uptake rate and show that the analysis of Berg and Purcell significantly overestimates uptake in some typical biophysical scenarios. We confirm our analysis by numerical simulations of a many particle stochastic system.

q-bio.QM↗

arXiv2020

Distribution of extreme first passage times of diffusion

Many events in biology are triggered when a diffusing searcher finds a target, which is called a first passage time (FPT). The overwhelming majority of FPT studies have analyzed the time it takes a single searcher to find a target. However, the more relevant timescale in many biological systems is the time it takes the fastest searcher(s) out of many searchers to find a target, which is called an extreme FPT. In this paper, we apply extreme value theory to find a tractable approximation for the full probability distribution of extreme FPTs of diffusion. This approximation can be easily applied in many diverse scenarios, as it depends on only a few properties of the short time behavior of the survival probability of a single FPT. We find this distribution by proving that a careful rescaling of extreme FPTs converges in distribution as the number of searchers grows. This limiting distribution is a type of Gumbel distribution and involves the LambertW function. This analysis yields new explicit formulas for approximations of statistics of extreme FPTs (mean, variance, moments, etc.) which are highly accurate and are accompanied by rigorous error estimates.

math.PR↗

arXiv2020

Extreme statistics of anomalous subdiffusion following a fractional Fokker-Planck equation: Subdiffusion is faster than normal diffusion

Anomalous subdiffusion characterizes transport in diverse physical systems and is especially prevalent inside biological cells. In cell biology, the prevailing model for chemical activation rates has recently changed from the first passage time (FPT) of a single searcher to the FPT of the fastest searcher out of many searchers to reach a target, which is called an extreme statistic or extreme FPT. In this paper, we investigate extreme statistics of searchers which move by anomalous subdiffusion. We model subdiffusion by a fractional Fokker-Planck equation involving the Riemann-Liouville fractional derivative. We prove an explicit and very general formula for every moment of subdiffusive extreme FPTs and approximate their full probability distribution. While the mean FPT of a single subdiffusive searcher is infinite, the fastest subdiffusive searcher out of many subdiffusive searchers typically has a finite mean FPT. In fact, we prove the counterintuitive result that extreme FPTs of subdiffusion are faster than extreme FPTs of normal diffusion. Mathematically, we employ a stochastic representation involving a random time change of a standard Ito drift-diffusion according to the trajectory of the first crossing time inverse of a Levy subordinator. A key step in our analysis is generalizing Varadhan's formula from large deviation theory to the case of subdiffusion, which yields the short-time distribution of subdiffusion in terms of a certain geodesic distance.

math.PR↗

arXiv2020

Subdiffusion-limited fractional reaction-subdiffusion equations with affine reactions: Solution, stochastic paths, and applications

In contrast to normal diffusion, there is no canonical model for reactions between chemical species which move by anomalous subdiffusion. Indeed, the type of mesoscopic equation describing reaction-subdiffusion depends on subtle assumptions about the microscopic behavior of individual molecules. Furthermore, the correspondence between mesoscopic and microscopic models is not well understood. In this paper, we study the subdiffusion-limited model, which is defined by mesoscopic equations with fractional derivatives applied to both the movement and the reaction terms. Assuming that the reaction terms are affine functions, we show that the solution to the fractional system is the expectation of a random time change of the solution to the corresponding integer order system. This result yields a simple and explicit algebraic relationship between the fractional and integer order solutions in Laplace space. We then find the microscopic Langevin description of individual molecules that corresponds to such mesoscopic equations and give a computer simulation method to generate their stochastic trajectories. This analysis identifies some precise microscopic conditions that dictate when this type of mesoscopic model is or is not appropriate. We apply our results to several scenarios in cell biology which, despite the ubiquity of subdiffusion in cellular environments, have been modeled almost exclusively by normal diffusion. Specifically, we consider subdiffusive models of morphogen gradient formation, fluctuating mobility, and fluorescence recovery after photobleaching (FRAP) experiments. We also apply our results to fractional ordinary differential equations.

cond-mat.stat-mech↗

arXiv2020

Anomalous reaction-diffusion equations for linear reactions

Deriving evolution equations accounting for both anomalous diffusion and reactions is notoriously difficult, even in the simplest cases. In contrast to normal diffusion, reaction kinetics cannot be incorporated into evolution equations modeling subdiffusion by merely adding reaction terms to the equations describing spatial movement. A series of previous works derived fractional reaction-diffusion equations for the spatiotemporal evolution of particles undergoing subdiffusion in one space dimension with linear reactions between a finite number of discrete states. In this paper, we first give a short and elementary proof of these previous results. We then show how this argument gives the evolution equations for more general cases, including subdiffusion following any fractional Fokker-Planck equation in an arbitrary $d$-dimensional spatial domain with time-dependent reactions between infinitely many discrete states. In contrast to previous works which employed a variety of technical mathematical methods, our analysis reveals that the evolution equations follow from (i) the probabilistic independence of the stochastic spatial and discrete processes describing a single particle and (ii) the linearity of the integro-differential operators describing spatial movement. We also apply our results to systems combining reactions with superdiffusion.

cond-mat.stat-mech↗

arXiv2020

Extreme first passage times for random walks on networks

Many biological, social, and communication systems can be modeled by ``searchers'' moving through a complex network. For example, intracellular cargo is transported on tubular networks, news and rumors spread through online social networks, and the rapid global spread of infectious diseases occurs through passengers traveling on the airport network. To understand the timescale of search/transport/spread, one commonly studies the first passage time (FPT) of a single searcher (or ``spreader'') to a target. However, in many scenarios the relevant timescale is not the FPT of a single searcher to a target, but rather the FPT of the fastest searcher to a target out of many searchers. For example, many processes in cell biology are triggered by the first molecule to find a target out of many, and the time it takes an infectious disease to reach a particular city depends on the first infected traveler to arrive out of potentially many infected travelers. Such fastest FPTs are called extreme FPTs. In this paper, we study extreme FPTs for a general class of continuous-time random walks on networks (which includes continuous-time Markov chains). In the limit of many searchers, we find explicit formulas for the probability distribution and all the moments of the $k$th fastest FPT. These rigorous formulas depend only on network parameters along a certain geodesic path(s) from the starting location to the target since the fastest searchers take a direct route to the target. Furthermore, our results allow one to estimate if a particular system is in a regime characterized by fast extreme FPTs. We also prove similar results for mortal searchers on a network that are conditioned to find the target before a fast inactivation time. We illustrate our results with numerical simulations and uncover potential pitfalls of modeling diffusive or subdiffusive processes involving extreme statistics.

math.PR↗

arXiv2020

Universal Formula for Extreme First Passage Statistics of Diffusion

The timescales of many physical, chemical, and biological processes are determined by first passage times (FPTs) of diffusion. The overwhelming majority of FPT research studies the time it takes a single diffusive searcher to find a target. However, the more relevant quantity in many systems is the time it takes the fastest searcher to find a target from a large group of searchers. This fastest FPT depends on extremely rare events and has a drastically faster timescale than the FPT of a given single searcher. In this work, we prove a simple explicit formula for every moment of the fastest FPT. The formula is remarkably universal, as it holds for $d$-dimensional diffusion processes (i) with general space-dependent diffusivities and force fields, (ii) on Riemannian manifolds, (iii) in the presence of reflecting obstacles, and (iv) with partially absorbing targets. Our results rigorously confirm, generalize, correct, and unify various conjectures and heuristics about the fastest FPT.

math.PR↗

arXiv2019

Extreme first passage times of piecewise deterministic Markov processes

The time it takes the fastest searcher out of $N\gg1$ searchers to find a target determines the timescale of many physical, chemical, and biological processes. This time is called an extreme first passage time (FPT) and is typically much faster than the FPT of a single searcher. Extreme FPTs of diffusion have been studied for decades, but little is known for other types of stochastic processes. In this paper, we study the distribution of extreme FPTs of piecewise deterministic Markov processes (PDMPs). PDMPs are a broad class of stochastic processes that evolve deterministically between random events. Using classical extreme value theory, we prove general theorems which yield the distribution and moments of extreme FPTs in the limit of many searchers based on the short time distribution of the FPT of a single searcher. We then apply these theorems to some canonical PDMPs, including run and tumble searchers in one, two, and three space dimensions. We discuss our results in the context of some biological systems and show how our approach accounts for an unphysical property of diffusion which can be problematic for extreme statistics.

math.PR↗