293 citations
Counting papers with at most 25 authors, so collaboration author lists do not stand in for the people here.
- University of Illinois Urbana-ChampaignUS65 papers
- National Center for Supercomputing ApplicationsUS12 papers
- Brookhaven National LaboratoryUS4 papers
- Illinois CollegeUS3 papers
- National Centre for Biological SciencesIN3 papers
- University of Illinois SystemUS3 papers
- Brigham and Women's HospitalUS2 papers
- Center for Functional Nanomaterials2 papers
- Cornell UniversityUS2 papers
- Harvard UniversityUS2 papers
- Korea Advanced Institute of Science and TechnologyKR2 papers
- Tata Institute of Fundamental ResearchIN2 papers
18 papers · 1 filter
Time-dependent heterogeneity leads to transient suppression of the COVID-19 epidemic, not herd immunity
Alexei V. Tkachenko, Sergei Maslov, Ahmed Elbanna +3
Epidemics generally spread through a succession of waves that reflect factors on multiple timescales. On short timescales, super-spreading events lead to burstiness and overdispers…
Modeling COVID-19 dynamics in Illinois under non-pharmaceutical interventions
George N. Wong, Zachary J. Weiner, Alexei V. Tkachenko +3
We present modeling of the COVID-19 epidemic in Illinois, USA, capturing the implementation of a Stay-at-Home order and scenarios for its eventual release. We use a non-Markovian a…
Reaction-diffusion spatial modeling of COVID-19: Greece and Andalusia as case examples
P. G. Kevrekidis, J. Cuevas-Maraver, Y. Drossinos +2
We examine the spatial modeling of the outbreak of COVID-19 in two regions: the autonomous community of Andalusia in Spain and the mainland of Greece. We start with a 0D compartmen…
Modeling microbial cross-feeding at intermediate scale portrays community dynamics and species coexistence
Chen Liao, Tong Wang, Sergei Maslov +1
Social interaction between microbes can be described at many levels of details, ranging from the biochemistry of cell-cell interactions to the ecological dynamics of populations. C…
Evidence for a multi-level trophic organization of the human gut microbiome
Tong Wang, Akshit Goyal, Veronika Dubinkina +1
The human gut microbiome is a complex ecosystem, in which hundreds of microbial species and metabolites coexist, in part due to an extensive network of cross-feeding interactions.…
Alternative stable states in a model of microbial community limited by multiple essential nutrients
Veronika Dubinkina, Yulia Fridman, Parth Pandey +1
Microbial communities routinely have several alternative stable states observed for the same environmental parameters. Sudden and irreversible transitions between these states make…
Multiple stable states in microbial communities explained by the stable marriage problem
Akshit Goyal, Veronika Dubinkina, Sergei Maslov
Experimental studies of microbial communities routinely reveal that they have multiple stable states. While each of these states is generally resilient, certain perturbations such…
Diversity, stability, and reproducibility in stochastically assembled microbial ecosystems
Akshit Goyal, Sergei Maslov
Microbial ecosystems are remarkably diverse, stable, and often consist of a balanced mixture of core and peripheral species. Here we propose a conceptual model exhibiting all these…
Onset of natural selection in auto-catalytic heteropolymers
Alexei V. Tkachenko, Sergei Maslov
Reduction of information entropy along with ever-increasing complexity are among the key signatures of living matter. Understanding the onset of such behavior in early prebiotic wo…
Severe population collapses and species extinctions in multi-host epidemic dynamics
Sergei Maslov, Kim Sneppen
Most infectious diseases including more than half of known human pathogens are not restricted to just one host, yet much of the mathematical modeling of infections has been limited…
A noise-induced mechanism for biological homochirality of early life self-replicators
Farshid Jafarpour, Tommaso Biancalani, Nigel Goldenfeld
The observed single-handedness of biological amino acids and sugars has long been attributed to autocatalysis. However, the stability of homochiral states in deterministic autocata…
Diversity waves in collapse-driven population dynamics
Sergei Maslov, Kim Sneppen
Populations of species in ecosystems are often constrained by availability of resources within their environment. In effect this means that a growth of one population, needs to be…
Path integral calculation for emergence of rapid evolution from demographic stochasticity
Hong-Yan Shih, Nigel Goldenfeld
Genetic variation in a population can sometimes arise so fast as to modify ecosystem dynamics. Such phenomena have been observed in natural predator-prey systems, and characterized…
Statistical Mechanics of Horizontal Gene Transfer in Evolutionary Ecology
Nicholas Chia, Nigel Goldenfeld
The biological world, especially its majority microbial component, is strongly interacting and may be dominated by collective effects. In this review, we provide a brief introducti…
Life is physics: evolution as a collective phenomenon far from equilibrium
Nigel Goldenfeld, Carl Woese
Evolution is the fundamental physical process that gives rise to biological phenomena. Yet it is widely treated as a subset of population genetics, and thus its scope is artificial…
The dynamics of gene duplication and transposons in microbial genomes following a sudden environmental change
Nicholas Chia, Nigel Goldenfeld
A variety of genome transformations can occur as a microbial population adapts to a large environmental change. In particular, genomic surveys indicate that, following the transiti…
Fixed points and limit cycles in the population dynamics of lysogenic viruses and their hosts
Zhenyu Wang, Nigel Goldenfeld
Starting with stochastic rate equations for the fundamental interactions between microbes and their viruses, we derive a mean field theory for the population dynamics of microbe-vi…
Robust ecological pattern formation induced by demographic noise
Thomas Butler, Nigel Goldenfeld
We demonstrate that demographic noise can induce persistent spatial pattern formation and temporal oscillations in the Levin-Segel predator-prey model for plankton-herbivore popula…