Populations & Evolution
Population dynamics, evolutionary biology, and epidemiological modeling.
q-bio.PE · 101 papersCatastrophe-dispersion models in random and varying environments across generations
This paper analyzes branching processes with catastrophe and dispersal in varying environments, showing survival is tied to the log-mean process.
Inferring Phylogenetic Networks from Allowed and Forbidden LCA-Constraints
This paper introduces polynomial-time algorithms to infer phylogenetic networks from both required and forbidden least common ancestor (LCA) constraints.
Tree-Conditioned Edit Flows for Ancestral Sequence Reconstruction
A new tree-conditioned edit-flow model reconstructs ancestral protein sequences, effectively handling insertions and deletions, unlike classical ASR methods.
From Individual-Based Models to Macroscopic Dynamics of Antimicrobial Resistance
This paper introduces a kinetic framework using Boltzmann and Fokker-Planck equations to model and quantify antimicrobial resistance spread.
Connecting IBD tracts and runs of homozygosity: A coalescent framework for inferring effective population size
This paper unifies IBD tracts and runs of homozygosity (ROH) within a coalescent framework to infer effective population size, accounting for various genetic factors.
A temperature-driven diffusion model of Usutu virus spread in Germany with spillover into neighbouring countries
A temperature-driven reaction-diffusion model accurately simulates the unique clockwise spread of Usutu virus in Germany and neighboring countries.
Epistatic strength, modularity, and locus heterogeneity shape the number of local optima in fitness landscapes
This paper reveals how epistatic strength, modularity, and locus heterogeneity determine the number of local optima in fitness landscapes.
Genealogical structures under interactive neutral reproduction: factorial moment duality via a Frankenstein process
This paper introduces a 'Frankenstein process' to genealogically explain moment duality in a novel interactive Moran model.
Emergent population dynamics of random walkers with cooperative reproduction and spatial selection
This paper explores how higher-order asexual reproduction impacts population invasion dynamics, finding qualitative changes beyond binary reproduction.
Computational foundations of the human world
This paper proposes applying computational frameworks from theoretical computer science to study human social organization and collective decision-making.
Equilibrium and Competition in Evolutionary Dynamics
This paper analyzes polymer growth and competition dynamics before replication, demonstrating equilibrium existence and stability in pre-replicative systems.
EPITIME: A Computational Framework for Integral Epidemic Models with Structure-Preserving Discretizations
EPITIME is a computational framework for integral epidemic models using structure-preserving discretizations, ensuring accurate simulations.
Incorporating the underuse problem in the tragedy of the commons
This paper models how both resource overuse and underuse can evolve as natural outcomes in common-pool resource dilemmas, depending on benefit structures.
Epidemic Extinction in a Continuous SIRS Model with Vaccination
This paper studies epidemic extinction in a continuous SIRS model with vaccination, highlighting limitations of continuous models for fade-out.
Modeling the impact of host diversity on the evolution of vector feeding preferences and implications for disease control
This paper models how host diversity and adaptive vector feeding preferences impact disease transmission, identifying key control strategies.
Degree-dependent and distance-dependent contact rates interpolate between explosive, exponential and polynomial epidemic growth
A unified agent-based model shows how contact degree and distance shape epidemic growth from explosive to polynomial rates.
Rare but Resilient: Dispersal diversity buffers species vulnerability
A new framework quantifies species vulnerability using 'competitive balance,' revealing dispersal diversity enhances resilience.
How is gene-regulatory evolution affected by cell-to-cell variability?
Cell-to-cell variability drives the evolution of robust, aligned gene-regulatory networks with enriched motifs.
The Curse of Black Sigatoka: A Backward Bifurcation Perspective
A new model for Black Sigatoka disease reveals a backward bifurcation, explaining why reducing R0 alone fails and suggesting new control strategies.
From lab to outbreak: experimental mosquito extrinsic incubation period distributions shape dengue epidemic dynamics
This paper shows that using experimentally derived extrinsic incubation period distributions in dengue models delays and flattens epidemic peaks.
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