R. Sole

The development of ecological systems along paths of least resistance

The paper shows that ecological systems develop in a sequenced order from fast-to slow-growing taxa due to environmental resistance minimization, supported by theoretical and empirical evidence.

Modeling tumors as species-rich ecological communities

The paper models tumors as ecological communities using the Generalized Lotka-Volterra model to understand intra-tumor heterogeneity and its implications for cancer progression and treatment resistance.

Network-level containment of single-species bioengineering

The paper models how adding a synthetic strain to a competitive community limits its spread, showing species diversity acts as an ecological firewall.

Modeling brain reorganization after hemispherectomy

The paper introduces a self-organized map model to explain brain reorganization after hemispherectomy and its clinical implications.

The ecology of cancer differentiation therapy

This paper develops a mathematical framework inspired by ecological models to study cancer differentiation therapy, highlighting insights into therapy design and resistance mechanisms.

Engineering self-organized criticality in living cells

This paper engineers synthetic gene networks in E. coli to display self-organized criticality by exploiting ClpXP protein degradation saturation.

Aging, computation, and the evolution of neural regeneration processes

The paper uses a multiobjective optimization approach to study how neural networks degrade and regenerate over an organism's lifespan, finding Pareto optimal tradeoffs between computational error, connection cost, and regeneration rate.

Synthetic soil crusts against green-desert transitions: a spatial model

The paper develops a spatial model to explore how synthetic microorganisms can prevent desertification in semiarid ecosystems by altering tipping points through cooperation and dispersal strategies.

Tumor neoantigen heterogeneity thresholds provide a time window for combination immunotherapy

This paper develops a mathematical framework to show that tumor neoantigen heterogeneity affects immune response, with a diversity threshold beyond which T cells fail to control cancer growth, suggesting a time window for combination immunotherapy.

Habitat loss-induced tipping points in metapopulations with facilitation

The paper models how habitat loss and facilitation interact in metapopulations, finding that local dispersal leads to continuous transitions rather than catastrophic tipping points.

Nonequilibrium entropic bounds for Darwinian replicators

The paper reviews theoretical frameworks for non-equilibrium thermodynamics and applies them to analyze thermodynamic constraints on replicator systems in prebiotic evolution.

Adaptive dynamics of unstable cancer populations: the canonical equation

The paper derives a canonical equation for the evolution of genetic instability in cancer populations using Adaptive Dynamics, linking selection and mutation in a minimal model.

Exploiting delayed transitions to sustain semiarid ecosystems after catastrophic shifts

The paper shows that semiarid ecosystems can sustain themselves after a catastrophic shift by exploiting delayed extinction, and proposes a method to maintain ecosystems using vegetation restoration.