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Andrew Hu

Publications and source records attributed to Andrew Hu.

2 recordsLinked to original sources

Evolutionary Recurrent Decision Model in Developing Adaptive and Maladaptive Behaviors

This study introduces the evolutionarily recurrent decision model (ERDM), a computational reinforcement learning framework designed to examine how evolutionary mismatch, bounded rationality, and satisficing contribute to adaptive and maladaptive behavior. ERDM simulates agents across evolutionary recurrent environments, including threat, prey/goal-pursuits, and alliances. Agents learn through competing rewards abstracted from survival metrics. A validity study under varying adverse childhood experiences demonstrates that distinct adaptive and maladaptive strategies, such as learned helplessness, avoidance, healthy relationships, and aggression, emerge naturally without being hardwired. These results align with empirical literature, showcasing ecological validity. The results suggest that many psychopathology-relevant aspects may be interpreted as bounded cognitive systems operating under modern-ancestral environmental mismatch, positioning ERDM as a key computational cognitive tool that can be extended to other studies.

cs.AI

PyBioNetFit and the Biological Property Specification Language

In systems biology modeling, important steps include model parameterization, uncertainty quantification, and evaluation of agreement with experimental observations. To help modelers perform these steps, we developed the software PyBioNetFit. PyBioNetFit is designed for parameterization, and also supports uncertainty quantification, checking models against known system properties, and solving design problems. PyBioNetFit introduces the Biological Property Specification Language (BPSL) for the formal declaration of system properties. BPSL allows qualitative data to be used alone or in combination with quantitative data for parameterization model checking, and design. PyBioNetFit performs parameterization with parallelized metaheuristic optimization algorithms (differential evolution, particle swarm optimization, scatter search) that work directly with existing model definition standards: BioNetGen Language (BNGL) and Systems Biology Markup Language (SBML). We demonstrate PyBioNetFit's capabilities by solving 31 example problems, including the challenging problem of parameterizing a model of cell cycle control in yeast. We benchmark PyBioNetFit's parallelization efficiency on computer clusters, using up to 288 cores. Finally, we demonstrate the model checking and design applications of PyBioNetFit and BPSL by analyzing a model of therapeutic interventions in autophagy signaling.

q-bio.QM