8 citations · 10 across the 9 of their papers we have counts for
9 papers
Can LLM Agents Select and Engage with Biological Tools?
Jeffrey Lee, Alyssa Wordland, Kyle Brady +12
Computational tools for biological research (biological tools, or BTs) are advancing rapidly in both quantity and demonstrated capability. While these technologies offer many benef…
Do Large Language Models Know What They Are Capable Of?
Casey O. Barkan, Sid Black, Oliver Sourbut
We investigate whether large language models (LLMs) can predict whether they will succeed on a given task and whether their predictions improve as they progress through multi-step…
Incorporating stochastic gene expression, signaling-mediated intercellular interactions, and regulated cell proliferation in models of coordinated tissue development
Casey O. Barkan, Tom Chou
Formulating quantitative and predictive models for tissue development requires consideration of the complex, stochastic gene expression dynamics, its regulation via cell-to-cell in…
Can an increase in productivity cause a decrease in production? Insights from a model economy with AI automation
Casey O. Barkan
It is widely assumed that increases in economic productivity necessarily lead to economic growth. In this paper, it is shown that this is not always the case. An idealized model of…
On the convergence of phase space distributions to microcanonical equilibrium: dynamical isometry and generalized coarse-graining
Casey O. Barkan
This work explores the manner in which classical phase space distribution functions converge to the microcanonical distribution. We first prove a theorem about the lack of converge…
Migration feedback induces emergent ecotypes and abrupt transitions in evolving populations
Casey O. Barkan, Shenshen Wang
We explore the connection between migration patterns and emergent behaviors of evolving populations in spatially heterogeneous environments. Despite extensive studies in ecological…
Multiple Phase Transitions Shape Biodiversity of a Migrating Population
Casey Barkan, Shenshen Wang
In a wide variety of natural systems, closely-related microbial strains coexist stably, resulting in high levels of fine-scale biodiversity. However, the mechanisms that stabilize…
Geometric Signatures of Switching Behavior in Mechanobiology
Casey O. Barkan, Robijn F. Bruinsma
The proteins involved in cells' mechanobiological processes have evolved specialized and surprising responses to applied forces. Biochemical transformations that show catch-to-slip…
Automated selection of the local potential for transferable pseudopotentials
Casey O. Barkan, Andrew M. Rappe
We develop an automated procedure to select the local potential of a separable pseudopotential that minimizes transferability errors for the isolated atom, and we show that this op…