139 citations · 321 across the 10 of their papers we have counts for
10 papers
Optimization and variability can coexist
Marianne Bauer, William Bialek, Chase Goddard +6
Many biological systems perform close to their physical limits, but promoting this optimality to a general principle seems to require implausibly fine tuning of parameters. Using e…
Emergent scale-free networks
Christopher W. Lynn, Caroline M. Holmes, Stephanie E. Palmer
Many complex systems--from social and communication networks to biological networks and the Internet--are thought to exhibit scale-free structure. However, prevailing explanations…
Signatures of irreversibility in microscopic models of flocking
Federica Ferretti, Simon Grosse-Holz, Caroline Holmes +4
Flocking in is a genuine non-equilibrium phenomenon for which irreversibility is an essential ingredient. We study a class of minimal flocking models whose only source of irr…
Emergence of local irreversibility in complex interacting systems
Christopher W. Lynn, Caroline M. Holmes, William Bialek +1
Living systems are fundamentally irreversible, breaking detailed balance and establishing an arrow of time. But how does the evident arrow of time for a whole system arise from the…
Decomposing the local arrow of time in interacting systems
Christopher W. Lynn, Caroline M. Holmes, William Bialek +1
We show that the evidence for a local arrow of time, which is equivalent to the entropy production in thermodynamic systems, can be decomposed. In a system with many degrees of fre…
A simple regulatory architecture allows learning the statistical structure of a changing environment
Stefan Landmann, Caroline M. Holmes, Mikhail Tikhonov
Bacteria live in environments that are continuously fluctuating and changing. Exploiting any predictability of such fluctuations can lead to an increased fitness. On longer timesca…
Estimation of mutual information for real-valued data with error bars and controlled bias
Caroline M. Holmes, Ilya Nemenman
Estimation of mutual information between (multidimensional) real-valued variables is used in analysis of complex systems, biological systems, and recently also quantum systems. Thi…
Increased adaptability to rapid environmental change can more than make up for the two-fold cost of males
Caroline M. Holmes, Ilya Nemenman, Daniel B. Weissman
The famous "two-fold cost of sex" is really the cost of anisogamy -- why should females mate with males who do not contribute resources to offspring, rather than isogamous partners…
Luria-Delbruck, revisited: The classic experiment does not rule out Lamarckian evolution
Caroline Holmes, Mahan Ghafari, Abbas Anzar +2
We re-examined data from the classic Luria-Delbruck fluctuation experiment, which is often credited with establishing a Darwinian basis for evolution. We argue that, for the Lamarc…
Motor control by precisely timed spike patterns
Kyle H. Srivastava, Caroline M. Holmes, Michiel Vellema +4
A fundamental problem in neuroscience is to understand how sequences of action potentials ("spikes") encode information about sensory signals and motor outputs. Although traditiona…