We review here Maximum Caliber (Max Cal), a general variational principle for inferring distributions of paths in dynamical processes and networks. Max Cal is to dynamical trajectories what the principle of maximum entropy is to equilibrium states or stationary populations. In Max Cal, you maximize a path entropy over all possible pathways, subject to dynamical constraints, in order to predict relative path weights. Many well-known relationships of non-equilibrium statistical physics-such as the Green-Kubo fluctuation-dissipation relations, Onsager's reciprocal relations, and Prigogine's minimum entropy production-are limited to near-equilibrium processes. Max Cal is more general. While it can readily derive these results under those limits, Max Cal is also applicable far from equilibrium. We give examples of Max Cal as a method of inference about trajectory distributions from limited data, finding reaction coordinates in bio-molecular simulations, and modeling the complex dynamics of non-thermal systems such as gene regulatory networks or the collective firing of neurons. We also survey its basis in principle and some limitations.
Download full-text PDF |
Source |
---|---|
http://dx.doi.org/10.1063/1.5012990 | DOI Listing |
Proc Natl Acad Sci U S A
January 2025
Department of Earth Sciences, Montana State University, Bozeman, MT 59717.
Climate-driven changes in high-elevation forest distribution and reductions in snow and ice cover have major implications for ecosystems and global water security. In the Greater Yellowstone Ecosystem of the Rocky Mountains (United States), recent melting of a high-elevation (3,091 m asl) ice patch exposed a mature stand of whitebark pine () trees, located ~180 m in elevation above modern treeline, that date to the mid-Holocene (c. 5,950 to 5,440 cal y BP).
View Article and Find Full Text PDFNat Genet
January 2025
Computational and Systems Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Single-cell genomics technologies have accelerated our understanding of cell-state heterogeneity in diverse contexts. Although single-cell RNA sequencing identifies rare populations that express specific marker transcript combinations, traditional flow sorting requires cell surface markers with high-fidelity antibodies, limiting our ability to interrogate these populations. In addition, many single-cell studies require the isolation of nuclei from tissue, eliminating the ability to enrich learned rare cell states based on extranuclear protein markers.
View Article and Find Full Text PDFPlant Dis
December 2024
Universidade Federal de Viçosa, Fitopatologia, Campus Universitário, s/n, Vicosa, MG, Brazil, 36570-900.
Epidemics of pod and grain rot (PGR) of soybean (Glycine max (L.) Merr.), popularly referred to as "pod anomaly", have economically impacted Brazilian farmers, especially in Mato Grosso (MT), Brazil's largest producer state, where incidence varies from 10 to 40%.
View Article and Find Full Text PDFPlant Dis
November 2024
Huaihua University, Huaihua, Hunan, China;
Arch Med Sadowej Kryminol
October 2024
Faculty of Medical Sciences, Academy of Silesia, Poland.
Introduction: The development of pneumatic shooting has led to the construction of technologically advanced devices with discharge energies similar to those of firearms. The pneumatic weapons ammunition market offers a variety of shot which varies in penetration properties and the extent of gunshot damage. In view of the ease of "tuning" of air rifles, a study was conducted of the inlet damage to the anterior femoral surface after pneumatic gunshots.
View Article and Find Full Text PDFEnter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!