相关论文: Red herrings and rotten fish
These lecture notes were prepared for the 2018 Summer School on `Active Matter and Non-equilibrium Statistical Physics' at l'\'{E}cole de Physique des Houches. They survey metabolic activity across a wide range of living organisms, and…
Based on a nonabelian generalization of electric-magnetic duality, the Dualized Standard Model (DSM) suggests a natural explanation for exactly 3 generations of fermions as the `dual colour' $\widetilde{SU}(3)$ symmetry broken in a…
Previous likelihood-based linear modeling of nutritional data has been limited by the availability of software that allows flexible error structures in the data. We demonstrate the use of a Bayesian modeling approach to the analysis of such…
Constraints on changes in expression levels across all cell components imposed by the steady growth of cells have recently been discussed both experimentally and theoretically. By assuming a small environmental perturbation and considering…
Cancer cells are often seen to prefer glycolytic metabolism over oxidative phosphorylation even in the presence of oxygen-a phenomenon termed the Warburg effect. Despite significant strides in the decades since its discovery, a clear basis…
We scrutinize the temporally-resolved speed of active cargo transport in living cells, and show intermittent bursting motions. These nonlinear fluctuations follow a scaling law over several decades of time and space, the statistical…
Cosmic microwave background measurements show an agreement with the concordance cosmology model except for a few notable anomalies: Power Suppression, the lack of large scale power in the temperature data compared to what is expected in the…
Understanding the cross-species behavior of cancer is important for uncovering fundamental mechanisms of carcinogenesis, and for translating results of model systems between species. One of the most famous interspecific considerations of…
We study time dynamics of 1D disordered Heisenberg spin-1/2 chain focusing on a regime of large system sizes and a long time evolution. This regime is relevant for observation of many-body localization (MBL), a phenomenon that is expected…
Large amplitude collective motion is investigated for a model pairing Hamiltonian containing an avoided level crossing. A classical theory of collective motion for the adiabatic limit is applied utilising either a time-dependent mean-field…
Optimization-based models have been used to predict cellular behavior for over 25 years. The constraints in these models are derived from genome annotations, measured macro-molecular composition of cells, and by measuring the cell's growth…
Understanding biological phenomena requires a systemic approach that incorporates different mechanisms acting on different spatial and temporal scales, since in organisms the workings of all components, such as organelles, cells, and organs…
We have investigated scaling properties of the Aubry-Andr\'e model and related one-dimensional quasiperiodic Hamiltonians near their localisation transitions. We find numerically that the scaling of characteristic energies near the ground…
Microbes require several complex organic molecules for growth. A species may obtain a required factor by taking up molecules released by other species or by synthesizing the molecule. The patterns of uptake and synthesis set a flow of…
Metabolic energy consumption has long been thought to play a major role in the aging process ({\it 1}). Across species, a gram of tissue on average expends about the same amount of energy during life-span ({\it 2}). Energy restriction has…
A natural similarity in body dimensions of terrestrial animals noticed by ancient philosophers remains the main key to the problem of mammalian skeletal evolution with body mass explored in theoretical and experimental biology and tested by…
Many biochemical processes can successfully be described by dynamical systems allowing some form of switching when, depending on their initial conditions, solutions of the dynamical system end up in different regions of state space…
Numerous living systems are hierarchically organised, whereby replicating components are grouped into reproducing collectives -- e.g., organelles are grouped into cells, and cells are grouped into multicellular organisms. In such systems,…
Metabolism plays a central role in cell physiology because it provides the molecular machinery for growth. At the genome-scale, metabolism is made up of thousands of reactions interacting with one another. Untangling this complexity is key…
The chemomechanical model of Huxley and Simmons (HS) [A. F. Huxley and R. M. Simmons, Nature 233, 533 (1971)] provides a paradigmatic description of mechanically induced collective conformational changes relevant in a variety of biological…