A nonequilibrium allosteric model for receptor-kinase complexes: The role of energy dissipation in chemotaxis signaling
The Escherichia coli chemotaxis signaling pathway has served as a model system for the
adaptive sensing of environmental signals by large protein complexes. The chemoreceptors …
adaptive sensing of environmental signals by large protein complexes. The chemoreceptors …
Mutual linearity of nonequilibrium network currents
For continuous-time Markov chains and open unimolecular chemical reaction networks, we
prove that any two stationary currents are linearly related upon perturbations of a single …
prove that any two stationary currents are linearly related upon perturbations of a single …
Energy cost for flocking of active spins: the cusped dissipation maximum at the flocking transition
We study the energy cost of flocking in the active Ising model (AIM) and show that, besides
the energy cost for self-propelled motion, an additional energy dissipation is required to …
the energy cost for self-propelled motion, an additional energy dissipation is required to …
Synergy among Pausing, Intrinsic Proofreading, and Accessory Proteins Results in Optimal Transcription Speed and Tolerable Accuracy
Cleavage of dinucleotides after the misincorporational pauses serves as a proofreading
mechanism that increases transcriptional elongation accuracy. The accuracy is further …
mechanism that increases transcriptional elongation accuracy. The accuracy is further …
Pareto optimal fronts of kinetic proofreading
D Chiuchiu, S Mondal, S Pigolotti - New Journal of Physics, 2023 - iopscience.iop.org
Biological processes such as DNA replication, RNA transcription, and protein translation
operate with remarkable speed and accuracy in selecting the right substrate from pools of …
operate with remarkable speed and accuracy in selecting the right substrate from pools of …
[HTML][HTML] A universal method for analyzing copolymer growth
B Qureshi, J Juritz, JM Poulton… - The Journal of …, 2023 - pubs.aip.org
Polymers consisting of more than one type of monomer, known as copolymers, are vital to
both living and synthetic systems. Copolymerization has been studied theoretically in a …
both living and synthetic systems. Copolymerization has been studied theoretically in a …
Reliable ligand discrimination in stochastic multistep kinetic proofreading: First passage time vs. product counting strategies
Cellular signaling, crucial for biological processes like immune response and homeostasis,
relies on specificity and fidelity in signal transduction to accurately respond to stimuli amidst …
relies on specificity and fidelity in signal transduction to accurately respond to stimuli amidst …
Rapid adaptation of cellular metabolic rate to the MicroRNA complements of mammals and its relevance to the evolution of endothermy
The metabolic efficiency of mammalian cells depends on the attenuation of intrinsic
translation noise by microRNAs. We devised a metric of cellular metabolic rate (cMR) …
translation noise by microRNAs. We devised a metric of cellular metabolic rate (cMR) …
Universal thermodynamic bounds on the Fano factor of discriminatory networks with unidirectional transitions
J Berx, K Proesmans - Europhysics Letters, 2024 - iopscience.iop.org
We derive a universal lower bound on the Fano factors of general biochemical
discriminatory networks involving irreversible catalysis steps, based on the thermodynamic …
discriminatory networks involving irreversible catalysis steps, based on the thermodynamic …
Dissipation at limited resolutions: Power law and detection of hidden dissipative scales
Q Yu, PE Harunari - arXiv preprint arXiv:2407.13707, 2024 - arxiv.org
Nonequilibrium systems, in particular living organisms, are maintained by irreversible
transformations of energy that drive diverse functions. Quantifying their irreversibility, as …
transformations of energy that drive diverse functions. Quantifying their irreversibility, as …