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Calcium and reactive oxygen species (ROS) interact with each other and play an important role in cell signaling networks. Based on the existing mathematical models, we develop an age-dependent feedback control model to simulate the…

Molecular Networks · Quantitative Biology 2022-02-03 Weijiu Liu

The synthesis of the high-$T_c$ superhydride CaH$_6$ has stimulated significant interest in understanding synthesis pathways for metastable hydrides. However, the microscopic mechanisms governing such hydrogenation reactions remain poorly…

A protein's function depends critically on its conformational ensemble, a collection of energy weighted structures whose balance depends on temperature and environment. Though recent deep learning (DL) methods have substantially advanced…

Biomolecules · Quantitative Biology 2026-01-09 Myeongsang Lee , Lauren L. Porter

Over the last two decades, spatial light modulators (SLMs) have revolutionised our ability to shape optical fields. They grant independent dynamic control over thousands of degrees-of-freedom within a single light beam. In this work we test…

Multicellular organisms consist of cells that interact via elaborate adhesion complexes. Desmosomes are membrane-associated adhesion complexes that mechanically tether the cytoskeletal intermediate filaments (IFs) between two adjacent…

Biomolecules · Quantitative Biology 2018-10-01 Charles E. McAnany , Cameron Mura

Semiflexible polymers such as filamentous actin play a vital role in the mechanical behavior of cells, yet the basic properties of cross-linked F-actin networks remain poorly understood. To address this issue, we have performed numerical…

Soft Condensed Matter · Physics 2009-11-10 D. A. Head , A. J. Levine , F. C. MacKintosh

We present a minimal model of plasma membrane heterogeneity that combines criticality with connectivity to cortical cytoskeleton. Our model is motivated by recent observations of micron-sized critical fluctuations in plasma membrane…

Subcellular Processes · Quantitative Biology 2012-03-13 Benjamin B. Machta , Stefanos Papanikolaou , James P. Sethna , Sarah L. Veatch

Aberration-corrected environmental transmission electron microscopy (ETEM) enables atomic-resolution imaging of dynamic catalytic processes. Correlating atomic-scale structural changes with reaction products detected by mass spectrometry…

In active matter systems, self-propelled particles can self-organize to undergo collective motion, leading to persistent dynamical behavior out of equilibrium. In cells, cytoskeletal filaments and motor proteins self-organize into complex…

Soft Condensed Matter · Physics 2020-05-19 Jeffrey M. Moore , Tyler N. Thompson , Matthew A. Glaser , Meredith D. Betterton

The characteristics of molecular electronic devices are critically determined by metal-organic interfaces, which influence the arrangement of the orbital levels that participate in charge transport. Studies on self-assembled monolayers…

Calcium (Ca) plays an important role in regulating various cellular processes. In a variety of cell types, Ca signaling occurs within microdomains where channels deliver localized pulses of Ca which activate a nearby collection of…

Subcellular Processes · Quantitative Biology 2009-11-13 Robert Rovetti , Kunal K. Das , Alan Garfinkel , Yohannes Shiferaw

We derive structural and binding energy trends for twenty amino acids, their dipeptides, and their interactions with the divalent cations Ca$^{2+}$, Ba$^{2+}$, Sr$^{2+}$, Cd$^{2+}$, Pb$^{2+}$, and Hg$^{2+}$. The underlying data set consists…

Biomolecules · Quantitative Biology 2016-09-15 Matti Ropo , Volker Blum , Carsten Baldauf

Quantitative phase microscopy (QPM) is often based on recording an object-reference interference pattern and its further phase demodulation. We propose Pseudo Hilbert Phase Microscopy (PHPM) where we combine pseudo thermal light source…

Calcium batteries (CBs) are an attractive post-Li-ion technology, offering the appeal of Ca's natural abundance and high volumetric energy density. However, practical realization of CBs remains limited by the scarcity of positive electrode…

While recent advances in AI have transformed protein structure prediction, protein function is also strongly influenced by the thermodynamic and kinetic features encoded in its underlying free-energy surface. Here, we propose a…

Biological Physics · Physics 2026-04-29 Alexander Zhilkin , Muralika Medaparambath , Dan Mendels

In this article we investigate $^{40,48}$Ca+$^{40,48}$Ca peripheral and semi-peripheral reactions at 35 MeV/nucleon. Data were obtained using the unique coupling of the VAMOS high acceptance spectrometer and the INDRA charged particle…

High-density phase change memory (PCM) storage is proposed for materials with multiple intermediate resistance states, which have been observed in 1$T$-TaS$_2$ due to charge density wave (CDW) phase transitions. However, the metastability…

Correlated motions of proteins underpin many physiological mechanisms, such as substrate binding, signal transduction, enzymatic activity and allostery. These motions arise from low frequency collective movements of biomolecules and have…

Quantitative Methods · Quantitative Biology 2025-10-07 Ana Milinski , Annick Dejaegere , Roland Stote

Plasma membranes appear as deformable systems wherein molecules are free to move and diffuse giving rise to condensed microdomains (composed of ordered lipids, transmembrane proteins and cholesterol) surrounded by disordered lipid…

Soft Condensed Matter · Physics 2024-09-25 Chiara Bernard , Angelo Rosario Carotenuto , Nicola Maria Pugno , Luca Deseri , Massimiliano Fraldi

The biological function of proteins is encoded in their structure and expressed through the mediation of their dynamics. Local fluctuations are known to initiate biologically relevant pathways as they cooperatively enhance the dynamics in…

Biological Physics · Physics 2016-04-20 J. Copperman , M. G. Guenza