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The spin-boson model is a prototypical model for open quantum dynamics. Here we simulate the spin-boson model using a chain of trapped ions where a spin is coupled to a structured reservoir of bosonic modes. We engineer the spectral density…

We present multiscale models of cancer tumor invasion with components at the molecular, cellular, and tissue levels. We provide biological justifications for the model components, present computational results from the model, and discuss…

Quantitative Methods · Quantitative Biology 2023-02-14 Bruce P. Ayati , Glenn F. Webb , Alexander R. A. Anderson

Effective therapy decisions require models that predict the individual response to treatment. This is challenging since the progression of disease and response to treatment vary substantially across patients. Here, we propose to learn a…

Computer Vision and Pattern Recognition · Computer Science 2025-09-19 Ivana Janíčková , Yen Y. Tan , Thomas H. Helbich , Konstantin Miloserdov , Zsuzsanna Bago-Horvath , Ulrike Heber , Georg Langs

During the ion bombardment of targets containing multiple component species, highly-ordered arrays of nanostructures are sometimes observed. Models incorporating coupled partial differential equations, describing both morphological and…

Mathematical Physics · Physics 2015-06-15 Scott A. Norris , Juha Samela , Matias Vestberg , Kai Nordlund , Michael J. Aziz

Dual-energy computed tomography (DECT) is a promising technology that has shown a number of clinical advantages over conventional X-ray CT, such as improved material identification, artifact suppression, etc. For proton therapy treatment…

The search is now on for, new materials that can be used for ionic stripping. Materials that maximize the stripping of the structural ion are important for conducting experiments with quark-gluon plasma. Although this paper is a theoretical…

Atomic Physics · Physics 2018-01-17 D. N. Makarov , V. I. Matveev

The passage of energetic ions through tissue initiates a series of physico-chemical events, which lead to biodamage. The study of this scenario using a multiscale approach brought about the theoretical prediction of shock waves initiated by…

Biological Physics · Physics 2021-07-28 Pablo de Vera , Eugene Surdutovich , Nigel J. Mason , Fred J. Currell , Andrey V. Solov'yov

We review how RHIC is expected to deepen our understanding of the spin structure of longitudinally polarized nucleons. After briefly outlining the current status of spin-dependent parton densities and pointing out open questions, we focus…

High Energy Physics - Phenomenology · Physics 2009-11-07 Marco Stratmann

Many ion channels spontaneously switch between different levels of activity. Although this behaviour known as modal gating has been observed for a long time it is currently not well understood. Despite the fact that appropriately…

Quantitative Methods · Quantitative Biology 2018-08-14 Ivo Siekmann , Mark Fackrell , Edmund J. Crampin , Peter Taylor

We describe the Bayesian Analysis of Nuclear Dynamics (BAND) framework, a cyberinfrastructure that we are developing which will unify the treatment of nuclear models, experimental data, and associated uncertainties. We overview the…

In the previous paper of this series [D. P. Varn, G. S. Canright, and J. P. Crutchfield, Physical Review B, submitted] we detailed a procedure--epsilon-machine spectral reconstruction--to discover and analyze patterns and disorder in…

Materials Science · Physics 2007-05-23 D. P. Varn , G. S. Canright , J. P. Crutchfield

Verification of patient specific proton stopping powers obtained in the patient treatment position can be used to reduce the distal margins needed in particle beam planning. Proton radiography can be used as a pre-treatment instrument to…

The lack of reliable atomic data can be a severe limitation in astrophysical modelling, in particular of events such as kilonovae that require information on all neutron-capture elements across a wide range of ionization stages. Notably,…

Atomic Physics · Physics 2024-03-06 Sema Caliskan , Jon Grumer , Anish M. Amarsi

Radiotherapy treatment for prostate cancer relies on computed tomography (CT) and/or magnetic resonance imaging (MRI) for segmentation of target volumes and organs at risk (OARs). Manual segmentation of these volumes is regarded as the gold…

Healthcare is one of the most promising areas for machine learning models to make a positive impact. However, successful adoption of AI-based systems in healthcare depends on engaging and educating stakeholders from diverse backgrounds…

The increasing availability of unstructured clinical narratives in electronic health records (EHRs) has created new opportunities for automated disease characterization, cohort identification, and clinical decision support. However,…

Computation and Language · Computer Science 2026-03-03 Fariba Afrin Irany , Sampson Akwafuo

Achieving effective synergy between radiotherapy and immunotherapy is critical for optimizing tumor control and treatment outcomes. To explore the underlying mechanisms of this synergy, we have investigated a novel treatment approach known…

Quantitative Methods · Quantitative Biology 2025-04-23 Yixun Xing , Casey Moore , Debabrata Saha , Dan Nguyen , MaryLena Bleile , Xun Jia , Robert Timmerman , Hao Peng , Steve Jiang

A new electronic structure model is developed in which the ground state energy of a molecular system is given by a Hartree-Fock-like expression with parametrized one- and two-electron integrals over an extended (minimal + polarization) set…

Chemical Physics · Physics 2014-02-11 Dimitri N. Laikov

Identification of dynamics underlying biochemical pathways of interest in oncology is a primary goal in current systems biology. Understanding structures and interactions that govern the evolution of such systems is believed to be a…

Other Quantitative Biology · Quantitative Biology 2009-09-29 Filippo Menolascina , Vitoantonio Bevilacqua , Caterina Ciminelli , Stefania Tommasi , Angelo Paradiso

It has been known for about sixty years that proton and heavy ion therapy is a very powerful radiation procedure for treating tumours. It has an innate ability to irradiate tumours with greater doses and spatial selectivity compared with…

Plasma Physics · Physics 2014-05-13 K. W. D. Ledingham , P. R. Bolton , N. Shikazono , C-M. Ma
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