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Bayesian inference methods are useful in infectious diseases modeling due to their capability to propagate uncertainty, manage sparse data, incorporate latent structures, and address high-dimensional parameter spaces. However, parameter…

Methodology · Statistics 2025-04-29 Xiahui Li , Fergus Chadwick , Ben Swallow

Traditional stochastic modeling of reactive systems limits the domain of applicability of the associated path thermodynamics to systems involving a single elementary reaction at the origin of each observed change in composition. An…

Statistical Mechanics · Physics 2023-01-18 F. Baras , A. L. Garcia , M. Malek Mansour

Model-based approaches for image reconstruction, analysis and interpretation have made significant progress over the last decades. Many of these approaches are based on either mathematical, physical or biological models. A challenge for…

Computer Vision and Pattern Recognition · Computer Science 2019-10-01 Daniel Rueckert , Julia A. Schnabel

Diffusion models have found phenomenal success as expressive priors for solving inverse problems, but their extension beyond natural images to more structured scientific domains remains limited. Motivated by applications in materials…

Computer Vision and Pattern Recognition · Computer Science 2024-10-08 Timofey Efimov , Harry Dong , Megna Shah , Jeff Simmons , Sean Donegan , Yuejie Chi

Over the last two decades, scientific literature has been blooming with various means of simulating epithelial cell colonies. Each of these simulations can be separated by their respective efficiency (expressed in terms of consumed…

Computational Physics · Physics 2022-12-20 Kevin Höllring , Ana-Sunčana Smith

One of the main challenges in diffusion-based molecular communication is dealing with the non-linearity of reaction-diffusion chemical equations. While numerical methods can be used to solve these equations, a change in the input signals or…

Information Theory · Computer Science 2021-06-04 Hamidreza Abin , Amin Gohari , Masoumeh Nasiri-Kenari

Reaction-diffusion systems where transition rates exhibit quenched disorder are common in physical and chemical systems. We study pair reactions on a periodic two-dimensional lattice, including continuous deposition and spontaneous…

Disordered Systems and Neural Networks · Physics 2010-11-10 A. Wolff , I. Lohmar , J. Krug , Y. Frank , O. Biham

Multiple Instance Learning (MIL) has been widely applied in pathology towards solving critical problems such as automating cancer diagnosis and grading, predicting patient prognosis, and therapy response. Deploying these models in a…

Computer Vision and Pattern Recognition · Computer Science 2022-10-18 Syed Ashar Javed , Dinkar Juyal , Harshith Padigela , Amaro Taylor-Weiner , Limin Yu , Aaditya Prakash

We consider the edge-based compartmental models for epidemic spread developed in Part I. We show conditions under which simpler models may be substituted for more detailed models, and in so doing we define a hierarchy of epidemic models. In…

Populations and Evolution · Quantitative Biology 2015-09-03 Joel C. Miller , Erik M. Volz

Reaction-diffusion equations describe various spatially extended processes that unfold as traveling fronts moving at constant velocity. We introduce and solve analytically a model that, besides such fronts, supports solutions advancing as…

Biological Physics · Physics 2026-02-13 Louis Brezin , Kyle J. Shaffer , Kirill S. Korolev

Extracting biomedical relations from large corpora of scientific documents is a challenging natural language processing task. Existing approaches usually focus on identifying a relation either in a single sentence (mention-level) or across…

Computation and Language · Computer Science 2020-11-23 Harshil Shah , Julien Fauqueur

Infectious diseases remain one of the major causes of human mortality and suffering. Mathematical models have been established as an important tool for capturing the features that drive the spread of the disease, predicting the progression…

We introduced a methodology to efficiently exploit natural-language expressed biomedical knowledge for repurposing existing drugs towards diseases for which they were not initially intended. Leveraging on developments in Computational…

Quantitative Methods · Quantitative Biology 2014-06-17 Ruggero Gramatica , T. Di Matteo , Stefano Giorgetti , Massimo Barbiani , Dorian Bevec , Tomaso Aste

Understanding current energy consumption behavior in communities is critical for informing future energy use decisions and enabling efficient energy management. Urban energy models, which are used to simulate these energy use patterns,…

Computational Engineering, Finance, and Science · Computer Science 2026-04-03 Saumya Sinha , Alexandre Cortiella , Rawad El Kontar , Andrew Glaws , Ryan King , Patrick Emami

Diffusion models are important in tissue engineering as they enable an understanding of molecular delivery to cells in tissue constructs. As three-dimensional (3D) tissue constructs become larger, more intricate, and more clinically…

Tissues and Organs · Quantitative Biology 2015-12-22 Richard J. McMurtrey

Image-to-image reconstruction problems with free or inexpensive metadata in the form of class labels appear often in biological and medical image domains. Existing text-guided or style-transfer image-to-image approaches do not translate to…

Computer Vision and Pattern Recognition · Computer Science 2023-03-30 Jan Oscar Cross-Zamirski , Praveen Anand , Guy Williams , Elizabeth Mouchet , Yinhai Wang , Carola-Bibiane Schönlieb

Numerous methods for probabilistic reasoning in large, complex belief or decision networks are currently being developed. There has been little research on automating the dynamic, incremental construction of decision models. A uniform…

Artificial Intelligence · Computer Science 2013-03-08 Soe-Tsyr Yuan

Mathematical and computational tools have proven to be reliable in decision-making processes. In recent times, in particular, machine learning-based methods are becoming increasingly popular as advanced support tools. When dealing with…

Optimization and Control · Mathematics 2024-02-23 Christina Schenk , Aditya Vasudevan , Maciej Haranczyk , Ignacio Romero

Since a significant amount of disease transmission occurs through human-to-human or social contact, understanding who interacts with whom in time and space is essential for disease transmission modeling, prediction, and assessment of…

Systems and Control · Electrical Eng. & Systems 2021-08-03 Mahdi M. Najafabadi , Ali Asgary , Mohammadali Tofighi , Ghassem Tofighi

Electrostatic forces play many important roles in molecular biology, but are hard to model due to the complicated interactions between biomolecules and the surrounding solvent, a fluid composed of water and dissolved ions. Continuum model…

Numerical Analysis · Mathematics 2015-12-29 Jaydeep P. Bardhan , Matthew G. Knepley
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