The omnipresence of the same basic equations, function forms, algorithms, and quantitative methods is one of the most spectacular characteristics of contemporary modeling practice. Recently, the emergence of the discussion of templates and template transfer has addressed this striking cross-disciplinary reach of certain mathematical forms and computational algorithms. In this paper, we develop a notion of a model template, consisting of its mathematical structure, ontology, prototypical properties and behaviors, focal conceptualizations, and the paradigmatic questions it addresses. We apply this notion to three widely disseminated and powerful model templates: the Sherrington-Kirkpatrick model of spin glasses, scale-free networks, and the Kuramoto model of synchronization. We argue that what appears to be an interdisciplinary model transfer between different domains turns out, from a broader perspective, to be the application of transdisciplinary model templates across a multitude of domains. We also point out a further feature of template-based modeling that so far has not been discussed: template entanglement. Such entanglement enhances and makes manifest the conceptual side of model templates.
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http://dx.doi.org/10.1007/s11229-023-04178-3 | DOI Listing |
Gastro Hep Adv
October 2024
Bakar Computational Health Sciences Institute, University of California, San Francisco, San Francisco, California.
Background And Aims: Patient-reported outcomes (PROs) are vital in assessing disease activity and treatment outcomes in inflammatory bowel disease (IBD). However, manual extraction of these PROs from the free-text of clinical notes is burdensome. We aimed to improve data curation from free-text information in the electronic health record, making it more available for research and quality improvement.
View Article and Find Full Text PDFJ Imaging Inform Med
January 2025
Department of Chinese and Bilingual Studies, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong Special Administrative Region, China.
Deep learning models have shown promise in diagnosing neurodevelopmental disorders (NDD) like ASD and ADHD. However, many models either use graph neural networks (GNN) to construct single-level brain functional networks (BFNs) or employ spatial convolution filtering for local information extraction from rs-fMRI data, often neglecting high-order features crucial for NDD classification. We introduce a Multi-view High-order Network (MHNet) to capture hierarchical and high-order features from multi-view BFNs derived from rs-fMRI data for NDD prediction.
View Article and Find Full Text PDFJ Neurochem
January 2025
Centre for Prions and Protein Folding Diseases, University of Alberta, Edmonton, Canada.
Highly abundant in neurons, the cellular prion protein (PrP) is an obligatory precursor to the disease-associated misfolded isoform denoted PrP that accumulates in the rare neurodegenerative disorders referred to either as transmissible spongiform encephalopathies (TSEs) or as prion diseases. The ability of PrP to serve as a substrate for this template-mediated conversion process depends on several criteria but importantly includes the presence or absence of certain endoproteolytic events performed at the cell surface or in acidic endolysosomal compartments. The major endoproteolytic events affecting PrP are referred to as α- and β-cleavages, and in this review we outline the sites within PrP at which the cleavages occur, the mechanisms potentially responsible and their relevance to pathology.
View Article and Find Full Text PDFPLoS Comput Biol
January 2025
Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, Zhejiang, China.
In eukaryotes, DNA achieves a highly compact structure primarily due to its winding around the histone cores. The nature wrapping of DNA around histone core form a 1.7 left-handed superhelical turns, contributing to negative supercoiling in chromatin.
View Article and Find Full Text PDFJ Clin Psychol Med Settings
January 2025
Department of Family and Preventative Medicine, School of Medicine, Emory University, Atlanta, GA, USA.
Integrated Care (IC) models have increased, but the current mechanisms to analyze the efficacy and fidelity of behavioral interventions within IC models are limited. A mixed methods concurrent process evaluation was used within the context of a randomized clinical trial to assess intervention fidelity for a Solution-focused brief therapy (SFBT) intervention implemented within an IC model. A qualitative content analysis was conducted to develop a participant survey and charting template for the SFBT intervention.
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