ArticlePLOS complex systems2025
Energy landscape analysis based on the Ising model: Tutorial review.
Article in PLOS complex systems, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Temporal stability of functional network configurations and its relationship to cognition and psychopathology in early psychoses.Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology · 2026Article
- Automating region selection with genetic algorithms for energy landscape analyses of brain dynamics.Patterns (New York, N.Y.) · 2026Article
- Stochastic Forces in Microbial Community Assembly: Founding Community Size Governs Divergent Ecological Trajectories.Ecology letters · 2026Article
- Maximum entropy model reveals frequent brain state switching in a multiversal brain function analysis in early psychoses.bioRxiv : the preprint server for biology · 2026Article
- Microbiome assembly statistics toward ecosystem-scale insights, forecasting, and management.The ISME journal · 2026Review
- Psychological distress among Japanese high school students during the COVID-19 pandemic: An energy landscape analysis.PLoS medicine · 2026Article
- Computational Characterization of Pathogenic LMNA Missense Variants: Structural Instability, Altered Binding, and Conformational Dynamics.Human mutation · 2026Article
- Energy landscapes and synergetic state transitions in frustrated Stuart-Landau oscillator networks: a homotopy continuation study.Frontiers in network physiology · 2026Article
- From microstates to macroscales: A Critical Review of Maximum Entropy Modeling and Energy Landscape Analysis in functional MRI.Research square · 2025Article
- State-space kinetic Ising model reveals task-dependent entropy flow in sparsely active nonequilibrium neuronal dynamics.Nature communications · 2025Article
- Article
- Energy landscape analysis of health checkup data clarified multiple pathways to diabetes development in obese and non-obese subjects.Frontiers in endocrinology · 2025Observational
- Surrogate data analyses of the energy landscape analysis of resting-state brain activity.Frontiers in neural circuits · 2025Article
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Authors and funding
4 authors.
Funding
Abstract
We review a class of energy landscape analysis method that uses the Ising model and takes multivariate time series data as input. The method allows one to capture dynamics of the data as trajectories of a ball from one basin to a different basin to yet another, constrained on the energy landscape specified by the estimated Ising model. While this energy landscape analysis has mostly been applied to functional magnetic resonance imaging (fMRI) data from the brain for historical reasons, there are emerging applications outside fMRI data and neuroscience. To inform such applications in various research fields, this review paper provides a detailed tutorial on each step of the analysis, terminologies, concepts underlying the method, and validation, as well as recent developments of extended and related methods.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.