# GNisi: A graph network for reconstructing Ising models from multivariate binarized data

arXiv: https://arxiv.org/abs/2109.04257 · HTML: https://mlsanity.com/paper/2109.04257/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 6 of its 38 references that are in the map.
- First posted on arXiv 9 Sep 2021.

## Builds on (most cited first, 6 of 6)

- [Adam: A Method for Stochastic Optimization](https://mlsanity.com/paper/1412.6980/) (2014)
- [A Comprehensive Survey on Graph Neural Networks](https://mlsanity.com/paper/1901.00596/) (2019)
- [Optuna: A Next-generation Hyperparameter Optimization Framework](https://mlsanity.com/paper/1907.10902/) (2019)
- [Relational inductive biases, deep learning, and graph networks](https://mlsanity.com/paper/1806.01261/) (2018)
- [Learning to Simulate Complex Physics with Graph Networks](https://mlsanity.com/paper/2002.09405/) (2020)
- [Learning Mesh-Based Simulation with Graph Networks](https://mlsanity.com/paper/2010.03409/) (2020)

## Abstract (arXiv)

Ising models are a simple generative approach to describing interacting binary variables. They have proven useful in a number of biological settings because they enable one to represent observed many-body correlations as the separable consequence of many direct, pairwise statistical interactions. The inference of Ising models from data can be computationally very challenging and often one must be satisfied with numerical approximations or limited precision. In this paper we present a novel method for the determination of Ising parameters from data, called GNisi, which uses a Graph Neural network trained on known Ising models in order to construct the parameters for unseen data. We show that GNisi is more accurate than the existing state of the art software, and we illustrate our method by applying GNisi to gene expression data.