Cedars-Sinai Develops DYNA: An AI Model for Precise Gene Variant Disease Prediction

New AI model predicts gene variants' effects on specific diseases

Cedars-Sinai investigators have developed a novel artificial intelligence (AI) model, named DYNA, that accurately distinguishes harmful gene variations from harmless ones, potentially enhancing physicians' ability to diagnose diseases. The new tool could pave the way for more precise personalized medicine and targeted therapies. In an article published in the journal Nature Machine Intelligence, the team demonstrated that DYNA outperforms existing AI models in accurately predicting which changes in DNA, commonly called mutations, are linked to specific cardiovascular conditions and other disorders. "In recent years, AI has vastly expanded our ability to detect enormous numbers of genetic variants in ever-larger populations," said Huixin Zhan, Ph.D., a contributing author of the study from the Department of Computational Biomedicine at Cedars-Sinai. "But up to half of these variants are of uncertain significance, meaning we don't know if they cause a disease and, if so, which one. The DYNA model overcomes many of these challenges." Current AI models prove to be effective in distinguishing which gene variants, in general, are more likely to negatively affect the structure or function of a protein, which can lead to disease, Zhan said. But these models lack the ability to connect a specific variant to a specific disease, which limits their usefulness in diagnosing or treating patients; DYNA can accurately perform this task. To develop DYNA, the investigators applied a type of AI known as a Siamese neural network to fine-tune two existing AI models. They used these modified models to predict the probability that specific gene variants are connected to cardiomyopathy (enlargement, stiffening or weakening of the heart muscle) and arrhythmia (irregular heartbeat). The investigators then compared the DYNA findings to data in an authoritative public database, known as ClinVar, that archives reports of genetic variations classified for diseases. The data showed that DYNA correctly paired the genetic variants with the given diseases. "For researchers, DYNA provides a flexible framework to study various genetic diseases," said Jason Moore, Ph.D., another contributing author of the study and chair of the Department of Computational Biomedicine at Cedars-Sinai. "Future developments could include using DYNA to offer health care professionals advanced tools for tailoring diagnoses and treatments to each individual's genetic profile."

New AI Model Predicts Gene Variants' Effects on Specific Diseases | Newswise

Cedars-Sinai investigators have developed DYNA, an AI model that accurately identifies harmful genetic mutations for precise diagnoses and treatments. LOS ANGELES (March 24, 2025) -- Cedars-Sinai investigators have developed a novel artificial intelligence (AI) model, named DYNA, that accurately distinguishes harmful gene variations from harmless ones, potentially enhancing physicians' ability to diagnose diseases. The new tool could pave the way for more precise personalized medicine and targeted therapies. Published in the peer-reviewed journal Nature Machine Intelligence, the team demonstrated that DYNA outperforms existing AI models in accurately predicting which changes in DNA, commonly called mutations, are linked to specific cardiovascular conditions and other disorders. "In recent years, AI has vastly expanded our ability to detect enormous numbers of genetic variants in ever-larger populations," said Huixin Zhan, PhD, a contributing author of the study from the Department of Computational Biomedicine at Cedars-Sinai. "But up to half of these variants are of uncertain significance, meaning we don't know if they cause a disease and, if so, which one. The DYNA model overcomes many of these challenges." Current AI models prove to be effective in distinguishing which gene variants, in general, are more likely to negatively affect the structure or function of a protein, which can lead to disease, Zhan said. But these models lack the ability to connect a specific variant to a specific disease, which limits their usefulness in diagnosing or treating patients; DYNA can accurately perform this task. To develop DYNA, the investigators applied a type of AI known as a Siamese neural network to fine-tune two existing AI models. They used these modified models to predict the probability that specific gene variants are connected to cardiomyopathy (enlargement, stiffening or weakening of the heart muscle) and arrhythmia (irregular heartbeat). The investigators then compared the DYNA findings to data in an authoritative public database, known as ClinVar, that archives reports of genetic variations classified for diseases. The data showed that DYNA correctly paired the genetic variants with the given diseases. "For researchers, DYNA provides a flexible framework to study various genetic diseases," said Jason Moore, PhD, another contributing author of the study and chair of the Department of Computational Biomedicine at Cedars-Sinai. "Future developments could include using DYNA to offer healthcare professionals advanced tools for tailoring diagnoses and treatments to each individual's genetic profile." The DYNA code is available at GitHub. The corresponding author of the study is Zijun Zhang, PhD, formerly of Cedars-Sinai. This work was funded by National Institutes of Health Grants U01 AG066833 (J.H.M.) and R01 LM010098 (J.H.M.) Follow Cedars-Sinai Academic Medicine on LinkedIn for more on the latest basic science and clinical research from Cedars-Sinai