arXiv:2409.01154cs.LGq-bio.PE2024-09被引 1

用神经网络预测流感发病率,同时给出可信度区间,提升公共卫生应对能力。

Forecasting infectious disease prevalence with associated uncertainty using neural networks

  • 结合网络搜索数据与历史流感数据,用贝叶斯神经网络建模并输出不确定性
  • 最佳模型比当前最优方法平均降低10.3%误差,技能得分提升17.1%
  • 引入神经微分方程融合流行病学机理,提升模型可解释性与泛化能力

传染病带来重大人力与经济负担。准确预测疾病发病率有助于公共卫生机构有效应对现有或新发疫情。尽管已有进展,构建高精度预测模型仍是挑战。本文提出两种基于神经网络(NNs)并包含不确定性估计的方法框架——这是此前限制神经网络在疫情预测中应用的关键因素。以美国流感样病例(ILI)预测为例,第一种方法利用网络搜索活动数据与历史ILI率作为训练输入,采用贝叶斯层生成置信区间,使模型成为传统方法的可靠替代。最优架构为迭代循环神经网络(IRNN),在四个流感季的预测任务中,平均降低10.3%的均方绝对误差,并提升17.1%的技能得分(Skill)。在此基础上,改进采样流程以优化不确定性估计,提出IRNNs。第二种框架采用神经微分方程(Neural ODEs),弥合机理型分室模型与神经网络之间的差距,借助分室模型的物理约束优势。评估了八种融合ILI率与网络搜索数据的神经ODE模型,其性能优于仅使用ILI数据的IRNN0,技能得分高出16%。未来工作应更有效地结合神经ODE与网络搜索数据,以超越最优的IRNN表现。

原文摘要 · Abstract (English)

Infectious diseases pose significant human and economic burdens. Accurately forecasting disease incidence can enable public health agencies to respond effectively to existing or emerging diseases. Despite progress in the field, developing accurate forecasting models remains a significant challenge. This thesis proposes two methodological frameworks using neural networks (NNs) with associated uncertainty estimates - a critical component limiting the application of NNs to epidemic forecasting thus far. We develop our frameworks by forecasting influenza-like illness (ILI) in the United States. Our first proposed method uses Web search activity data in conjunction with historical ILI rates as observations for training NN architectures. Our models incorporate Bayesian layers to produce uncertainty intervals, positioning themselves as legitimate alternatives to more conventional approaches. The best performing architecture: iterative recurrent neural network (IRNN), reduces mean absolute error by 10.3% and improves Skill by 17.1% on average in forecasting tasks across four flu seasons compared to the state-of-the-art. We build on this method by introducing IRNNs, an architecture which changes the sampling procedure in the IRNN to improve the uncertainty estimation. Our second framework uses neural ordinary differential equations to bridge the gap between mechanistic compartmental models and NNs; benefiting from the physical constraints that compartmental models provide. We evaluate eight neural ODE models utilising a mixture of ILI rates and Web search activity data to provide forecasts. These are compared with the IRNN and IRNN0 - the IRNN using only ILI rates. Models trained without Web search activity data outperform the IRNN0 by 16% in terms of Skill. Future work should focus on more effectively using neural ODEs with Web search data to compete with the best performing IRNN.

流感预测神经网络不确定性估计神经微分方程

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