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arXiv 2404.04074stat.ME
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DGP-LVM:导数高斯过程潜变量模型

DGP-LVM: Derivative Gaussian process latent variable models

Soham Mukherjee, Manfred Claassen, Paul-Christian Bürkner

AI总结:

本文提出DGP-LVM框架,通过改进的导数协方差函数和贝叶斯推断处理多维输出并估计潜变量不确定性,显著提升含导数信息的潜变量估计性能。

摘要:

我们开发了一个用于导数高斯过程潜变量模型(DGP-LVM)的框架,该框架能够使用改进的导数协方差函数处理多维输出数据。这些改进考虑了底层数据生成过程中的复杂性,例如缩放的导数、跨多个输出维度变化的信息以及输出之间的相互作用。此外,我们的框架使用贝叶斯推断为每个潜变量样本提供不确定性估计。通过大量模拟,我们证明由于我们提出的协方差函数改进,纳入导数信息可以显著提高潜变量估计的准确性。这些开发的动机来自一个具体的生物学研究问题,涉及从单细胞RNA(scRNA)测序数据中估计未观测到的细胞排序,用于基因表达及其对应的被称为RNA velocity的导数信息。由于RNA velocity只是精确导数信息的一个估计,导数协方差函数需要考虑潜在的尺度差异。在一个真实案例研究中,我们说明了DGP-LVM在此类scRNA测序数据中的应用。虽然受此生物学问题启发,但我们的框架通常适用于涉及导数信息的各种潜变量估计问题,而不受研究领域限制。

英文摘要:

We develop a framework for derivative Gaussian process latent variable models (DGP-LVMs) that can handle multi-dimensional output data using modified derivative covariance functions. The modifications account for complexities in the underlying data generating process such as scaled derivatives, varying information across multiple output dimensions as well as interactions between outputs. Further, our framework provides uncertainty estimates for each latent variable samples using Bayesian inference. Through extensive simulations, we demonstrate that latent variable estimation accuracy can be drastically increased by including derivative information due to our proposed covariance function modifications. The developments are motivated by a concrete biological research problem involving the estimation of the unobserved cellular ordering from single-cell RNA (scRNA) sequencing data for gene expression and its corresponding derivative information known as RNA velocity. Since the RNA velocity is only an estimate of the exact derivative information, the derivative covariance functions need to account for potential scale differences. In a real-world case study, we illustrate the application of DGP-LVMs to such scRNA sequencing data. While motivated by this biological problem, our framework is generally applicable to all kinds of latent variable estimation problems involving derivative information irrespective of the field of study.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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