arXiv:2503.09496cs.CV2025-03CVPR被引 23

用图像预测缺失的基因数据,提升癌症生存率预测准确性

Robust Multimodal Survival Prediction with the Latent Differentiation Conditional Variational AutoEncoder

  • 通过潜变量分解框架,从病理图像生成多种功能基因特征
  • 在5个癌症数据集上,完整与缺失基因数据场景均表现更优
  • 适合医学图像与基因组数据融合分析的研究者使用

组织病理图像与基因组数据的整合分析在人类癌症生存预测中日益受到关注。然而,现有研究通常假设所有模态数据均可用,而实际上基因组数据采集成本高,测试样本中常缺失。一种常见方法是通过病理图像生成基因表示,但仍面临两大挑战:(1) 吉字节级全切片图像(WSIs)规模庞大,难以有效表征;(2) 难以在统一生成框架下生成具有多样化功能类别的基因嵌入。为此,我们提出条件潜变量差异化变分自编码器(LD-CVAE),实现即使在基因数据缺失时仍具鲁棒性的多模态生存预测。具体地,提出变分信息瓶颈变换器(VIB-Trans)模块,从吉字节级WSIs中学习压缩后的病理表示;为生成不同功能的基因特征,设计新型潜变量差异化变分自编码器(LD-VAE),学习基因嵌入的共性与特异性后验分布;最后采用专家乘积技术融合基因共性后验与图像后验,实现联合潜在分布估计。我们在五个不同癌症数据集上验证了该方法的有效性,实验结果表明其在完整与缺失模态场景下均具优越性能。

原文摘要 · Abstract (English)

The integrative analysis of histopathological images and genomic data has received increasing attention for survival prediction of human cancers. However, the existing studies always hold the assumption that full modalities are available. As a matter of fact, the cost for collecting genomic data is high, which sometimes makes genomic data unavailable in testing samples. A common way of tackling such incompleteness is to generate the genomic representations from the pathology images. Nevertheless, such strategy still faces the following two challenges: (1) The gigapixel whole slide images (WSIs) are huge and thus hard for representation. (2) It is difficult to generate the genomic embeddings with diverse function categories in a unified generative framework. To address the above challenges, we propose a Conditional Latent Differentiation Variational AutoEncoder (LD-CVAE) for robust multimodal survival prediction, even with missing genomic data. Specifically, a Variational Information Bottleneck Transformer (VIB-Trans) module is proposed to learn compressed pathological representations from the gigapixel WSIs. To generate different functional genomic features, we develop a novel Latent Differentiation Variational AutoEncoder (LD-VAE) to learn the common and specific posteriors for the genomic embeddings with diverse functions. Finally, we use the product-of-experts technique to integrate the genomic common posterior and image posterior for the joint latent distribution estimation in LD-CVAE. We test the effectiveness of our method on five different cancer datasets, and the experimental results demonstrate its superiority in both complete and missing modality scenarios.

生存预测多模态融合病理图像基因组生成

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