arXiv:2409.08338eess.IVq-bio.QM2024-09被引 20

染色差异导致病理模型无法跨批次泛化,即使使用颜色归一化也无效。

Impact of Stain Variation and Color Normalization for Prognostic Predictions in Pathology

  • 用同一组织块不同时间切片测试模型泛化能力
  • 跨批次预测准确率仅0.52-0.53(原批次0.74-0.81)
  • 传统颜色校正和CycleGAN均无法解决泛化问题

近年来,深度神经网络(DNN)在病理学应用中表现出色,甚至可能超越专家病理医生。但数字病理数据集准备的一个关键挑战是染色质量的差异。通常通过染色归一化来缓解此问题。本研究发现,即使使用染色归一化方法,一个在某一批次组织切片上训练的优秀DNN模型,也无法泛化到同一组织块、同实验室但不同时间制备的另一批次切片。研究基于此前报道的DNN模型,该模型能以高准确率区分早期非小细胞肺癌(NSCLC)患者肿瘤是否转移。新获得的相邻切片来自相同组织块,但制备时间不同。结果显示,任一批次训练的模型在另一批次上预测失败(跨批次AUC=0.52-0.53),远低于同批次表现(AUC=0.74-0.81)。即便采用传统颜色调优或借助循环生成对抗网络(CycleGAN)进行染色归一化,泛化失败仍持续存在。这表明必须建立全新的、一致的显微图像采集与处理流程,以支持DNN模型的可靠训练与通用部署。

原文摘要 · Abstract (English)

In recent years, deep neural networks (DNNs) have demonstrated remarkable performance in pathology applications, potentially even outperforming expert pathologists due to their ability to learn subtle features from large datasets. One complication in preparing digital pathology datasets for DNN tasks is variation in tinctorial qualities. A common way to address this is to perform stain normalization on the images. In this study, we show that a well-trained DNN model trained on one batch of histological slides failed to generalize to another batch prepared at a different time from the same tissue blocks, even when stain normalization methods were applied. This study used sample data from a previously reported DNN that was able to identify patients with early stage non-small cell lung cancer (NSCLC) whose tumors did and did not metastasize, with high accuracy, based on training and then testing of digital images from H&E stained primary tumor tissue sections processed at the same time. In this study we obtained a new series of histologic slides from the adjacent recuts of same tissue blocks processed in the same lab but at a different time. We found that the DNN trained on the either batch of slides/images was unable to generalize and failed to predict progression in the other batch of slides/images (AUC_cross-batch = 0.52 - 0.53 compared to AUC_same-batch = 0.74 - 0.81). The failure to generalize did not improve even when the tinctorial difference correction were made through either traditional color-tuning or stain normalization with the help of a Cycle Generative Adversarial Network (CycleGAN) process. This highlights the need to develop an entirely new way to process and collect consistent microscopy images from histologic slides that can be used to both train and allow for the general application of predictive DNN algorithms.

病理图像染色差异模型泛化DNN

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