AI系统实现高精度组织学分析,媲美专家病理水平。
Atlas H&E-TME: Scalable AI-Based Tissue Profiling at Expert Pathologist-Level Accuracy

- 基于大模型的AI系统,从H&E染色切片中提取细胞级定量特征。
- 在超20万张切片上验证,对8种癌症及转移灶表现稳定可靠。
- 结合IHC共识标注,突破纯H&E图像标注模糊的局限,适合临床研究使用。
苏木精-伊红(H&E)染色是组织病理学的基础,但对全切片图像(WSIs)进行可扩展的定量分析仍是计算病理学的核心挑战。本文提出Atlas H&E-TME,一个基于Atlas病理基础模型的AI系统,可预测多种癌症类型中的组织质量、组织区域与细胞类型标签,每张切片生成超过4,500个细胞级定量读数。为克服仅依赖H&E图像的形态模糊性,我们设计双重验证框架:深度方面,采用基于IHC的多病理医生共识协议,显著提升一致性;广度方面,在1,500+病例、8种癌症及其常见转移部位、覆盖>90%临床亚型的数据集上,涵盖25+来源与8+扫描仪型号,超过20万张高置信度的仅基于H&E的病理医生标注。结果显示,Atlas H&E-TME在分子基准下达到或超越病理医生仅用H&E的性能,且在广泛形态与技术条件下保持一致稳健表现。该系统将最普遍的病理数据——H&E切片——转化为可扩展的定量工具,为转化与临床研究中的组织生物标志物奠定基础。
原文摘要 · Abstract (English)
Hematoxylin and eosin (H&E) staining is the cornerstone of histopathology, yet scalable, quantitative analysis of H&E whole-slide images (WSIs) remains a central challenge in computational pathology. We present Atlas H&E-TME, an AI-based system built on the Atlas family of pathology foundation models that predicts tissue quality, tissue region, and cell type labels across multiple cancer types, yielding over 4,500 quantitative readouts per slide at cell-level resolution. A key challenge to validating such systems is overcoming morphological ambiguity inherent to H&E-only ground truth and the limited scalability of more informed references drawing on modalities such as immunohistochemistry (IHC). We address this with a dual validation framework combining biologically grounded depth with technical and morphological breadth. For depth, we propose an IHC-informed multi-pathologist consensus protocol that substantially improves inter-rater agreement over conventional H&E-only annotation. This yields a molecularly grounded reference against which we compare Atlas H&E-TME and pathologists working from H&E alone. For breadth, we benchmark Atlas H&E-TME on over 200,000 high-confidence H&E-only pathologist annotations across 1,500+ cases spanning eight cancer types and their most common metastatic sites, with subtypes covering >90% of clinical cases per cancer type, drawn from 25+ sources and 8+ scanner models. Benchmarked against the IHC-informed consensus, Atlas H&E-TME matches or exceeds pathologist H&E-only performance and generalizes consistently and robustly across this broad morphological and technical scope. In doing so, Atlas H&E-TME turns the H&E slide -- the most ubiquitous data in pathology -- into a scalable, quantitative window into the tumor and its microenvironment, laying a foundation for the next generation of tissue-based biomarkers in translational and clinical research.
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