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用于组织结构和组织微环境定量映射的多模态全切片图像处理管道。

Multimodal whole slide image processing pipeline for quantitative mapping of tissue architecture and tissue microenvironment.

作者信息

Chen Maomao, Ma Hongqiang, Sun Xuejiao, Schwartz Marc, Brand Randall E, Xu Jianquan, Gotsis Dimitrios S, Nguyen Phuong, Moore Beverley A, Snyder Lori, Brand Rhonda M, Liu Yang

机构信息

Departments of Medicine and Bioengineering, University of Pittsburgh, Pittsburgh, PA 15213 USA.

Grainger College of Engineering, Department of Bioengineering, University of Illinois Urbana-Champaign, Urbana, IL USA.

出版信息

Npj Imaging. 2025 Jun 10;3:26. doi: 10.1038/s44303-025-00088-w. eCollection 2025.

DOI:10.1038/s44303-025-00088-w
PMID:40510252
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12151862/
Abstract

Multi-modal, multiscale imaging is crucial for quantitative high-content spatial profiling. We present an integrated image processing pipeline for comprehensive tissue analysis that combines quantitative phase microscopy for tissue architecture mapping, hyper-plex fluorescence imaging for immune microenvironment profiling, and whole-slide histopathology. This approach enables detailed morphological mapping of tissue architecture and cell morphology, while simultaneously linking them to the functional states of individual cells across the entire slide. By analyzing tissue biopsies from patients with ulcerative colitis, we demonstrate the potential of this pipeline for quantitative spatial analysis of molecular markers related to mucosal healing. Open-source and compatible with conventional microscopy systems, this pipeline provides a powerful tool for research and clinical applications through its comprehensive integration of quantitative, high-content, and histological imaging modalities.

摘要

多模态、多尺度成像对于定量高内涵空间分析至关重要。我们提出了一种用于全面组织分析的集成图像处理流程，该流程结合了用于组织结构映射的定量相显微镜、用于免疫微环境分析的超多重荧光成像和全切片组织病理学。这种方法能够对组织结构和细胞形态进行详细的形态学映射，同时将它们与整个切片中单个细胞的功能状态联系起来。通过分析溃疡性结肠炎患者的组织活检样本，我们证明了该流程在与黏膜愈合相关的分子标志物定量空间分析方面的潜力。该流程开源且与传统显微镜系统兼容，通过全面整合定量、高内涵和组织学成像模式，为研究和临床应用提供了一个强大的工具。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/36ca67c62dbb/44303_2025_88_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/23881d6a7bef/44303_2025_88_Fig1_HTML.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/89d8c2becad1/44303_2025_88_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/36ca67c62dbb/44303_2025_88_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/23881d6a7bef/44303_2025_88_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/24987bea6d19/44303_2025_88_Fig2_HTML.jpg
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https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/4f1cf21d4b9e/44303_2025_88_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/58cd2b1f6527/44303_2025_88_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/cfdf8bf52370/44303_2025_88_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/5835c8e50e7e/44303_2025_88_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/89d8c2becad1/44303_2025_88_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0025/12151862/36ca67c62dbb/44303_2025_88_Fig9_HTML.jpg

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