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Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

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基于成像的单细胞分辨率空间转录组学分析平台的比较,使用甲固定氨酸嵌入的瘤样本.

Nejla Ozirmak Lermi¹, Max Molina Ayala², Sharia Hernandez²

¹Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA.

Nature communications

|September 26, 2025

概括

此摘要是机器生成的。

这项研究系统地评估了基于成像的空间转录学 (ST) 平台用于瘤微环境研究. 结果揭示了平台特定的差异,并突出了探测器设计.

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科学领域:

在瘤学瘤学.
分子生物学分子生物学
生物信息学是一种生物信息学.

背景情况:

基于成像的空间转录学 (ST) 对于理解瘤生物学和微环境至关重要.
缺乏对商业上可用的ST平台进行系统评估.
需要进行受控实验来比较ST平台的性能.

研究的目的:

系统地比较领先的空间转录组学平台 (CosMx,MERFISH,Xenium) 的性能.
为了评估ST平台使用肺腺癌和多间皮质瘤样本.
为空间分析和分子发现提供对可靠工作流程的见解.

主要方法:

在组织微阵列中利用了胺固定,胺嵌入的瘤样本的5μm连续切片.
与CosMx,MERFISH和Xenium (单模/多模) ST平台进行比较.
与大量RNA测序,多重免疫光学,GeoMx和H&E染色相对应的验证ST数据.

主要成果:

识别了ST平台之间的复杂性能差异.
证明了像探头设计这样的参数对数据质量的关键影响.
展示了自动细胞细分和表型的客观评估,以及手动评估.

结论:

空间转录组学平台表现出不同的特征,影响数据质量和生物见解.
优化参数,特别是探头设计,对于准确的空间造型至关重要.
这项研究提出了可靠的工作流程,以推进瘤学领域的空间生物学研究.