生成蛋白质谱和基于距离的小鼠组织切片网络分析协议。

IF 1.3 Q4 BIOCHEMICAL RESEARCH METHODS

STAR Protocols Pub Date : 2025-01-17 DOI:10.1016/j.xpro.2024.103578

Luisa Schmidt, Philipp Antczak, Marcus Krüger

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引用次数: 0

摘要

我们介绍了一种使用小鼠骨骼肌组织薄冷冻切片的空间蛋白质组学方案。我们描述了准备肌肉切片和液相色谱-串联质谱（LC-MS/MS）分析的步骤，以沿纵向骨骼肌轴生成空间蛋白质谱。我们详细介绍了扫描纵向蛋白质谱和使用滑动窗口方法替换缺失数据的程序。该方案在空间蛋白质组学中具有应用于其他具有不对称模式的组织，如大脑和心脏组织的潜力。有关该协议的使用和执行的完整细节，请参见Schmidt等人1。

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Protocol for generating protein profiles and distance-based network analysis of murine tissue slices.

We introduce a protocol for spatial proteomics using thin cryotome sections of mouse skeletal muscle tissue. We describe steps for preparing muscle sections and liquid chromatography-tandem mass spectrometry (LC-MS/MS) analyses to generate spatial protein profiles along the longitudinal skeletal muscle axis. We detail procedures for scanning longitudinal protein profiles and replacing missing data using a sliding window approach. This protocol has potential for applications in spatial proteomics to other tissues with asymmetric patterns such as the brain and heart tissue. For complete details on the use and execution of this protocol, please refer to Schmidt et al.¹.

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