空间条允许在空间转录基因数据中进行克隆追踪
Grant Kinsler1, Caitlin Fagan1, Haiyin Li2
1Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA.
bioRxiv : the preprint server for biology
|February 24, 2025
概括
空间条允许使用合成条形码同时进行克隆跟踪和空间转录学分析. 该方法将复杂组织中的克隆动态与环境信号区分开来.
科学领域:
- 细胞和分子生物学 细胞和分子生物学
- 基因组学和生物信息学
- 癌症研究 癌症研究
背景情况:
- 了解细胞异质性和空间组织在复杂组织中至关重要.
- 同时追踪细胞克隆及其空间基因表达仍然是一个挑战.
- 现有的方法缺乏将内在的克隆行为与外部环境影响区分开来的能力.
研究的目的:
- 介绍SpaceBar,一个新的细胞条码策略,用于同时克隆跟踪和空间转录学.
- 开发一个剖析克隆动态和环境驱动的转录调节的框架.
- 量化复杂组织微环境中基因表达的驱动因素.
主要方法:
- 开发一个96合成条形码库用于蜂标签.
- 将SpaceBar与基于图像的空间转录组学 (seqFISH) 的集成.
- 在黑色素瘤瘤异种移植模型中的应用,以描述克隆身份和空间基因表达.
- 创建一个基因评分指标来评估基因表达的内在和外在调节.
主要成果:
- 通过结合条形码成功同时标记黑色素瘤细胞.
- 在瘤异种移植中对克隆身份和空间基因表达的现场分析.
- 基因表达驱动者的量化,区分细胞线索和环境信号.
- 证明框架能够将克隆动态与环境转录调节分开.
结论:
- SpaceBar提供了一个强大的工具,用于对克隆进化和空间基因表达的高分辨率分析.
- 开发的基因评分指标有效地区分了影响细胞表型的内在和外在因素.
- 这种方法为疾病模型中的复杂组织背景和细胞行为提供了新的见解.
相关概念视频
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