癌症痕迹:用于驱动和调节基因识别的网络癌症演变的多阶段单细胞分析
Komlan Atitey1, Caitlin E Hughes2, Joseph C Fusco3
1Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences (NIEHS), 111 T W Alexander Dr Rall Building, Research Triangle Park, NC 27709, United States.
Computational and structural biotechnology journal
|December 1, 2025
概括
癌症跟踪 (CancerTrace) 通过使用时间感知单细胞RNA测序数据,识别患者特定的癌症驱动因素及其调节因素. 这种计算框架揭示了动态的因果关系,推进了精确的瘤学.
科学领域:
- 计算生物学 计算生物学
- 基因组学就是基因组学.
- 癌症研究 癌症研究
背景情况:
- 鉴定患者特异性癌症驱动因素是困难的,因为时间变化和有限的数据.
- 当前的方法经常使用静态相关性或广泛的模块,缺少动态,因果驱动器-调节器链接.
研究的目的:
- 介绍CancerTrace,这是一个新的计算框架,用于发现时间解决的,患者特定的癌症驱动基因及其调节机制.
- 通过动态分析单细胞RNA测序数据来克服现有方法的局限性.
主要方法:
- 癌症跟踪集成转移和稀疏条件结构在一个变化的贝叶斯模型.
- 它分析了纵向单细胞RNA测序 (scRNA-seq) 数据,以重建阶段解析的表达动态.
- 该框架映射了从调节器到驱动器的直接影响,而不需要DNA或扰动测定.
主要成果:
- 在肺腺癌 (LUAD) 患者数据中,CancerTrace确定了一个EpCAM anchored的上皮区.
- 它恢复了已知的和新的驱动器,包括VPS37D和ATP11AUN,并验证了已知的驱动器基因相互作用.
- 该框架证明了表皮驱动因子对NK细胞的可测量影响,反映了随着时间的推移而发生的生物变化.
结论:
- 从scRNA-seq数据中,CancerTrace有效地推断出因果关系,时间导向的驱动器-调制器关系.
- 这种方法克服了静态和队列依赖的局限性,为精密瘤学的机制理解提供了强大的工具.
相关概念视频
Cancers Originate from Somatic Mutations in a Single Cell
14.5K
Cancer arises from mutations in the critical genes that allow healthy cells to escape cell cycle regulation and acquire the ability to proliferate indefinitely. Though originating from a single mutation event in one of the originator cells, cancer progresses when the mutant cell lines continue to gain more and more mutations, and finally, become malignant. For example, chronic myelogenous leukemia (CML) develops initially as a non-lethal increase in white blood cells, which progressively...
14.5K
Cancer-Critical Genes II: Tumor Suppressor Genes
9.3K
Genes usually encode proteins necessary for the proper functioning of a healthy cell. Mutations can often cause changes to the gene expression pattern, thereby altering the phenotype.
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
9.3K


