在癌症中,HYENA检测到被远端增强剂激活的瘤基因
Anqi Yu1, Ali E Yesilkanal1, Ashish Thakur2
1Ben May Department for Cancer Research, University of Chicago, Chicago, IL, USA.
Nucleic acids research
|July 25, 2024
概括
我们开发了HYENA,这是一个计算工具,用于找到在癌症中通过增强器劫持激活的瘤基因. 这种方法确定了108个候选瘤基因,包括像TOB1-AS1这样的非编码基因,它促进胰腺癌转移.
科学领域:
- 基因组学就是基因组学.
- 癌症生物学 癌症生物学
- 生物信息学是一种生物信息学.
背景情况:
- 身体结构变异 (SVs) 可以改变癌症中的基因组组织和基因调节.
- 由SVs驱动的增强器劫持激活原型瘤基因,但研究往往忽略了非编码基因.
- 了解 SV 驱动的瘤基因激活对于癌症研究至关重要.
研究的目的:
- 开发一种计算算法 (HYENA) 来识别通过增强器劫持激活的候选瘤基因 (蛋白质编码和非编码).
- 分析大量的成年瘤队列,以发现涉及增强器劫持的新瘤基因.
- 研究特定非编码基因,如TOB1-AS1在癌症进展中的作用.
主要方法:
- 开发HYENA计算算法,集成全基因组和转录组测序数据.
- 应用基于等级的回归模型,将基因表达与体质SVs联系起来.
- 对25种成人癌症类型中的1146种瘤进行了系统分析.
主要成果:
- 通过增强器劫持激活的108个候选瘤基因的识别,包括许多非编码基因.
- 在10%的胰腺癌中通过3D基因组改变,发现长非编码RNATOB1-AS1被SVs激活.
- 证明高TOB1-AS1表达促进癌细胞入侵和转移.
结论:
- 海纳在识别新型瘤基因,特别是非编码的,通过增强器劫持激活的有效.
- 非编码区域的遗传变化对瘤发生和癌症进展有显著的贡献.
- 由于其在转移中的作用,TOB1-AS1代表了胰腺癌的潜在治疗标.
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