笑对人生 (2022-03-21 23:28):
#paper Transcriptional census of epithelial-mesenchymal plasticity in cancer. Sci Adv. 2022 Jan 7;8(1):eabi7640. doi: 10.1126/sciadv.abi7640 细胞的上皮间充质可塑性是指细胞具有在上皮细胞和间充质细胞两种细胞形态相互转化的能力,它描述的是细胞对周围复杂微环境做出响应后的一种动态混合形态。EMP包含两种重要的进程,分别为EMT和MET,其中EMT与原发灶肿瘤细胞远端转移和肿瘤细胞干性等相关,而MET与肿瘤细胞在转移病灶定植有关。该篇文章首先对17项已发表研究的单细胞转录组测序数据进行收集,涉及8种类型的癌种,总共266份肿瘤组织样本,223,501个细胞。接着利用这些数据对已报道的328个与EMP相关的基因进行重新定义,最终筛选到含有128个基因的基因集,并以此构建一个肿瘤细胞特异的EMP signature。同时也发现EMP是瘤内异质性发生的来源之一,并有高度的环境依赖性。利用TCGA的泛癌RNAseq数据发现EMP sigature的激活与更短EPI(无进展时间)相关,以及更强免疫抑制微环境相关。最后,作者还探究这个EMP的互作转录因子、MEK抑制剂和TGF-βR1抑制剂的关系。整篇文章属于纯数据挖掘,但没有高深的公式和构建机器学习模型,纯粹是基于生物学原理的逻辑进行推导和探究,具有一定的借鉴意义。
IF:11.700Q1 Science advances, 2022-Jan-07. DOI: 10.1126/sciadv.abi7640 PMID: 34985957
Transcriptional census of epithelial-mesenchymal plasticity in cancer
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Abstract:
Epithelial-mesenchymal plasticity (EMP) contributes to tumor progression, promoting therapy resistance and immune cell evasion. Definitive molecular features of this plasticity have largely remained elusive due to the limited scale of most studies. Leveraging single-cell RNA sequencing data from 266 tumors spanning eight different cancer types, we identify expression patterns associated with intratumoral EMP. Integrative analysis of these programs confirmed a high degree of diversity among tumors. These diverse programs are associated with combinations of various common regulatory mechanisms initiated from cues within the tumor microenvironment. We show that inferring regulatory features can inform effective therapeutics to restrict EMP.
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