A Method for Detection of Markers for Epithelial-Mesenchymal Transition based on Single Cell Transcriptomic Data
A Method for Detection of Markers for Epithelial-Mesenchymal Transition based on Single Cell Transcriptomic Data
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DOI：
10.1145/3510427.3510436
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发表时间：
2022-01
期刊：
影响因子：
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通讯作者：
Kosho Murayama;H. Matsuda
中科院分区：
文献类型：
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作者：
Kosho Murayama;H. Matsuda
生物标志物检测对于了解与肿瘤进展和治疗耐药相关的上皮-间质转化（EMT）的生物学和机制至关重要。先前研究中的现有方法只是通过对所有基因的方差进行排序来检测差异表达基因。本文提出了一种在EMT过程中检测各自谱系标记的新方法。我们的方法包括两个步骤：首先，推断轨迹，以确定过渡过程的谱系，以及上皮-间质转变；其次，通过差异表达分析，确定EMT进展和逆转谱系的标记。利用该方法，我们成功检测到现有方法未检测到的与EMT相关的潜在标记，磷脂磷酸酶4 （PLPP4）。
Biomarker detection has been crucially important to understand the biology and mechanism of epithelial-mesenchymal transition (EMT) related to tumor progression and treatment resistance. The existing method in a previous study simply detected differentially-expressed genes by ranking all genes by their variances. This paper proposes a novel method to detect markers for respective lineages in the EMT process. Our method consists of two steps: first, inference trajectories to identify the lineages of transitional processes along with the epithelial-mesenchymal transition, and secondly, identify markers of both EMT progression and reversion lineages with differential expression analysis. Using this method, we successfully detected potential markers related to EMT, Phospholipid phosphatase 4 (PLPP4), which have not been detected by the existing method.