主题：【原创】削减英语课时 -- 宝特勤

哪里还会为这个 特意挑拣论文。

一致共表达基因模块(CCGM)的逐步识别-为了识别与生存相关的一致共表达基因模块，我们首先在IMVigor 210数据集中识别了名义上与更好的总体生存结果相关的基因。<br>用双变量Cox回归模型估计基因Genei的表达与TMB的总体生存条件之间的关系：Surv(事件，时间)~Genei+log(TMB)。<br>我们确定了1193个基因，这些基因的高表达与更好的生存结果相关(双侧Wald‘s检验的名义P值&lt;0.05)。<br>在最初的基因选择步骤中，我们采用了一个宽松的P值截止值，以尽可能地包容所有基因，然后确定一致的共表达基因模块(CCGM)，以丰富真实信号并过滤掉可能的噪音。<br>CCGM被定义为在多个数据集中共同调节的基因列表。<br>使用加权相关网络分析49在这1193个基因中，我们在IMVigor 210数据集中识别出一个共表达模块(735个基因)，在TCGA数据集中识别出一个共表达模块(600个基因)。<br>IMVigor 210和TCGA数据集中识别的模块之间存在显著重叠(575个基因)(经双边Fisher‘s精确检验p&lt;1e-16)，这575个重叠基因被认为是CCGM，被称为“适应性免疫反应”特征。

Step-wise identification of consistently co-expressed gene modules (CCGMs)—With the goal of identifying consistently coexpressed gene modules associated with survival, we first identified genes nominally associated with better overall survival outcomes in the IMvigor 210 dataset. A bivariable Cox regression model was used to estimate the association between the expression of each gene, Genei, with the overall survival conditional on TMB: Surv(Event, Time) ~ Genei + log(TMB). We identified 1193 genes for which higher expression was associated with better survival outcomes (nominal P-value of two-sided Wald’s test <0.05). We employed a lenient P-value cutoff to be as inclusive as possible at this initial gene selection step, and then identified consistently co-expressed gene modules (CCGMs) to enrich for true signals and filter out possible noise. A CCGM is defined as a list of genes that are co-regulated in multiple datasets. Using weighted correlation network analysis49 among these 1193 genes, we identified one co-expression module in the IMvigor 210 dataset (735 genes) and one co-expression module in the TCGA dataset (600 genes). Significant overlap (575 genes) existed between the modules identified in the IMvigor 210 and TCGA datasets ( p<1e-16 by two-sided Fisher’s exact test) and these 575 overlapping genes were considered a CCGM, referred to as the “adaptive immune response” signature.