Tcells <- CellCycleScoring(Tcells, s.features = s.genes, g2m.features = g2m.genes, set.ident = TRUE) #细胞周期信息储存在CellCycle Tcells@meta.data$CellCycle <- Idents(Tcells) Idents(Tcells) <- "Lane" #idents函数可以直接支持赋值metadata内的变量信息,然后就可以调用该变量内的信息内容 ...
最常用的生物学数据校正是移除转录组中细胞周期效应,可以直接在Scanpy或者seurat平台中进行一个简单线性回归计算细胞周期分数(cell cycle score)。这些方法也可以用于消退其他已知的生物学效应,例如线粒体基因表达,这可以解释为细胞应激的指标。 2.3.2 降低技术效应影响 - Regressing out technical effects 用于移除不相干...
《细胞生物学》英文版cell cycle.pdf,The Eukaryotic Cell Cycle 19.1 Overview of the Cell Cycle and its Control 4 major phases: Human cells: G1 (1st Gap) 9 hr S (Synthesis) 10 hr G2 (2nd Gap) 4.5 hr M (Mitotic) 0.5 hr Total: ~24 hr Yeast: ~90 min Fly early
As cell cycle abnormalities have been observed in ovarian cancer (Milde-Langosch and Riethdorf, 2003;De Meyer et al, 2009), we hypothesized that common genetic variation in genes altering the functionality of the molecules may influence the ovarian carcinogenic process. An earlier study of 13 gene...
#细胞周期s.genes <- cc.genes$s.genesg2m.genes <- cc.genes$g2m.genesTcells <- CellCycleScoring(Tcells, s.features = s.genes, g2m.features = g2m.genes,set.ident =TRUE)#细胞周期信息储存在CellCycleTcells@meta.data$CellCycle <- Idents(Tcells)...
sc.tl.score_genes_cell_cycle函数实际上是包装了sc.tl.score_gene_list函数,执行两次操作,分别对S阶段和G2M阶段进行评分。sc.tl.score_gene_lis和 sc.tl.score_cell_cycle_genes函数是Seurat的一个端口,执行相似的操作。该算法计算...
我们使用CellCycleScoring函数计算每个细胞的细胞周期得分,并将计算出的S期和G2/M期的评分保存在metadata中,以及细胞处于G2M,S或G1期的预测分类。通过设置set.ident = TRUE,则CellCycleScoring将Seurat对象中每个细胞的分组信息设置为其所处的细胞周期阶段。
The cellular life cycle, also called the cell cycle, includes many processes necessary for successful self-replication. Beyond carrying out the tasks of routine metabolism, the cell must duplicate its components — most importantly, its genome — so that it can physically split into two complete ...
"GOBP_PRE_REPLICATIVE_COMPLEX_ASSEMBLY_INVOLVED_IN_CELL_CYCLE_DNA_REPLICATION","GOBP_ESTABLISHMENT_OF_PLANAR_POLARITY_OF_EMBRYONIC_EPITHELIUM")TEST <- c(up,down)diff$ID<- rownames(diff)Q <- diff[TEST,]group1 <- c(rep("treat",9), rep("control",10))df <- data.frame(ID = Q$ID,...
cell death). By causing the arrest of the cell cycle, p53 allows time for DNA repair and reduces the chances for damaging mutations. Because it has this antimutagenic activity, p53 is known as atumor suppressor gene. Thus, many human cancers are associated with mutations in the p53 gene. ...