2020-08-03单基因与免疫细胞，TMB，肿瘤组织和正常组织

TCGA和GTEX中基因的表达差异

library(UCSCXenaShiny)

vis_toil_TvsN_cancer(

  Gene = "FERMT3",

  Mode = "Violinplot",

  Show.P.value = TRUE,

  Show.P.label = TRUE,

  Method = "wilcox.test",

  values = c("#DF2020", "#DDDF21"),

  TCGA.only = FALSE,

  Cancer = "BRCA")

vis_toil_TvsN_cancer(

  Gene = "RAC2",

  Mode = "Violinplot",

  Show.P.value = TRUE,

  Show.P.label = TRUE,

  Method = "wilcox.test",

  values = c("#DF2020", "#DDDF21"),

  TCGA.only = FALSE,

  Cancer = "BRCA")

vis_toil_TvsN_cancer(

  Gene = "PSTPIP1",

  Mode = "Violinplot",

  Show.P.value = TRUE,

  Show.P.label = TRUE,

  Method = "wilcox.test",

  values = c("#DF2020", "#DDDF21"),

  TCGA.only = FALSE,

  Cancer = "BRCA")

data("immune_sig")##提取免疫相关的细胞对应的基因以及在TCGA中的表达

test<-immune_sig[1:100,1:10]

immunename<-immune_sig$SetName

intersect("APM1",immunename)

data("tmb_data")###肿瘤突变负荷数据

test<-tmb_data

#查看基因和免疫特征的热图

vis_gene_immune_cor(

  Gene = "RAC2",

  Cor_method = "spearman",

  Immune_sig_type = "Cibersort"

)

##查看肿瘤突变负荷和基因的关系

vis_gene_tmb_cor(Gene = "RAC2", Cor_method = "spearman")