low / high grade ovarian cancer

TCGA data: low / high grade ovarian cancer

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Dear All,

I have downloaded ovarian cancer annotation data from the TCGA using the TCGAbiolinks package (recount2 data) as follows:

ovary_rec2_gtex <- TCGAquery_recount2(project="gtex", tissue = "ovary")
tcga_sampleAnnot <- data.frame(ovary_rec2_tcga_scaled@colData)

I can check the cancer type with command like this one

unique(tcga_sampleAnnotgdc_cases.project.name)
# [1] "Ovarian Serous Cystadenocarcinoma" 

as I am only interested in the low-grade tumors, how can I know if it is a high-grade or low-grade “Ovarian Serous Cystadenocarcinoma” ?

are there only high-grade ones in TCGA data ?

(I was not able to find this information in the recount2 annotation table…)

thanks in advance !

erica


TCGAbiolinks


TCGA


recout2


R

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