tcga_stad_pdata: TCGA-STAD Clinical and Molecular Annotation Data

In IOBR: Immune Oncology Biological Research

TCGA-STAD Clinical and Molecular Annotation Data

Description

Clinical, molecular, and signature score data for TCGA stomach adenocarcinoma (STAD) samples. Includes patient demographics, tumor characteristics, molecular subtypes, and pre-computed signature scores.

Usage

data(tcga_stad_pdata)

Format

A data frame with samples as rows and variables as columns:

• ID – TCGA sample barcode

• stage – tumor stage (Stage_I, Stage_II, etc.)

• status – vital status (Alive/Dead)

• Lauren – histological classification

• subtype – molecular subtype (EBV, MSI, GS, CN, ...)

• EBV – EBV infection status

• TMEscore_plus – continuous tumor-micro-environment score

• TMEscore_plus_binary – High/Low TME classification

• time – follow-up time (months)

• OS_status – 0 = alive, 1 = dead

• ARID1A, PIK3CA – driver-gene mutation status

• MALAT1 – lncRNA expression

• remaining columns – gene-expression values and additional clinical/molecular annotations

Source

The Cancer Genome Atlas Stomach Adenocarcinoma (TCGA-STAD)

References

Cancer Genome Atlas Research Network. Comprehensive molecular characterization of gastric adenocarcinoma. Nature 513, 202-209 (2014). doi:10.1038/nature13480

Examples

data(tcga_stad_pdata)
head(tcga_stad_pdata)

IOBR documentation built on May 30, 2026, 5:07 p.m.