TCGA.GBM.EXPR: Glioblastoma Multiforme (GBM) microarray expression data from...

In MD-Anderson-Bioinformatics/NGCHMDemoData: Demo Data for the NGCHM R Package

Glioblastoma Multiforme (GBM) microarray expression data from TCGA

Description

Load using data('TCGA.GBM.EXPR').

Format

A numeric data matrix with 2000 rows and 547 columns.

• The data was generated using microarray platforms.

• Row labels are gene symbols (e.g. KRT19). The NG-CHM label type is bio.gene.hugo.

• Column labels are TCGA barcodes up to the center field (28 characters total, e.g. TCGA-02-0001-01C-01R-0177-01). The NG-CHM label type is
  bio.tcga.barcode.sample.vial.portion.analyte.aliquot.

• Data has been log-transformed (min 2.196606, max 14.41321).

• The data has no column labels in common with the data in TCGA.GBM.ExpressionData (as expected), but at the participant level (first 12 characters) there are 158 columns in common and at the vial level (first 16 characters) there are 152 in common. There are 1098 genes in common. This permits several types of NG-CHMs integrating the two data sets.

MD-Anderson-Bioinformatics/NGCHMDemoData documentation built on June 28, 2024, 11:37 p.m.