Identification of potential synthetic lethal genes to p53 using a computational biology approach

BMC Medical Genomics

Table 1 Summary of the five gene expression datasets

Dataset	# Genes	Class ^g	# Samples ^h
NCI-60 Dataset 1 ^a	1092 ^f	c1 / c2	60 (41/19)
NCI-60 Dataset 2 ^b	2266 ^f	c1 / c2	60 (41/19)
NCI-60 Dataset 3 ^c	12625	c1 / c2	59 (40/19)
TCGA Dataset ^d	11861	c1 / c2	136 (47/89)
CCLE Dataset ^e	18988	c1 / c2	1036 (541/495)

^a Affymetrix HUM6000 array data from Millenium Pharmaceuticals.
^b cDNA array data from the Weinstein (NCI) and Brown & Botstein (Stanford) groups.
^c Affymetrix U95A data from Novartis.
^d Gene expression data (RNA-Seq) for glioblastoma multiforme (GBM).
^e mRNA expression data for cancer cell lines (Affymetrix U133+2 arrays).
^f Number of genes filtered by excluding the genes with missing expression in at least one sample.
^g c1: functional p53 mutation; c2: non-functional p53 mutation or p53 wild-type.
^h The sample size of each class is given in parenthesis.

ISSN: 1755-8794