vandesompele {SLqPCR}R Documentation

Data set of Vandesompele et al (2002)

Description

This data set was used in Vandesompele et al (2002) to demonstrate normalization of real-time quantitative RT-PCR data by geometric averaging of housekeeping genes.

Usage

data(vandesompele)

Format

A data frame with 85 observations on the following 10 variables which stand for expression data of ten commonly used housekeeping genes

ACTB
actin, beta
B2M
beta-2-microglobulin
GAPD
glyceraldehyde-3-phosphate dehydrogenase
HMBS
hydroxymethylbilane synthase
HPRT1
hypoxanthine phosphoribosyltransferase 1
RPL13A
ribosomal protein L13a
SDHA
succinate dehydrogenase complex subunit A
TBP
TATA box binding protein
UBC
ubiquitin C
YWHAZ
tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide

Details

The row names of this data set indicate the various human tissues which were investigated.

BM
9 normal bone-marrow samples
POOL
9 normal human tissues from pooled organs (heart, brain, fetal brain, lung, trachea, kidney, mammary gland, small intestine and uterus)
FIB
20 short-term cultured normal fibroblast samples from different individuals
LEU
13 normal leukocyte samples
NB
34 neuroblastoma cell lines (independently prepared in different labs from different patients)

Source

The data set was obtained from http://genomebiology.com/content/supplementary/gb-2002-3-7-research0034-s1.txt

References

Jo Vandesompele, Katleen De Preter, Filip Pattyn et al. (2002). Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology 2002. 3(7):research0034.1-0034.11. http://genomebiology.com/2002/3/7/research/0034/

Examples

data(vandesompele)
str(vandesompele)
rownames(vandesompele)

[Package SLqPCR version 1.2.0 Index]