esGolub {NMF} | R Documentation |
The original data is related to Golub et al., and this version is the one used and referenced in Brunet et al. The samples are from 27 patients with acute lymphoblastic leukemia (ALL) and 11 patients with acute myeloid leukemia (AML).
The samples were assayed using Affymetrix Hgu6800 chips and the original data on the expression of 7129 genes (Affymetrix probes) are available on the Broad Institute web site (see references below).
The data in esGolub
were obtained from the web site related to
Brunet et al.'s publication on an application of Nonnegative Matrix
Factorization (see link in section Source).
They contain the 5,000 most highly varying genes according to their
coefficient of variation, and were installed in an object of class
ExpressionSet-class
.
data(esGolub)
There are 3 covariates listed.
factor
with levels c('ALL', 'AML')
.
factor
with levels
c('T-cell', 'B-cell', NA)
.
http://www.broadinstitute.org/publications/broad872
Metagenes and molecular pattern discovery using matrix factorization Brunet, J.~P., Tamayo, P., Golub, T.~R., and Mesirov, J.~P. (2004) Proc Natl Acad Sci U S A 101(12), 4164–4169.
Molecular Classification of Cancer: Class Discovery and Class Prediction by Gene Expression Monitoring , Science, 531-537, 1999 , T. R. Golub and D. K. Slonim and P. Tamayo and C. Huard and M. Gaasenbeek and J. P. Mesirov and H. Coller and M.L. Loh and J. R. Downing and M. A. Caligiuri and C. D. Bloomfield and E. S. Lander
Original data from Golub et al.: http://www-genome.wi.mit.edu/mpr/data_set_ALL_AML.html
data(esGolub) esGolub ## Not run: pData(esGolub)