Intensity data for 8 cDNA slides with CLL and DLBL samples from the Alizadeh et al. paper in Nature 2000
8 cDNA chips from Alizadeh lymphoma paper
data(lymphoma)
lymphoma is an ExpressionSet
containing the data from 8 chips
from the lymphoma data set by Alizadeh et al. (see references). Each
chip represents two samples: on color channel 1 (CH1, Cy3, green) the
common reference sample, and on color channel 2 (CH2, Cy5, red) the
various disease samples. See pData(lymphoma). The 9216x16
matrix exprs(lymphoma) contains the background-subtracted spot
intensities (CH1I-CH1B and CH2I-CH2B, respectively).
The chip intensity files were downloaded from the Stanford microarray database. Starting from the link below, this was done by following the links Published Data -> Alizadeh AA, et al. (2000) Nature 403(6769):503-11 -> Data in SMD -> Display Data, and selecting the following 8 slides:
| lc7b019 |
| lc7b047 |
| lc7b048 |
| lc7b056 |
| lc7b057 |
| lc7b058 |
| lc7b069 |
| lc7b070 |
Then, the script makedata.R from the scripts subdirectory
of this package was run to generate the R data object.
http://genome-www5.stanford.edu/MicroArray/SMD
A. Alizadeh et al., Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 403(6769):503-11, Feb 3, 2000.
data("lymphoma")
lymphoma
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