yeoh5 {yeoh5Eset} | R Documentation |
This U95av2 dataset is comprised of 335 childhood acute lymphoblastic leukemia diagnostic bone marrow samples. Of the 327 of these that passed quality control criteria,43 were T-cell leukemias and 284 were B-cell leukemias. The B-cell leukemias had the following cytogenetic abnormalities (and numbers of patients): BCR-ABL (15), TEL-AML1 (79), E2A-PBX (27), MLL (20), hyperploidy >50 (64), hyperploidy 47 to 50 (23), hypoploidy (9), pseudodiploidy (29), and diploid/normal (18). The 8 patients who failed the quality control criteria were all relapsed cases (5 hematologic and 3 secondary AMLs).
data(yeoh5)
The rownames of the phenodata and colnames of the expression matrix are the original sample names less "#" and with "-" and ">" replaced by "."s. The phenodata has 4 columns/covariates:
trial
: The clinical trial to which the patient belonged. This could perhaps be used as a crude estimate of
calendar time at diagnosis.
outcome
: The patient's treatment outcome. CCR = continuous complete remission.
type
: Molecular characterization of B cell leukemias, or was it a T cell leukemia?
QC
: Did the array/patient pass the quality control test?
This is MAS5 data.
MAS5 data was built using Affy and cel files from http://www.stjuderesearch.org/data/ALL1/all_rawdata3.html.
Yeoh, E. J., Ross, M. E., Shurtleff, S. A., Williams, W. K., Patel, D., Mahfouz, R., Behm, F. G., Raimondi, S. C., Relling, M. V., Patel, A., Cheng, C., Campana, D., Wilkins, D., Zhou, X., Li, J., Liu, H., Pui, C. H., Evans, W. E., Naeve, C., Wong, L. and Downing, J. R. Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling. Cancer Cell 1, 133-143 (2002).
library(yeoh5Eset) yeoh5 pD=pData(yeoh5);pD dim(pD)