yeoh5 {yeoh5Eset}R Documentation

Childhood Leukemia data of Yeoh et al (2002)

Description

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).

Usage

data(yeoh5)

Format

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:

Details

This is MAS5 data.

Source

MAS5 data was built using Affy and cel files from http://www.stjuderesearch.org/data/ALL1/all_rawdata3.html.

References

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).

Examples

library(yeoh5Eset)
yeoh5
pD=pData(yeoh5);pD
dim(pD)

[Package yeoh5Eset version 1.0 Index]