Singh2002 code copied

Case-control study of prostate cancer

Dimension

• 102 instances (rows)
• 12600 features (columns)

Description

Prostate tumors are among the most heterogeneous of cancers, both histologically and clinically. Gene expression data was collected on samples from 102 patients who underwent a prostatectomy. Of the samples, 52 are from tumors and 50 are from healthy tissue.

Elements

• y: Classification of sample (normal, tumor)
• X: Gene expression measurements, normalized and on the log₂ scale

Annotation

• Rows of X, and elements of y, are annotated with matching sample labels.
• Columns of X are labeled with a GenBank ID. To see what gene a given ID belongs to, visit http://www.ncbi.nlm.nih.gov/genbank.

Reference

I obtained the data from the authors at https://portals.broadinstitute.org/cgi-bin/cancer/publications/view/75 and used the vsn package for normalization. The original reference is:

Singh D, Febbo PG, Ross K, Jackson DG, Manola J, Ladd C, Tamayo P, Renshaw AA, D’Amico AV, Richie JP, Lander ES, Loda M, Kantoff PW, Golub TR and Sellers WR (2002). Gene expression correlates of clinical prostate cancer behavior. Cancer Cell, 1: 203-209.