Singh2002: Case-control study of prostate cancer
In pbreheny/hdrm: High-Dimensional Regression Modeling
Singh2002 R Documentation
Case-control study of prostate
cancer
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.
Format
-
y: Classification of sample (normal, tumor)
-
X: Gene expression measurements, normalized and on the log2
scale
Dimensions
-
n = 102
-
p = 12,600
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.
References
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.
pbreheny/hdrm documentation built on Jan. 17, 2024, 8:53 p.m.
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| Singh2002 | R Documentation |
Case-control study of prostate cancer
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.
Format
-
y: Classification of sample (normal, tumor) -
X: Gene expression measurements, normalized and on the log2 scale
Dimensions
-
n = 102
-
p = 12,600
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.
References
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.
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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