Shedden2008: Survival analysis of lung cancer patients

In pbreheny/hdrm: High-Dimensional Regression Modeling

Survival analysis of lung cancer patients

Description

Retrospective data was collected across multiple sites for 442 patients with adenocarcinoma of the lung including their survival times, some additional clinical and demographic data, and expression levels of 22,283 genes taken from the tumor sample.

Format

• S: A two-column matrix containing the survival data. First column is time on study (in months), second column is the failure indication (1=died). One would presume that time is measured as months since surgery, however this is never explicitly stated in the article.

• X: A matrix with 442 rows and 22283 columns of gene expression measurements

• Z: Clinical covariates, which include Sex, Age, Race, AdjChemo (whether the patient received adjuvant chemotherapy), SmHist (smoking history), Margin, and Grade

Annotation

• The object fData contains the associated gene names and gene symbols for the (mapped) probes in X. Rows of fData correspond to columns of X, and are named accordingly.

Source

Shedden K, Taylor JMG, Enkemann SA, Tsao M-S, Yeatman TJ, Gerald WL, Eschrich S, Jurisica I, Giordano TJ, Misek DE, Chang AC, Zhu CQ, Strumpf D, Hanash S, Shepherd FA, Ding K, Seymour L, Naoki K, Pennell N, Weir B, Verhaak R, Ladd-Acosta C, Golub T, Gruidl M, Sharma A, Szoke J, Zakowski M, Rusch V, Kris M, Viale A, Motoi N, Travis W, Conley B, Seshan VE, Meyerson M, Kuick R, Dobbin KK, Lively T, Jacobson JW and Beer DG (2008). Gene expression-based survival prediction in lung adenocarcinoma: a multi-site, blinded validation study. Nature Medicine, 14: 822-827.

pbreheny/hdrm documentation built on July 4, 2025, 12:04 p.m.