rosenwald: Rosenwald et al. Lymphochip data

In LPS: Linear Predictor Score, for Binary Inference from Multiple Continuous Variables

Description

This dataset contains 60 Diffuse Large B-Cell Lymphomas analysed on Lymphochip microarrays, as published by Rosenwald et al. The "Germinal Center B-cell like" and "Activated B-Cell like" subtypes, as determined by hierarchical clustering, were predicted by a LPS approach in Wright et al.

To minimize package size, values were rounded at 3 decimals and only 60 DLBCL from the 240 series were randomly selected (40 from the "Training" set, 20 from the "Validation" set), excluding "Type III" sub-types.

Usage

data(rosenwald)

Format

rosenwald.expr is a numeric matrix of expression values, with probes in rows and samples in columns. Both dimensions are named, probes by there "UNIQID" and samples by there "LYM numbers". Many NA values are present.

rosenwald.cli is a data.frame with a row for each sample, and 4 factor columns described below. Rows are named by samples "LYM numbers", in the same order than rosenwald.expr.

set

the "Training" or "Validation" set the sample comes from.

group

the DLBCL sub-type that is to be predicted ("GCB" or "ABC").

follow.up

follow-up of the patient, in years.

status

status of the patient at the end of the follow-up ("Dead" or "Alive").

Source

http://llmpp.nih.gov/DLBCL/

References

Rosenwald A et al. The use of molecular profiling to predict survival after chemotherapy for diffuse large-B-cell lymphoma. N Engl J Med. 2002 Jun 20;346(25):1937-47.

Wright G et al. A gene expression-based method to diagnose clinically distinct subgroups of diffuse large B cell lymphoma. Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):9991-6.

LPS documentation built on May 29, 2021, 5:07 p.m.