Breast2003QCList {msBreast}R Documentation

Mass Spectra from a Breast Cancer Quality Control Sample

Description

A data object of class msList, consisting of 96 mass spectra generated from a pooled sample of nipple aspirate fluid (NAF) from healthy breasts and breasts with cancer. (see references for details).

Usage

Breast2003QCList

Format

An object of msList. See msList in package msProcess for details.

Source

http://bioinformatics.mdanderson.org/pubdata.html

References

Coombes, K.R., Tsavachidis, S., Morris, J.S., Baggerly, K.A., and Kuerer, H.M., "Improved peak detection and quantification of mass spectrometry data acquired from surface-enhanced laser desorption and ionization by denoising spectra with the undecimated discrete wavelet transform," Proteomics, 5:4107–17, 2005.

Pawlik, T.M., Fritsche, H., Coombes, K.R., Xiao, L., Krishnamurthy, S., Hunt, K.K., Pusztai, L., Chen, J.N., Clarke, C.H., Arun, B., Hung, M.C., and Kuerer, H.M., "Significant differences in nipple aspirate fluid protein expression between healthy women and those with breast cancer demonstrated by time-of-flight mass spectrometry," Breast Cancer Research and Treatment, 89(2):149–57, 2005.

Kuerer, H.M., Coombes, K.R., Chen, J.N., Xiao, L., Clarke, C., Fritsche, H., Krishnamurthy, S., Marcy, S., Hung, M.C., and Hunt, K.K., "Association between ductal fluid proteomic expression profiles and the presence of lymph node metastases in women with breast cancer," Surgery, 136(5):1061–9, 2004.

Coombes, K.R., Fritsche, Jr., H.A., Clarke, C., Chen, J.N., Baggerly, K.A., Morris, J.S., Xiao, L.C., Hung, M.C., and Kuerer, H.M., "Quality control and peak finding for proteomics data collected from nipple aspirate fluid by surface-enhanced laser desorption and ionization," Clinical Chemistry, 49(10):1615–23, 2003.

See Also

Breast2003QC.

Examples

if (require("msProcess")) {
if (!exists("Breast2003QCList")) data("Breast2003QCList", package="msBreast")

## print an msList object 
Breast2003QCList

## print the synopsis of an msList object 
summary(Breast2003QCList)

## plot the 10th spectrum from an msList object 
plot(Breast2003QCList, index=10)
}

[Package msBreast version 1.0.2 Index]