qclist: Mass Spectra from a Breast Cancer Quality Control Sample

In zeehio/msProcess: Protein Mass Spectra Processing

Description

A data object of class msList, consisting of 8 mass spectra generated from a pooled sample of nipple aspirate fluid (NAF) from healthy breasts and breasts with cancer. (see references for details).

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

qcset.

Examples

if (!exists("qclist")) data("qclist", package="msProcess")

## print an msList object 
qclist

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

## plot the first spectrum from an msList object 
plot(qclist, index=1)

zeehio/msProcess documentation built on May 4, 2019, 10:15 p.m.