qcset: Mass Spectra from a Breast Cancer Quality Control Sample

In zeehio/msProcess: Protein Mass Spectra Processing

Description

A data object of class msSet, consisting of 8 mass spectra generated from a pooled sample of nipple aspirate fluid (NAF) from healthy breasts and breasts with cancer. The data set was derived from qclist by eliminating the mass region below 950 Da/charge. Please see the references for more 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

qclist.

Examples

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

## plot a few spectra 
plot(qcset, subset=1:5)

## image of all spectra 
image(qcset)

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