Description Usage Value References See Also Examples
SDAMS package provides two different data formats for prostate cancer proteomics
data, which is from the human urinary proteome database(http://mosaiques-diagnostics.de/mosaiques-diagnostics/human-urinary-proteom-database). There are 526 prostate cancer subjects and 1503 healthy subjects. A
total of 5605 proteomic features were measured for each subject. For
illustration purpose, we took a 10% subsample randomly from this real data.
This example data contains 560 proteomic features for 202 experimental subjects
with 49 prostate cancer subjects and 153 healthy subjects.
exampleSumExp.rda is an object of
SummarizedExperiment class which
stores the information of both proteomic features and experimental subjects.
ProstateFeature.csv contains a matrix-like proteomic feature data and
ProstateGroup.csv contains a single column of experimental subject group
An object of
Siwy, J., Mullen, W., Golovko, I., Franke, J., and Zurbig, P. (2011). Human urinary peptide database for multiple disease biomarker discovery. PROTEOMICS-Clinical Applications 5, 367-374.
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#------ load data -------- data(exampleSumExp) exampleSumExp feature = assay(exampleSumExp) # access feature data group = colData(exampleSumExp)$grouping # access grouping information SDA(exampleSumExp)
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