Example subset of a Panobinostat TPP-CCR dataset (replicates 1 and 2)
A list with two subsets of a dataset obtained by TPP-CCR experiments to investigate drug effects for HDAC inhibitor Panobinostat. It contains 7 HDACs as well as a random selection of 493 further proteins.
You can use this dataset to explore the
functionalities without invoking the whole time consuming analysis on the
The original dataset is located in the folder
'example_data/CCR_example_data' in the package's installation
directory. You can find it on your system by the
system.file('example_data', package = 'TPP').
The measurements were generated by four separate multiplexed TMT
experiments with 10 TMT labels each.
Quantitative values per protein were obtained by the python
software isobarQuant and converted to fold changes relative to the lowest
The raw data before quantification can be found in the
database (http://www.proteomicsdb.org/#projects/4221/3102) with the following sample mapping:
Panobinostat_1: MS-experiment numbers P97404B02-B10
Panobinostat_2: MS-experiment numbers P97414B02-B10
Franken, H, Mathieson, T, Childs, D. Sweetman, G. Werner, T. Huber, W. & Savitski, M. M. (2015), Thermal proteome profiling for unbiased identification of drug targets and detection of downstream effectors. Nature protocols 10(10), 1567-1593.
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