QuantPSM_test: Test data set containing spectral level profiles not yet...
In mooredf22/protlocassign: Estimation of protein distribution from quantitative subcellular fractionation experiments using a constrained proportional assignment model
QuantPSM_test R Documentation
Test data set containing spectral level profiles not yet
formatted for use with prolocassign package
Description
Test data frame that is the precursor for spectraNSA_test and
is used as input for the function proteinDataPrep.
It contains descriptive information and NSA profiles for all
peptide-spectrum matches associated with all spectra of
TLN1, TLN2, AIF1 and the proteins listed in "markerListJadot".'
Data are from the TMT MS2 data, AT5 experiment; see Tannous et al
Usage
data(QuantPSM_test)
Format
A data frame containing NSA profiles and descriptive
information for spectra
Value
A data frame containing NSA profiles for spectra
Protein.Geneprotein name
PeptideSequencepeptide
SpectrumIDidentification label of spectrum
PeptidesStartPositionInProteinnumber of start position
modificationspeptide modification list
Na numeric vector
Ma numeric vector
L1a numeric vector
L2a numeric vector
Pa numeric vector
Sa numeric vector
Nyc1a numeric vector
Nyc2a numeric vector
Nyc3a numeric vector
References
Tannous, A.; Boonen, M.; Zheng, H.; Zhao, C.;
Germain, C. J.; Moore, D. F.;
Sleat, D. E.; Jadot, M.; Lobel, P., Comparative Analysis of
Quantitative Mass Spectrometric Methods for Subcellular Proteomics.
J Proteome Res 2020, 19, (4), 1718-1730.
Examples
data(QuantPSM_test)
str(QuantPSM_test)
mooredf22/protlocassign documentation built on Sept. 13, 2023, 3:57 p.m.
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| QuantPSM_test | R Documentation |
Test data set containing spectral level profiles not yet formatted for use with prolocassign package
Description
Test data frame that is the precursor for spectraNSA_test and is used as input for the function proteinDataPrep. It contains descriptive information and NSA profiles for all peptide-spectrum matches associated with all spectra of TLN1, TLN2, AIF1 and the proteins listed in "markerListJadot".' Data are from the TMT MS2 data, AT5 experiment; see Tannous et al
Usage
data(QuantPSM_test)
Format
A data frame containing NSA profiles and descriptive information for spectra
Value
A data frame containing NSA profiles for spectra
Protein.Geneprotein name
PeptideSequencepeptide
SpectrumIDidentification label of spectrum
PeptidesStartPositionInProteinnumber of start position
modificationspeptide modification list
Na numeric vector
Ma numeric vector
L1a numeric vector
L2a numeric vector
Pa numeric vector
Sa numeric vector
Nyc1a numeric vector
Nyc2a numeric vector
Nyc3a numeric vector
References
Tannous, A.; Boonen, M.; Zheng, H.; Zhao, C.; Germain, C. J.; Moore, D. F.; Sleat, D. E.; Jadot, M.; Lobel, P., Comparative Analysis of Quantitative Mass Spectrometric Methods for Subcellular Proteomics. J Proteome Res 2020, 19, (4), 1718-1730.
Examples
data(QuantPSM_test)
str(QuantPSM_test)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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