Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry.
Citations
1,241 citations
Cites background or methods from "Automated statistical analysis of p..."
...3B, open squares for BSA), although combining the information from multiple peptides for each protein increased the confidence in the estimated ratio in much the same way that ratios from stable isotope analysis are combined to form protein ratios (32, 33)....
[...]
...Protein Ratios from Peak Area Intensities—The Serac PASC module calculates ratios of ion intensities for peptides matched between different experiments and averages the peptide ratios as a measure of protein change as in stable isotope labeling studies (32, 33)....
[...]
983 citations
Cites methods from "Automated statistical analysis of p..."
...Quantitative information (not discussed in the original publication) was extracted from the data using an automated tool, ASAPRatio (63), and then confirmed by manual inspection....
[...]
788 citations
756 citations
Cites background or methods from "Automated statistical analysis of p..."
...Within this workflow, the quantification analysis tools XPRESS [17], ASAPRatio [18], or Libra [19] may be used with data that derive from isotopically or isobarically labeled samples....
[...]
...The more recent ASAPRatio [18] is more sophisticated in its measurement of, and aggregation of measurements from, multiple peptide ions from the same peptide, as well as aggregation at the protein level....
[...]
...Step 9 of the tutorial demonstrates the use of ASAPRatio on the sample data set to derive abundance ratios for the two samples....
[...]
726 citations
Cites background from "Automated statistical analysis of p..."
...…many of these steps: PeptideProphet validates peptides assigned to MS/MS spectra (Keller et al, 2002a), XPRESS (Han et al, 2001) andASAPRatio (Li et al, 2003) quantitate peptides andproteins in differentially labeled samples, Pep3D enables a viewof the raw spectral data (Li et al, 2004), and…...
[...]
References
8,195 citations
4,544 citations
2,056 citations
1,456 citations
730 citations