Video: “SEQUEST and TPP Tips” by Jimmy Eng (U. Washington)

Jimmy Eng (left) of University of Washington receives a thank-you gift from David Chiang after his talk.

During our Translational Proteomics 2.0 Meeting, we were privileged to have Jimmy Eng (University of Washington) give us his uncommon insights into using SEQUEST with the Trans-Proteomic Pipeline (TPP).

This talk will be invaluable for advanced users of the SEQUEST search engine for sensitive translational proteomics analysis. All active SEQUEST users should listen to this talk!

Researchers will benefit by increasing their sensitivity and decreasing their false discovery rates when identifying proteins and post-translational modifications using proteomics mass spectrometers like the Orbitrap.

Jimmy is one of the most prolific proteomics developers over almost two decades, as the co-inventor (with John Yates) of proteomic search engines and SEQUEST, as well as the developer of a number of TPP tools.

Conclusions from slides:
- Semi-tryptic searches are better
- Use monoisotopic masses for fragment ions
(Use monoisotopic masses for precursor ions if data from a high-res instrument)
- Narrow mass tolerance searches better if search considers precursor mass isotope assignment error

The talk is available at:  http://www.scivee.tv/node/11920 (31 minutes).

I recommend using the “full screen” mode so you can view the slides, which are also available as a download from the site.