Tuesday, July 16, 2013
Extract phosphopeptides from Proteome Discoverer output
Have you ever wanted to just pull the phosphopeptides out of your Proteome Discoverer output data? Well, I did. During my second postdoc, I primarily did global quantitative (SILAC) phosphoproteomics. In order to extract the data, my friend Dr. Trevor Glaros (Proteomics Scientist, now at USAMRIID) and a colleague at Virginia Tech developed a macro that could pull out these valuable mods. This was a big step forward for my research, as well as a valuable lesson in my life, that sometimes it is better to know people than it is to try to do everything yourself.
Anyway, I'm going to share this valuable Excel sheet with everyone. You can access it here: http://orsburn-useful.bytebuckets.com/
As a side note, I found this lesson so valuable (and this formula so useful) that I had it tattooed on my leg a while back so that I'd never forget it.