Saturday, December 14, 2013

Spectral counting in Proteome Discoverer

The image above is stolen directly by/from Google Images.  First thing that pops up if you look up "spectral counting".  Anyway, I often get questions about using Proteome Discoverer for spectral counting.  I have some slides that I cut from an iORBI I attended several years ago showing spectral counting in PD and this is what I send people.

I'm not a big fan of spectral counting, but it does have its place sometimes.  The slides show you a comparison of spectral counting vs. quan of peaks at the MS1 intensity level as the limitations in dynamic range from spectral counting (with a very nice reference).

EDIT (2/1/17) New DropBox link!


  1. Hi Ben. All files stored in bytebuckets are down. Have you transferred them elsewhere? Thanks!

    1. Oh no! Yeah...I need to update these links, sorry!

  2. Hi, Link is not working again