Protein Identification

Proteins are identified by digesting them into peptides, analyzing the peptides using Sensitive liquid chromatography tandem mass spectrometry (LC-MS/MS), and reassembling the identified peptides into proteins. Results are searched using X!tandem and results are returned using the Scaffold software.

You can lower the costs substantially (down to 73.00 per sample) if you do the digestion and database search. Not sure how to do a protein digestion or database search? Give us a call and we can set up a time to walk you through the digestion protocol.
prot id
These services include:

  • A Quality Control run @ 125 fmol
  • Proteolytic Digestion
  • LC-MS/MS Analysis
  • Database Search
  • Results Returned via Scaffold

The only caveat is that we will have to charge you a small amount if you want to put your results in Scaffold as it is commercial software that we have to pay for. If you would like to search your results with X!tandem, that would be done at no additional cost as that is open source software. We can also show you how to search your results and analyze your data, just ask!


Current Prices (Updated Jan 2015)

Protein ID
Service University of California Non-Profit For-Profit
Protein ID Solution LC-MS/MS Q-Exactive $179.00 $252.00 $310.00
Protein ID Gel Band LC-MS/MS Q-Exactive $150.00 $234.00 $287.00
Raw Data Only $73.00 $114.00 $140.00

Some Papers to get you Started (will put in more soon!)

Protein ID reference papers