Protein Identification Using Sorcerer 2 and SEQUEST

@article{Lundgren2009ProteinIU,
  title={Protein Identification Using Sorcerer 2 and SEQUEST},
  author={Deborah H. Lundgren and Harryl D Martinez and Michael D. Wright and David K. Han},
  journal={Current protocols in bioinformatics},
  year={2009},
  volume={Chapter 13},
  pages={Unit 13.3}
}
Sage-N's Sorcerer 2 provides an integrated data analysis system for comprehensive protein identification and characterization. It runs on a proprietary version of SEQUEST(R), the most widely used search engine for identifying proteins in complex mixtures. The protocol presented here describes the basic steps performed to process mass spectrometric data with Sorcerer 2 and how to analyze results using TPP and Scaffold. The unit also provides an overview of the SEQUEST(R) algorithm, along with… CONTINUE READING

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See above. Good overview of methods associating statistical scores with results of MS/MS experiments

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See above. Proposes new criteria for decreasing false-positive results in SEQUEST-based peptide identiÞcation

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See above Description of Ascore algorithm for phosphorylation site localization

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