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Comparative and Functional Genomics
Volume 5, Issue 1, Pages 61-68
Conference paper

ProbSeq—A Fragmentation Model for Interpretation of Electrospray Tandem Mass Spectrometry Data

1Maximum Entropy Data Consultants Ltd, Tresawsan, Killaha East, Kenmare, Ireland
2Waters Corporation MS Technologies Centre, Floats Road, Wythenshawe, Manchester M23 9LZ, UK

Received 31 October 2003; Revised 18 November 2003; Accepted 26 November 2003

Copyright © 2004 Hindawi Publishing Corporation. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


We describe a probabilistic peptide fragmentation model for use in protein databank searching and de novo sequencing of electrospray tandem mass spectrometry data. A probabilistic framework for tuning of the model using a range of well-characterized samples are introduced. We present preliminary results of our tuning efforts.