PABST

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 This page describes the Peptide Atlas Best SRM Transition tool or PABST, which is a Peptide Atlas functionality that uses various sources of information to produce lists of peptides and (optionally) fragment ions for use in selected reaction monitoring (SRM) assays.  This information is compiled into 'builds' that allow for fast querying via a web interface, which can be found at the URL below.

https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/GetPABSTList 

 The PABST build process has 3 discrete steps which are described in more detail in the following paragraphs.  First of all, a list of the the top N (currently 10) most suitable peptides is determined for each protein in the target organism.  Secondly, a list of the top M (currently 8) potential fragment ions
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