Damian, See this post: https://groups.google.com/forum/?fromgroups=#!topic/comet-ms/KrbM57S050M
On Thu, May 2, 2013 at 3:57 AM, GATTACA <[email protected]> wrote: > Hi guys, > > I was looking at the pep.xml file generated by the latest release of Comet > and noticed an inconsistency from other pep.xml files generated for Mascot > results (for example). > Normally the top of the file lists the modifications used in the search > results. > Traditionally these elements report the mass of the modified residue. But > in comet the elements just report the mass of the residues unmodified. > > Example from Comet-derived pep.xml: > <aminoacid_modification aminoacid="M" massdiff="15.9949" mass="131.0405" > variable="Y" symbol="*"/> > <aminoacid_modification aminoacid="S" massdiff="79.9663" mass="87.0320" > variable="Y" symbol="#"/> > <aminoacid_modification aminoacid="T" massdiff="79.9663" mass="101.0477" > variable="Y" symbol="#"/> > <aminoacid_modification aminoacid="Y" massdiff="79.9663" mass="163.0633" > variable="Y" symbol="#"/> > <aminoacid_modification aminoacid="C" massdiff="57.0215" mass="160.0306" > variable="N"/> > > > In Mascot-derived pep.xml: > <aminoacid_modification aminoacid="M" mass="147.035400" > massdiff="15.994915" variable="Y"/> > <aminoacid_modification aminoacid="S" mass="166.998359" > massdiff="79.966331" variable="Y"/> > <aminoacid_modification aminoacid="T" mass="181.014010" > massdiff="79.966331" variable="Y"/> > <aminoacid_modification aminoacid="Y" mass="243.029660" > massdiff="79.966331" variable="Y"/> > <aminoacid_modification aminoacid="C" mass="160.030649" > massdiff="57.021464" variable="N"/> > > I'm not sure if this is a bug or simply a difference in how the search > engine results are reported. > > Any thoughts? > Damian > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To post to this group, send email to [email protected]. > Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. > For more options, visit https://groups.google.com/groups/opt_out. > > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. For more options, visit https://groups.google.com/groups/opt_out.
