This script shows the result of searches done on the MRM data stored in the GPM. Searching can be done on any combination of parent ion mass, peptide sequence or accession number.
This script has two different displays; one for mass or sequence searching and one for accession numbers.
Display Elements - Mass or Peptide Sequence Search
- a search form, for refining results or beginning a new search.
- The table of results:
- Sequence: the peptide sequence associated with the spectrum in the same row.
- m/z: the mass to charge ratio.
- z: the charge.
- # Obs: the number of times this peptide has been identified in GPMDB.
- Accession: the accession number of a protein in which this peptide was found.
- pos: the position of this peptide in the protein identified by the accession number on that row.
- peaks: a compound field depicting up to twenty peaks in the spectrum for this peptide:
- the top row is the list of mass-to-charge ratios for the spectrum.
- The bottom row is the normalized intensity of the signal.
- Two buttons: the Spectrum button leads to peptide_xlib.pl for this spectrum. The Details button leads to peak_details.pl, to give a more detailed explanation of the spectrum.
Display Elements - Accession Search
- a form to search for identifications of this protein in GPMDB using dblist_label.pl.
- descriptive text regarding the protein, highlighted in yellow.
- a for to view this page as either HTML or a spreadsheet-compatible form.
- the table of results:
- MRM Display Order: a link to display the associated peptide search with peaks sorted by either ascending m/z ratio or descending intensity.
- Peptide Sequence: the residue sequence of the peptides identified in this protein.
- Charge: a field of the charge states in which this peptide has been observed.
- Ret: the calculated retention time of this peptide.
- MRMs: the number of records in the MRM database for this peptide.
- Observed: the number of times this peptide has been identified in GPMDB.
- log10(ω/ω0: the log of the normalized count of identifications of this peptide in GPMDB.
- ω: The frequency of observation of this peptide in this protein.