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- Posts: 12
- Joined: Wed Feb 12, 2014 1:32 pm
System: Alliance 2795 HPLC coupled to a Waters Quattro ultima running Masslynx 4.0
Aim: I’m trying to obtain a list of absolute peak areas for each of three transitions from data acquired from an MS run
Problem: 1) After processing the samples in Quanlynx I am not able to obtain a summary list of peaks areas for each transition for each sample
2) Only the first transition (number 1 in the compound list of the quanlynx method editor) seems to be integrated for each sample
Detail:
- I identify three transitions for a compound and create an MRM file
- I create a sample list (3 samples) and run the MRM method.
- I obtain chromatograms for each of the three transitions for each sample
- In Quanlynx I create a method in which each transition is entered separately (the compound list has 3 entries). In the ‘General Methods’/’Response’/’Type’ dialogue box I enter ‘External (absolute)’ and click 'area'
- The ‘Smooth’ and ‘Integrate’ parameters I enter as described in the manual with ‘right click/drag’s over the appropriate parts of the chromatogram.
- I then save the method and process the samples ticking only ‘integrate samples’ and entering the method created above
- In the quanlynx browser all I obtain is an integrated peak chromatogram relating only to the first transition (number 1 in the compound list of the quanlynx method editor) for each compound (I can toggle through these chromatograms using the sample toggle button on the tool bar). I created a new method, changing the order the transitions appear in the quanlynx method editor, processed the samples again and, sure enough, the only chromatograms appearing in the results were those pertaining to the first transition in the list
- The peaks have been intergrated but nowhere can I find a summary list. I’ve tried ‘Display/options’ but this only allows the option for list compounds by name or sample #. The ‘Toggle summary’ button in the tool bar has no effect except greying out the ‘show chromatograms’ button
Is there anything that jumps out to anyone as an obvious error or oversight?
And before anyone suggests running standard curves, I’m teaching myself and approaching this one step at a time. At this moment I do not want to complicate matters further and just want to obtain a list of absolute peak areas. At least then I can start some work by using an internal standard and calculate % change from sample to sample which is good enough for basic microsome studies.
Thank you in advance!!
Marcus
Aim: I’m trying to obtain a list of absolute peak areas for each of three transitions from data acquired from an MS run
Problem: 1) After processing the samples in Quanlynx I am not able to obtain a summary list of peaks areas for each transition for each sample
2) Only the first transition (number 1 in the compound list of the quanlynx method editor) seems to be integrated for each sample
Detail:
- I identify three transitions for a compound and create an MRM file
- I create a sample list (3 samples) and run the MRM method.
- I obtain chromatograms for each of the three transitions for each sample
- In Quanlynx I create a method in which each transition is entered separately (the compound list has 3 entries). In the ‘General Methods’/’Response’/’Type’ dialogue box I enter ‘External (absolute)’ and click 'area'
- The ‘Smooth’ and ‘Integrate’ parameters I enter as described in the manual with ‘right click/drag’s over the appropriate parts of the chromatogram.
- I then save the method and process the samples ticking only ‘integrate samples’ and entering the method created above
- In the quanlynx browser all I obtain is an integrated peak chromatogram relating only to the first transition (number 1 in the compound list of the quanlynx method editor) for each compound (I can toggle through these chromatograms using the sample toggle button on the tool bar). I created a new method, changing the order the transitions appear in the quanlynx method editor, processed the samples again and, sure enough, the only chromatograms appearing in the results were those pertaining to the first transition in the list
- The peaks have been intergrated but nowhere can I find a summary list. I’ve tried ‘Display/options’ but this only allows the option for list compounds by name or sample #. The ‘Toggle summary’ button in the tool bar has no effect except greying out the ‘show chromatograms’ button
Is there anything that jumps out to anyone as an obvious error or oversight?
And before anyone suggests running standard curves, I’m teaching myself and approaching this one step at a time. At this moment I do not want to complicate matters further and just want to obtain a list of absolute peak areas. At least then I can start some work by using an internal standard and calculate % change from sample to sample which is good enough for basic microsome studies.
Thank you in advance!!
Marcus
