Hi,
Sorry for bothering again, we have 11 different acids and aim to have internal standards for each one of them. I was wondering, whether it would be possible, to have different analyte concentration for each of the acids in one document? Right now if we look at the calibration curve, it looks funny/wrong for some of the acids, due to the different values. Is there a way see for each acid the right concentration that we actually spike in?
Thanks very much,
Best Sophia
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| Chris Ashwood responded: |
2023-06-07 08:46 |
Hi Sophia,
I'm not a Skyline developer (they will likely respond soon) but I wanted to try to help you out here. Have you looked through the High Res Metabolomics Tutorial (https://skyline.ms/_webdav/home/software/Skyline/%40files/tutorials/HiResMetabolomics-21_2.pdf)? The short answer to your question is that the document grid should allow you to specify the relative concentration of each standard for a given replicate.
There is a specific section in the tutorial on page 13 that discusses analytes with difference concentrations. Specifically, they're using a NIST mix and defining the individual molecule concentrations using a "concentration multiplier". From that page onwards, it discusses using multipliers for generating analyte-specific calibration curves.
Cheers,
Chris
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| zrhopkins responded: |
2023-06-23 12:22 |
Sophia,
Have you been able to figure this out? I'm in a similar situation. I have 51 analytes, but not all of them share the same calibration curve range. Is there a way to setup calibration curve levels for each individual analyte? Or do I need to create a new document for each calibration curve range and only import the analytes that use that calibration range?
I did look at what Chris pointed to, but this seems to be for single point calibration curves if I understand the document correctly.
Surely there is a work around for this.
Best,
Zack
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| Nick Shulman responded: |
2023-06-23 13:37 |
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| Michi responded: |
2025-11-04 11:18 |
Hi All,
I know this is an old conversation, but my question fits well to this one and I think it has not been answered here or anywhere else:
Is there a way to exclude certain calibration levels for certain molecules, i.e. is there for example a "secret code" I could enter in the "Explicit Analyte Concentration" field that would then remove this level for that specific molecule? Or is there any other way I am missing to do this on a molecule-by-molecule basis rather than remove a certain calibration level for all molecules?
This would be very helpful because not analytes are linear in the same range, so for some I would need to exclude the higher levels or others might only be detected at higher concentrations and I would need to remove the lower levels. Unfortunately, I am not able to adjust this when preparing the calibration samples because I am using a mix of 40 analytes that come with certain concentrations already premixed (since they are different, the "Concentration Multiplier" has already been super useful). Thus, I cannot adjust them individually to match the linear range and the expected concentration range in the samples but rather have to select the levels I want to include for each molecule during data analysis. Is there any way to do this that I am missing? I tried adding the Explicit Analyte Concentration for the ones I want to use in the hope that once this column has some entries, the other empty rows for that molecule would be ignored but that does not work.
Thank you,
Michi |
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| Nick Shulman responded: |
2025-11-04 15:03 |
Michi,
There is a different column called "Exclude From Calibration" which you could include on your custom report to give you the ability to exclude specific external standards from the calibration curve for particular molecules.
"Explicit Analyte Concentration" and "Exclude From Calibration" can both be found on the Peptide Result section of the column chooser in the Edit Report dialog.
-- Nick |
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| Michi responded: |
2025-11-05 07:21 |
Nick,
Thank you so much for the quick response! This is exactly what I was looking for. I could/should have thought of searching for "exclude". It works perfectly and just made my life 1000x easier. I really appreciate your help!
Thanks,
Michi |
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