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Separating heavy and light during data analysis

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Separating heavy and light during data analysis anamikab  2017-09-13 09:12
 
Hi
We have a question regarding data analysis in Skyline. We use heavy labeled standard along with endogenous peptides. Thus when we open our raw data we get to see both heavy and light peptides and after choosing the peaks we export the data of both heavy and light peptides including their ratios. Our question is: is there a way skyline enables us to separate the heavy from the light? What we are trying to get is two xl files one having quantitative info of light and one having that of heavy. We know we can do it manually selecting heavy and light separately; but we are dealing with 600 transitions in sets of 40-50 samples or more, thus manually doing it is impossible.
Will greatly appreciate if you can send us your feedback.
 
 
Brendan MacLean responded:  2017-09-13 10:06
Hi Anamika,
It should be pretty easy to set something like this up with 2 new reports.

- In File > Export > Report, click the Edit list button.
- Select the base report you have now, and click Copy and Open in View Editor.
- Click the filter tab.
- Select Precursors.Isotope Label Type.
- Click the Add button.
- Change Operation to Equals and enter either "light" or "heavy".
- Name the new report something like "Original Name (light)"
- Export this report and repeat for heavy.

You could also achieve this in the Document Grid by opening your original report in it, and as long as it has Percursors.Isotope Label Type as a field, you could click the column header and filter by the label type you want. Then click the "Export" button to get the filtered results out to a file or the copy button to copy them to the clipboard, where you could paste into Excel.

Anyway, filtering your View or Report by Precursors.Isotope Label Type is the key, and then there are multiple options to performan that filtering and to get the result to where you want it for subsequent analysis.

It may be useful to review the Custom and Live Reports tutorial (http://skyline.ms/tutorial_custom_reports.url).

Thanks for using Skyline and posting your request to the Skyline support board.

--Brendan