|Multiple injections in a single LC-MRM file, aka RapidFire||echan||2020-02-21|
Hello Skyline team,
Skyline has worked out great for our small molecule analysis by target MRM/PRM.
However, we're having trouble figuring out how to import data from our screening datasets in a RapidFire-like workflow as described in Figure 5 of this SCIEX technote.
We're monitoring the same 4 transitions (for molecules) in 30 second injections across one 96-well plate (4 * 96 = 384 transitions), with all the results saved to one .wiff file. We can process the data using SCIEX MultiQuant as shown in the attached screenshot.
However, the closest I have come to with Skyline is to import the .wiff file as 96 .sky files, each with different explicit retention time values (incremented by 30 seconds). I can manually duplicate the same molecules 96 times and edit the RT (and RT windows) in the XML document, but all of my edits get overwritten with all the RT (and RT windows) reverting to the same values after re-importing my results (i.e. re-importing my .wiff file).
It would be fantastic if we can use Skyline to manage our MRM data, regardless of whether we're monitoring a single molecule/single injection or single molecules/multiple injections in a single file. Could you give us some pointers? Thanks. -Eric