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The Skyline team has developed a nice pipeline for evaluation of LC-MS/MS performance over time for MS systems in the research lab environment. To help you use this solution, we have set up two Skyline Documents that you can use for continuous system monitoring....
When using the Auto-Calibration option in Extractor, a set of retention time calibration peptides will be determined automatically from the library and used for RT calibration. To determine how the fit looks for the calibration on each datafile, follow these steps....
There are two options for data storage when working with the OneOmics suite. You can store your data either within the SCIEX Cloud platform in the Data Store, or you can store data in BaseSpace (Illumina) and link your BaseSpace account with the SCIEX Cloud platform....
CloudConnect in PeakView software 2.2 enables both the upload of data files to the OneOmics suite as well as the download of SWATH acquisition results files for viewing. This post will describe how to download and visualize the results from Extractor processing, so...
In order to help you get proficient in using the OneOmics suite workflows, we have provided some demo datasets along with numerous other valuable files and supporting information to help you get started. Once you get access to your SCIEX Cloud account and can view...
The most important consideration in adding a new RT calibration protein to your library is making sure you are getting the retention time for both into the same retention time or chromatographic frame. Below is a list of steps that walks you through how to do this....
Similar extraction processes are used in both the SWATH acquisition microapp in PeakView software on the desktop and the Extractor app in OneOmics suite. After the fragment ions have been selected for each peptide, the extracted ion chromatograms are generated and the...
Similar selection processes are used in both the SWATH acquisition microapp in PeakView software on the desktop and the Extractor app in OneOmics suite. During the protein grouping process in ProteinPilot software, there is an extensive analysis that is done on the...
Desktop solution: If you are processing your SWATH acquisition data using the SCIEX pipeline, there are a 3 software packages that work together seamlessly for processing. First, you would process your IDA data using ProteinPilot software to create an ion library. ...
The information needed for targeted data extraction in our current SWATH acquisition workflow is relatively simple. You need the parent ion m/z; you need the m/z and relative intensities of the major fragment ions that are produced during MS/MS; and you need to know...
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