Panorama is a freely available, open-source web server database application for targeted proteomics assays that integrates into a Skyline proteomics workflow. The LabKey Panorama module supports management of targeted mass spectrometry data and integration with Skyline workflows (SRM-MS, filtering or MS2 based projects).
Panorama Folder Types
To begin working with Panorama: Create a new folder, choose Panorama
as the folder type, and on the Configure Panorama Folder
page, select one of the available configurations:
- Experimental data: A repository of Skyline documents, useful for collaborating, sharing and searching across multiple experiments.
- Multi-attribute method (MAM): An experimental data folder variant with additional reporting for multi-attribute method analyses.
- Chromatogram library: Curated precursor and product ion expression data for use in designing and validating future experiments.
- Check Rank peptides within proteins by peak area if your data contains relative peptide expression for proteins.
- QC: Quality control metrics of reagents and instruments.
- The Sharing Skyline Documents Tutorial on the PanoramaWeb site provides an introduction to using Panorama and covers the following areas:
- Requesting a project on panoramaweb.org
- Data organization and folder management in Panorama
- Publishing Skyline documents to Panorama
- Data display options and searching results uploaded to Panorama
- Providing access to collaborators and other groups
Multi-attribute Methods (MAM)
The Multi-attribute Methods folder is the same as the Experiment Data folder
with additional reports provided.
Learn more in the topic:
In the Panorama Chromatogram Libraries Tutorial
you will go through the steps of creating a library folder in Panorama for storing curated, targeted results.
- Build a chromatogram library in Panorama
- Use it in Skyline to select peptides and product ions to measure in a new experimental setting
- Compare library chromatograms with new data to validate peptide indentifications.
Panorama QC Folder
Additional documentation is available on the PanoramaWeb site