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Related Concept Videos

Proteomics01:33

Proteomics

7.5K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Protein Networks02:26

Protein Networks

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An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
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Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

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Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
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Updated: Apr 26, 2026

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification
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Panorama: a targeted proteomics knowledge base.

Vagisha Sharma1, Josh Eckels, Greg K Taylor

  • 1University of Washington , Seattle, Washington 98195, United States.

Journal of Proteome Research
|August 8, 2014
PubMed
Summary
This summary is machine-generated.

Panorama is an open-source web application for managing targeted proteomics data from Skyline. It enables secure data sharing, collaboration, and reuse of chromatogram libraries for new experiments.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Management

Background:

  • Skyline is a widely used Windows client for targeted proteomics.
  • Managing and sharing Skyline data presents challenges for collaboration.
  • A centralized system is needed for storing and analyzing Skyline results.

Purpose of the Study:

  • Introduce Panorama, a web application for Skyline data.
  • Facilitate secure storage, sharing, and analysis of targeted proteomics assays.
  • Enable reuse of curated data for future experiments and validation.

Main Methods:

  • Panorama integrates with the Skyline workflow for direct publishing.
  • Data is stored in a relational database schema capturing Skyline document content.
  • Web-browser interface allows for fine-grained permissions and collaboration.

Main Results:

  • Panorama enables organized storage and retrieval of curated Skyline results.
  • Published data can be aggregated into chromatogram libraries.
  • These libraries support target selection and peak identification in Skyline.

Conclusions:

  • Panorama enhances collaboration and data accessibility for targeted proteomics.
  • It supports the full lifecycle of Skyline data, from creation to reuse.
  • Panorama is freely available as open-source software, distributed with LabKey Server.