Protter

Protter visualizes experimental proteomic evidence alongside protein feature annotations to integrate proteomic data with protein topology and support peptide selection for targeted proteomics.

Key Features:

• Interactive Visualization: Visualizes annotated sequence features together with experimental proteomic data in the context of protein topology.
• Support for Multiple Formats: Accepts a wide range of proteomic file formats to ensure compatibility with datasets from different experimental techniques.
• Reference Integration: Automatically integrates numerous reference protein annotation sources and supports extension via modular plug-ins.
• Customized Illustrations: Exports publication-quality illustrations for individual proteins and large datasets.
• Surfaceome Visualization: Visualizes surfaceome datasets and aids peptide selection for targeted proteomics of membrane proteins.

Scientific Applications:

• Membrane protein analysis: Integrates topology and proteomic evidence to inform studies of membrane protein structure and function.
• Targeted proteomics design: Supports peptide selection for targeted proteomics experiments.
• Proteomic evidence interpretation: Enables contextual interpretation of experimental proteomic data alongside sequence annotations.
• Figure generation for publication: Produces publication-quality visual outputs for communicating complex proteomic and protein feature data.

Methodology:

Automatic integration of reference protein annotations, support for multiple proteomic file formats, modular plug-ins to extend annotations, visualization of annotated sequence features with experimental proteomic data, and export of publication-quality illustrations.