title: Protter: interactive protein feature visualization and integration with experimental proteomic data.
abstract: CONCLUSIONS
  The ability to integrate and visualize experimental proteomic evidence in the context of rich protein feature annotations represents an unmet need of the proteomics community. Here we present Protter, a web-based tool that supports interactive protein data analysis and hypothesis generation by visualizing both annotated sequence features and experimental proteomic data in the context of protein topology. Protter supports numerous proteomic file formats and automatically integrates a variety of reference protein annotation sources, which can be readily extended via modular plug-ins. A built-in export function produces publication-quality customized protein illustrations, also for large datasets. Visualizations of surfaceome datasets show the specific utility of Protter for the integrated visual analysis of membrane proteins and peptide selection for targeted proteomics.
  
  
  METHODS
  The Protter web application is available at http://wlab.ethz.ch/protter. Source code and installation instructions are available at http://ulo.github.io/Protter/.
  
  
  BACKGROUND
  wbernd@ethz.ch
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, 8093 Zürich and Institute of Molecular Life Sciences, University of Zürich, 8057 Zürich, Switzerland.
authors.forename: Ulrich
authors.initials: U
authors.lastname: Omasits
authors.forename: Christian H
authors.initials: CH
authors.lastname: Ahrens
authors.forename: Sebastian
authors.initials: S
authors.lastname: Müller
authors.forename: Bernd
authors.initials: B
authors.lastname: Wollscheid
mesh_terms: D000595:Amino Acid Sequence; D020407:Internet; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D011506:Proteins / Q000737:chemistry / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D012984:Software
chemical_list: D011506:Proteins