title: ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences.
abstract: Low-throughput experiments and high-throughput proteomic and genomic analyses have created enormous quantities of data that can be used to explore protein function and evolution. The ability to consolidate these data into an informative and intuitive format is vital to our capacity to comprehend these distinct but complementary sources of information. However, existing tools to visualize protein-related data are restricted by their presentation, sources of information, functionality or accessibility. We introduce ProViz, a powerful browser-based tool to aid biologists in building hypotheses and designing experiments by simplifying the analysis of functional and evolutionary features of proteins. Feature information is retrieved in an automated manner from resources describing protein modular architecture, post-translational modification, structure, sequence variation and experimental characterization of functional regions. These features are mapped to evolutionary information from precomputed multiple sequence alignments. Data are displayed in an interactive and information-rich yet intuitive visualization, accessible through a simple protein search interface. This allows users with limited bioinformatic skills to rapidly access data pertinent to their research. Visualizations can be further customized with user-defined data either manually or using a REST API. ProViz is available at http://proviz.ucd.ie/.
authors.affiliation: Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland UCD School of Medicine & Medical Science, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Peter
authors.initials: P
authors.lastname: Jehl
authors.affiliation: Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland UCD School of Medicine & Medical Science, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Jean
authors.initials: J
authors.lastname: Manguy
authors.affiliation: Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland UCD School of Medicine & Medical Science, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Denis C
authors.initials: DC
authors.lastname: Shields
authors.affiliation: Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland UCD School of Medicine & Medical Science, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: Desmond G
authors.initials: DG
authors.lastname: Higgins
authors.affiliation: Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland UCD School of Medicine & Medical Science, University College Dublin, Belfield, Dublin 4, Ireland norman.davey@ucd.ie.
authors.forename: Norman E
authors.initials: NE
authors.lastname: Davey
mesh_terms: D000595:Amino Acid Sequence; D035843:Biomedical Research; D019295:Computational Biology / Q000379:methods / Q000706:statistics & numerical data*; D003196:Computer Graphics; D030562:Databases, Protein; D066264:Datasets as Topic / Q000706:statistics & numerical data*; D019143:Evolution, Molecular; D006801:Humans; D020407:Internet; D016415:Sequence Alignment; D014584:User-Computer Interface