+ Site Statistics
+ Search Articles
+ PDF Full Text Service
How our service works
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ Translate
+ Recently Requested

ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences



ProViz-a web-based visualization tool to investigate the functional and evolutionary features of protein sequences



Nucleic Acids Research 44(W1): W11



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/.

Please choose payment method:






(PDF emailed within 0-6 h: $19.90)

Accession: 058628050

Download citation: RISBibTeXText

PMID: 27085803

DOI: 10.1093/nar/gkw265


Related references

ProViz: protein interaction visualization and exploration. Bioinformatics 21(2): 272-274, 2004

PHYSICO2: an UNIX based standalone procedure for computation of physicochemical, window-dependent and substitution based evolutionary properties of protein sequences along with automated block preparation tool, version 2. Bioinformation 11(7): 366-368, 2015

ProFAT: a web-based tool for the functional annotation of protein sequences. Bmc Bioinformatics 7: 466, 2006

VITCOMIC: visualization tool for taxonomic compositions of microbial communities based on 16S rRNA gene sequences. Bmc Bioinformatics 11: 332, 2010

Using evolutionary rates to investigate protein functional divergence and conservation. A case study of the carbonic anhydrases. Genetics 164(4): 1261-1269, 2003

Using zebrafish to investigate cypriniform evolutionary novelties: functional development and evolutionary diversification of the kinethmoid. Journal of Experimental Zoology. Part B Molecular and Developmental Evolution 308(5): 625-641, 2007

Kohonen map as a visualization tool for the analysis of protein sequences: multiple alignments, domains and segments of secondary structures. Computer Applications in the Biosciences 12(6): 447-454, 1996

Chromosomes, morphology, ecology and distribution of Sergentia baueri, spec. nov., S. prima Proviz & Proviz, 1997 and S. coracina Zett., 1824 (Insecta, Diptera, Chironomidae). Spixiana. 01 Marz; 221: 69-81, 1999

Chromosomes, morphology, ecology and distribution of Sergentia baueri, spec. nov., S. prima Proviz and Proviz, 1997 and S. coracina Zett.,1824 (Insecta, Diptera, Chironomidae). Spixiana 22(1): 69-81, 1999

Voroprot: an interactive tool for the analysis and visualization of complex geometric features of protein structure. Bioinformatics 27(5): 723-724, 2011

OCPAT: an online codon-preserved alignment tool for evolutionary genomic analysis of protein coding sequences. Source Code for Biology and Medicine 2: 5, 2007

False occurrences of functional motifs in protein sequences highlight evolutionary constraints. Bmc Bioinformatics 8: 68-68, 2007

FeatureViewer, a BioJS component for visualization of position-based annotations in protein sequences. F1000research 3(): 47-47, 2014

Hydrophobic cluster analysis of G protein-coupled receptors: a powerful tool to derive structural and functional information from 2D-representation of protein sequences. Journal of Receptor Research 13(1-4): 179-194, 1993

JavaProtein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure. Nucleic Acids Research 32(Web Server Issue): W595, 2004