CDvist: A webserver for identification and visualization of conserved domains in protein sequences
Abstract
Identification of domains in protein sequences allows their assigning to biological functions. Several webservers exist for identification of protein domains using similarity searches against various databases of protein domain models. However, none of them provides comprehensive domain coverage while allowing bulk querying and their visualization schemes can be improved. To address these issues, we developed CDvist (a comprehensive domain visualization tool), which combines the best available search algorithms and databases into a user-friendly framework. First, a given protein sequence is matched to domain models using high-specificity tools and only then unmatched segments are subjected to more sensitive algorithms resulting in a best possible comprehensive coverage. In conclusion, bulk querying and rich visualization and download options provide improved functionality to domain architecture analysis.
- Authors:
-
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Univ. of Tennessee, Knoxville, TN (United States)
- Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Univ. of Tennessee, Knoxville, TN (United States); California Inst. of Technology (CalTech), Pasadena, CA (United States)
- Publication Date:
- Research Org.:
- Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1327624
- Grant/Contract Number:
- AC05-00OR22725
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Bioinformatics
- Additional Journal Information:
- Journal Volume: 31; Journal Issue: 9; Journal ID: ISSN 1367-4803
- Publisher:
- Oxford University Press
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; 97 MATHEMATICS AND COMPUTING
Citation Formats
Adebali, Ogun, Ortega, Davi R., and Zhulin, Igor B. CDvist: A webserver for identification and visualization of conserved domains in protein sequences. United States: N. p., 2014.
Web. doi:10.1093/bioinformatics/btu836.
Adebali, Ogun, Ortega, Davi R., & Zhulin, Igor B. CDvist: A webserver for identification and visualization of conserved domains in protein sequences. United States. https://doi.org/10.1093/bioinformatics/btu836
Adebali, Ogun, Ortega, Davi R., and Zhulin, Igor B. Thu .
"CDvist: A webserver for identification and visualization of conserved domains in protein sequences". United States. https://doi.org/10.1093/bioinformatics/btu836. https://www.osti.gov/servlets/purl/1327624.
@article{osti_1327624,
title = {CDvist: A webserver for identification and visualization of conserved domains in protein sequences},
author = {Adebali, Ogun and Ortega, Davi R. and Zhulin, Igor B.},
abstractNote = {Identification of domains in protein sequences allows their assigning to biological functions. Several webservers exist for identification of protein domains using similarity searches against various databases of protein domain models. However, none of them provides comprehensive domain coverage while allowing bulk querying and their visualization schemes can be improved. To address these issues, we developed CDvist (a comprehensive domain visualization tool), which combines the best available search algorithms and databases into a user-friendly framework. First, a given protein sequence is matched to domain models using high-specificity tools and only then unmatched segments are subjected to more sensitive algorithms resulting in a best possible comprehensive coverage. In conclusion, bulk querying and rich visualization and download options provide improved functionality to domain architecture analysis.},
doi = {10.1093/bioinformatics/btu836},
journal = {Bioinformatics},
number = 9,
volume = 31,
place = {United States},
year = {Thu Dec 18 00:00:00 EST 2014},
month = {Thu Dec 18 00:00:00 EST 2014}
}
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