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TAGOPSIN: collating taxa-specific gene and protein functional and structural information
Eshan Bundhoo1, Anisah W Ghoorah2, Yasmina Jaufeerally-Fakim1
1Department of Agricultural and Food Science, Faculty of Agriculture, University of Mauritius, Reduit, 80837, Mauritius.
BMC Bioinformatics
|October 24, 2021
Summary
TAGOPSIN is a new Java program that systematically retrieves and integrates data from seven major biological databases. This tool streamlines comparative genomics and protein structure studies by creating a unified data warehouse for easier analysis.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Public biological databases offer vast information for gene, genome, and protein analysis.
- Current data retrieval across multiple databases is often unsystematic and repetitive.
- Need for efficient tools to integrate diverse biological data for research.
Purpose of the Study:
- To develop a command-line program for systematic data retrieval from multiple biological databases.
- To facilitate integrated analysis for comparative genomics and protein structure studies.
- To create a unified data resource for various biological applications.
Main Methods:
- Developed TAGOPSIN (TAxonomy, Gene, Ontology, Protein, Structure INtegrated), a Java-based command-line tool.
- Integrated data from seven popular public biological databases.
- Tested the program with diverse organisms including eukaryotes, prokaryotes, and viruses.
Main Results:
- TAGOPSIN enables rapid and systematic retrieval of organism-centered data.
- Successfully integrated data for Homo sapiens and human coronavirus, demonstrating broad applicability.
- Created a consolidated data warehouse for enhanced biological research.
Conclusions:
- TAGOPSIN provides efficient data integration, simplifying the manipulation of interconnected biological information.
- Facilitates interspecific comparative analyses of protein-coding genes and identification of taxa-specific protein structures.
- The program is available via GitHub under the GNU General Public License.
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