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The Genome Sequence DataBase (GSDB): meeting the challenge of genomic sequencing | JoVE Visualize

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The Genome Sequence DataBase (GSDB): meeting the challenge of genomic sequencing

G Keen¹, J Burton, D Crowley

¹National Center for Genome Resources, Santa Fe, NM 87505, USA.

Nucleic Acids Research|January 1, 1996

View abstract on PubMed

Summary

The Genome Sequence Database (GSDB) offers public access to DNA sequences and annotations. It supports data contributions, community annotation, and SQL queries via a user-friendly interface.

Area of Science:

Bioinformatics
Genomics
Database Management

Background:

The National Center for Genome Resources (NCGR) maintains the Genome Sequence Database (GSDB).
GSDB is a publicly accessible relational database for DNA sequences and annotations.
It operates under a Cooperative Agreement with the US Department of Energy (DOE).

Purpose of the Study:

To provide a comprehensive and publicly available resource for genomic data.
To facilitate data contribution, community-driven annotation, and data retrieval.
To offer accessible tools for interacting with the genomic sequence database.

Main Methods:

Utilizing a relational database model for DNA sequences and annotations.
Implementing client-server architecture for direct database access.
Developing a multi-platform graphic user interface (GSDB Annotator).

Main Results:

GSDB provides direct client-server access for data management and querying.
Community annotation and SQL queries are supported.
The GSDB Annotator and automatically updated database replicates are freely available.

Conclusions:

GSDB serves as a valuable, accessible resource for the genomics community.
The database architecture supports collaborative data enrichment and efficient retrieval.
Freely available tools enhance user accessibility and data utilization.

Data Management And Data Science

Database Systems

The Genome Sequence Database (gsdb): Meeting The Challenge Of Genomic Sequencing