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Introduction to the Workshop
URLs Provided by Attendees

Abstracts

Mapping

Informatics

Sequencing

Instrumentation

Ethical, Legal, and Social Issues

Infrastructure

The electronic form of this document may be cited in the following style:
Human Genome Program, U.S. Department of Energy, DOE Human Genome Program Contractor-Grantee Workshop IV, 1994.

Abstracts scanned from text submitted for November 1994 DOE Human Genome Program Contractor-Grantee Workshop. Inaccuracies have not been corrected.

The Genome Sequence Data Base (GSDB)

Jillian Burton, Michael J. Cinkosky, David Crowley, Ada Espinosa-Lujan, James W. Fickett, Timothy Gray, Carol Harger, Mohamad Ijadi, Gifford Keen, Michelle March, Mia McLeod, John O'Neill, Alicia Power, Mana Pumilia, David Rider, Jolene Schwertfeger, Nina Thayer, Jennifer Tipton, Charles D. Troup and Shahar Tsadeek
National Center for Genome Resources (NCGR)
1800 Old Pecos Trail
Santa Fe, NM 87505
(505) 982-7840

The Genome Sequence Data Base (GSDB) is dedicated to supporting scientific research and development by creating, maintaining and distributing a complete, timely, accurate and useful collection of DNA sequences and related information. As an on-line, client-server, relational database, GSDB operates as part of the DOE federated information infrastructure and focuses on meeting the needs of the major genome sequencing laboratories. GSDB is a direct outgrowth of the Los Alamos National Laboratory component of GenBank.

In cooperation with the other major DNA sequence databases (DDBJ, EMBL and GenBank), GSDB collects data directly from authors in many forms, including Authorin submissions. GSDB also supports two new methods of data collection, tailored to the needs of large-scale genome sequencing:

• Off-site user program. Anyone connected to the Internet can obtain an account on the GSDB database and run the Annotator's WorkBench (AWB) from their own computer to enter and edit data.
• Direct database updates. Centers with in-house Sybase expertise can write special applications that perform updates directly on the master database using client-server access.

GSDB may be accessed in the following ways:

• World Wide Web. The GSDB Web server (http://www.ncgr.org/gsdb) provides several different access mechanisms, including hyperlinked entry retrieval plus pre-written and ad hoc SQL queries.
• Client-server relational access. Anyone with a Sybase front-end license may access a read-only copy of the database at the NCGR using either generic database access tools or special-purpose programs.
• Relational satellites. For sites with more demanding requirements, local copies of the complete relational database may be installed and maintained automatically using the GSDB database replication system.

Additional information on the Genome Sequence Data Base may be obtained by sending email to gsdb@ncgr.org. GSDB software and documentation, including the complete relational schema manual, may be obtained by anonymous ftp from ftp.ncgr.org or through the Web server.