In this issue... 

Also available in pdf.

1997 Santa Fe Highlights

• Patrinos Address 
• Joint Genome Institute (JGI) Comes of Age 
• JGI Sequencing 
• JGI Informatics 
• JGI and Bermuda Quality Sequence 
• Grants Awarded for JGI Collaboration 
• JGI Sequencing Clones 
• Sequencing Strategies,Tools 
• Gene-Discovery Resources 
• Sequencing at NIH NHGRI 
• Functional Genomics 
• Data Surge Challenges Informaticists 
• Genome Annotation: Informatics Advances Needed for Age of Functional Genomics 
• ELSI: Rapid Progress Accelerates Societal Impact of Genome Research 
• 1999 DOE HGP Meeting Set for California

Human Genome Project Administration

• New 5-Year Goals, Project Midpoint 
• DOE, NIH Discuss Informatics 
• JASON Group Review 
• BER Genome Instrumentation Research

In the News

• Private-Sector Sequencing Plan 
• Bang for the Buck: Government-Backed Research Underpins Potentially High Payoff Ventures 
• Palmisano Joins DOE OBER 
• DNA Files series to be on NPR 
• HUGO Addresses Sample Collection 
• Sickle Cell Mice May Lead to New Treatments 
• TIGR Sequencing 6 More Microbes 
• Tuberculosis Microbe Sequenced 
• C. Elegans Sequencing Nears Finish 
• HGMIS Website Restructured 
• cDNA Cloning Workshop Identifies Critical Issues 
• Survey Identifies Growing Need for Synchrotron Analyses 
• NCGR Announcements

Publications

• Report on Functional Consequences of Gene Expression 
• Book on Tuskegee Conference 
• Book Focuses on Biomarker Implications, Conference Proceedings 
• Genome Analysis Protocol Handbook

Software and the Internet

• Mouse Genome Informatics Release 2.0 
• New System Identifies Polymorphisms 
• DOE Supports Web Site for 1997 AAAS Genome Symposium 
• Expressed Human Genome Database

Funding

• DOE ELSI 
• NIH NHGRI 
• NHGRI Initiates Mailing List 
• U.S. Genome Research Funding

Meeting Calendars & Acronyms

• Genome and Biotechnology Meetings 
• Training Courses and Workshops 
• Acronyms

HGN archives and subscriptions   
HGP Information home 

DOE Refocuses Instrumentation Program

In April the DOE Office of Biological and Environmental Research (OBER) announced its interest in receiving new applications in genome instrumentation research for both substantial evolutionary improvements in current systems and revolutionary technologies for the post-2005 era. To stimulate contributions from investigators not previously involved in DOE's Human Genome Program, OBER invited applications from a broad range of scientists with backgrounds in biology, chemistry, physics, and engineering. At press time, preapplication response had been excellent.

DOE's transition to production sequencing has been based largely on gel electrophoresis, with data acquisition by laser-induced fluorescence. However, this in no way decreases the necessity for innovative long-term basic research in the area of instrumentation support for genome studies. In this context, OBER is refocusing its current Genome Instrumentation Program, taking stock of current progress and considering likely future needs. [See related article on Jason Review.]

To complete the human genome sequence within the available budget and time, substantial improvements in existing sequencing methods would be advantageous. Further, OBER places a strong emphasis on research directed to completely new approaches to genomic analysis. After 2005 the ongoing need will be for fast and cost-effective determination of DNA sequence to compare sequences among individual humans and also to determine the genomes of numerous organisms of biomedical and commercial interest. Additionally, with the continuing acquisition of this remarkable base of biological data, high-throughput experimental tools will be required to assist in a practical and useful understanding of gene function.

Specific Instrumentation Goals

• Approaches to determining DNA sequence more rapidly, accurately, and economically, particularly to increase current maximum read lengths at least 2.5 times to 2000 to 2500 bases.
• Instrumentation that integrates and more thoroughly automates DNA sequence determination (e.g., sample preparation, loading, and analysis) and data analysis. Priority will be placed on approaches that emphasize miniaturization and microfabrication.
• Approaches that (1) verify a previously determined DNA sequence's accuracy without having to redetermine its entire sequence and (2) provide economical error-checking and proofreading of newly determined DNA sequence.
• Tools that enable efficient comparison of a known DNA sequence with a related but previously undetermined DNA sequence.
• Techniques for determining the functions of large numbers of genes in parallel, particularly those that match the speed and volume of DNA sequence determination.

This solicitation was intended to stimulate research that tests the applicability of concepts unrelated to the standard instrumentation for gene sequencing. The emphasis is on basic science that will enable genomic studies in the next century, when genomic data will be widely available and the appetite for new data will be undiminished. Robust tools for using this information within new quantitative, mechanistic, and predictive biology will be paramount. Work supported within the redirected program will hasten the arrival of an epoch when ideas and experiments requiring genome-scale data are within the scope of investigator-initiated, hypothesis-driven science.[Charles G. Edmonds (301/903-0042, Fax: -0567,charles.edmonds@oer.doe.gov]

Note:
The solicitation was the topic of an editorial in the May 1 issue of Analytical Chemistry [70(9), 292A], in which Royce Murray (University of North Carolina, Chapel Hill) urged readers to think creatively about the role analytical chemists might play in fulfilling OBER goals.

For a complete description of DOE's genome instrumentation goals, see http://www.science.doe.gov/grants/ [Program Notice 98-16 and companion Notice LAB98-16 (may be listed under Closed Solicitation Notices)].

The electronic form of the newsletter may be cited in the following style:
Human Genome Program, U.S. Department of Energy, Human Genome News (v9n3).