In this issue...
Also available in pdf.
1997 Santa Fe Highlights
Joint Genome Institute (JGI) Comes of Age
JGI and Bermuda Quality Sequence
Grants Awarded for JGI Collaboration
JGI Sequencing Clones
Sequencing at NIH NHGRI
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
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
NHGRI Initiates Mailing List
U.S. Genome Research Funding
Meeting Calendars & Acronyms
Genome and Biotechnology Meetings
Training Courses and Workshops
HGN archives and subscriptions
HGP Information home
JGI and "Bermuda-Quality" Sequence
The international sequencing community holds an annual meeting in Bermuda,
sponsored by the Wellcome Trust, DOE, and NIH to set standards for DNA sequence
with respect to cost, quality, timeliness of submission, and level of annotation.
For details, see "Policies on Release of Human Genomic Sequence Data".
Standards for JGI meet or exceed those for "Bermuda-quality."
- Sequencing targets: Megabase-sized (or larger) regions are the preferred targets to maximize biological impact.
- Coverage: Goal is to complete sequence continuity across a target region, as feasible (no more than 1 gap in 200 kb on average).
- Sequence accuracy: The acceptable error rate in finished sequence is 1 in 10,000 bases. JGI is using a rules-based approach for achieving this standard, which requires a minimum Phrap consensus value of 40 for each base and greater than 95% double-stranded coverage, with a minimum coverage of 2 high-quality reads with 1 read on the opposite strand.
- Clone assembly verification: Two independent approaches will be used to verify accuracy of a clone's finished sequence.
- Data submission and annotation: Minimum submission is the size of the starting clone, with 95% of sequence represented on both strands and all ambiguities resolved; sequences will be annotated to the extent feasible at the time of submission, largely automated; immediate release of finished annotated sequence.
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The electronic form of the newsletter may be cited in the following
Human Genome Program, U.S. Department of Energy,
Human Genome News (v9n3).