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Human Genome News Archive Edition

Human Genome News, Nov. 1994; 6(4):6

Stanford University DNA Sequence and Technology Center

STANFORD UNIVERSITY DNA SEQUENCE AND TECHNOLOGY CENTER (SUDSTC)
(NIH, established 1993)
RONALD W. DAVIS, Director
David Botstein, Co-Director
CONTACT: Jackie Couture (415/812-1968, Fax: -1975, couture@genome.stanford.edu); SUDSTC; 855 California Ave.; Palo Alto, CA 94304.
OTHER KEY RESEARCHERS
Pat Brown
Mike Cherry
Fred Dietrich
Richard Hyman
Rick Norgren
Peter Oefner
Victoria Smith

MAJOR GOALS

  • Development of a robust high-throughput sequencing methodology. Center efforts are divided into three parts: (1) automation, (2) sequencing, and (3) investigation of genome-wide approaches to analyzing biological function of uncharacterized DNA sequence.
  • Current sequencing efforts focus on sequencing all of chromosome V and half of chromosome IV from Saccharomyces cerevisiae as part of the international effort to sequence the entire yeast genome by 1996.

MAJOR ACCOMPLISHMENTS

  • Shotgun sequencing of about 540 kb (>95%) of yeast chromosome V and 300 kb of chromosome IV (average redundancy of 10).
  • Efficient DNA sequencing using automation and a 96-well format; two Applied Biosystems Inc. Catalyst robots, one Beckman Biomek 1000 robot with side loader, and five Applied Biosystems Inc. 373 sequencing robots used.
  • Development of software (Guile) for extending Biomek 1000 robot.
  • Development of the Saccharomyces Genome Database.
  • Construction of a prototype robotics system for automatic plaque and colony picking.
  • Design and construction of a rapid gel-pouring assembly and construction of a random-access microtiter plate server that can integrate with new instrumentation.
  • Completion of an automated multiplex oligonucleotide synthesizer that has produced about 7000 oligonucleotides.
  • Development of a new DNA-shearing instrument that yields uniform, cloning-efficient fragments.
  • Use of transposon mutagenesis in gene function studies.

AVAILABLE RESOURCES

  • Sequence data for most of yeast chromosome V and a large region of chromosome IV [Fred Dietrich (dietrich@genome.stanford.edu)].
  • Assistance in database development [Fabien Petel (fabien@genome.stanford.edu) and M. Cherry (cherry@genome.stanford.edu)].
  • Yeast Genome Information Server (genome.stanford.edu).
  • Saccharomyces Genome Database (415/725-8956, Fax: /723-7016; yeast-curator@genome.stanford.edu).
  • Information for Biomek 1000 software (ssmith@genome.stanford.edu), Applied Biosystems Inc. Catalyst software (jdc@genome.stanford.edu), oligonucleotide synthesizer (brennan@genome.stanford.edu), DNA shearing (oefner@genome.stanford.edu), image analysis and robotics (rick@genome.stanford.edu), base-calling software (aberno@genome.stanford.edu), gel slider pouring apparatus (lashkari@genome.stanford.edu), preparation of M13 libraries from poorly growing cosmids and lambda vectors (hyman@genome.stanford.edu).

HGMIS staff

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Human Genome Program, U.S. Department of Energy, Human Genome News (v6n4).

Human Genome Project 1990–2003

The Human Genome Project (HGP) was an international 13-year effort, 1990 to 2003. Primary goals were to discover the complete set of human genes and make them accessible for further biological study, and determine the complete sequence of DNA bases in the human genome. See Timeline for more HGP history.

Human Genome News

Published from 1989 until 2002, this newsletter facilitated HGP communication, helped prevent duplication of research effort, and informed persons interested in genome research.