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Human Genome News Archive Edition

Human Genome News, Nov. 1994; 6(4):10

University of Texas Southwestern Medical Center at Dallas

UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER AT DALLAS (UTSMCD)
(NIH, established 1990 at Salk Institute; relocated 1994)
GLEN A. EVANS, Director
Harold R. Garner, Associate Center Director
CONTACTS: Evans (214/648-1660, gevans@swmed.edu), Suzie Hayes, Administrative Services Officer (-1636), or Garner (-1661, garner@smed.edu); (Center Fax: -1666); UTSMCD; 6000 Harry Hines Blvd.; Dallas, TX 75235-8591.
OTHER KEY RESEARCHERS
Anne Bowcock
David Burbee
Kim Jackson
Michael Lovett
Shane Probst
Lori Romberg
Roger Schultz
Ron Scott
Sylvia Thomas

MAJOR GOALS

  • Development of a complete, contiguous, error-free physical map of human chromosome 11 at 100- to 200-kb resolution, based on sequence tagged site-content mapping and nonchimeric yeast artificial chromosome contigs.
  • Development of a high-resolution (1- to 5-kb) physical map of human chromosome 11 and selected other chromosomes based on genomic sequence sampling and contig ordering using direct-visualization fluorescence in situ hybridization.
  • Determination of the one-pass DNA sequence of 30% of chromosome 11.
  • Development of tools, instrumentation, and infrastructure for high-throughput automated DNA sequencing of human chromosome 11 and selected other regions of the human genome by parallel primer walking.
  • Development of informatics support, biocomputational tools, and infrastructure for high-throughput automated DNA sequencing of the human genome.
  • Development of additional new methods, technologies, and instrumentation for automated mapping and sequencing, including nanovolume sample processing and handling on DNA chips.
  • Production of resources necessary for rapid identification and functional characterization of biologically and medically important genes, including cDNA isolation and genotyping.

MAJOR ACCOMPLISHMENTS

  • Preparation of a collection of over 700 standardized sequence tagged sites, including random sequences mapped by somatic cell hybrid analysis or fluorescence in situ hybridization.
  • Isolation of over 900 yeast artificial chromosome clones (>1 Mb) and over 1000 chromosome 11-specific, nonchimeric yeast artificial chromosome clones regionally mapped to chromosome 11.
  • Development of a yeast artificial chromosome clone contig map of chromosome 11 with continuous coverage of 80% of the chromosome.
  • Development and application of directed end-cloning strategies to produce additional sequence tagged sites from the contig ends for gap filling.
  • Development of a novel and potentially rapid strategy for producing high-resolution physical maps and sequencing templates using parallel sequencing and clone fingerprinting (denoted genomic sequence sampling).
  • Development of two useful robotic systems, Prepper and GAS (Genome Automation System) for high-throughput sample processing.
  • Began development of advanced technology for nanovolume sample processing (Garner) and advanced sequencing using DNA microdevices and chips [in collaboration with Michael Heller (Nanogen, Inc., San Diego)].
  • Identification of the site of a novel suppressor oncogene active in cervical carcinoma at the distal end of chromosome 11.

AVAILABLE RESOURCES

  • Cosmids: Arrayed chromosome 11-specific libraries cSRL, 16,000 clones; c11q (11q13-11qter), 1200 clones. cCLM Giardia cosmid libraries, 12,000 clones, 2 hosts.
  • Yeast artificial chromosomes: Total genome libraries (St. Louis, Centre d'Etude du Polymorphisme Humain Mark I, Centre d'Etude du Polymorphisme Humain Mark VI to VII mega-base, Centre d'Etude du Polymorphisme Humain/Genethon "mega-yeast artificial chromosome"subset). Chromosome 11-specific library (T. Shows, RPMI, Buffalo, NY).
  • Sequence tagged sites: Over 700 sequence tagged sites produced by this lab and >1000 sequence tagged site for chromosome 11 (available online via Internet).
  • Cell hybrids: 15 cell hybrid chromosome 11 mapping panels; monochromosomal hybrids for all human chromosomes.
  • Instrumentation: Prepper, GAS, GIST (Genome Informatics System on Trans-puters), polymerase chain reaction system, Hyb system (Garner).

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.