The major goal of this Program Project is the development of robust, exportable technology for high throughput DNA sequencing, developed and tested in the context of a medium-scale production sequencing environment. The project builds upon the technology developed in the Smith laboratory at the University of Wisconsin (UW) over the past several years for an integrated system for sequencing comprised of three major parts: a high throughput robotics system for sample preparation, a novel electrophoresis platform for fluorescence-based automated DNA sequencing, and a software system for data analysis. Over 2 million bases of raw data have been produced with this system to data, including the reactions, electrophoresis and fluorescence detection, and the sequence data processing and base-calling. All of the technology is robust, modular, exportable, and available to the community. Average read lengths are >1000 bases. The Program Project is structured as a close collaboration with the chromosome 19 mapping group at Lawrence Livermore National Laboratory, who are responsible for producing contiguous sequence-ready clones covering a region of 10 Mb of human DNA on chromosome 19 and 2 Mb of synthetic mouse DNA. Two major emphases of the technology development efforts are a) increasing throughput of the automated system to a level of 6 Mb/yr, and b) automated major aspects of the finishing process. The throughput of the integrated systems will be increased to a level of 6 Mb/yr by the end of the grant period, with staffing requirements of approximately 6 FTEs to operate at that level.

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Research Project (R01)
Project #
5R01HG001886-02
Application #
2889717
Study Section
Ethical, Legal, Social Implications Review Committee (GNOM)
Program Officer
Schloss, Jeffery
Project Start
1998-07-01
Project End
2001-05-31
Budget Start
1999-06-16
Budget End
2001-05-31
Support Year
2
Fiscal Year
1999
Total Cost
Indirect Cost
Name
University of Wisconsin Madison
Department
Chemistry
Type
Schools of Arts and Sciences
DUNS #
161202122
City
Madison
State
WI
Country
United States
Zip Code
53715