We propose to expand a pilot project to develop a high density gene copy number micro-array based on low complexity genomic representations. Such a tool will lead to improved classification of cancers, which will likely impact all areas of cancer diagnosis and treatment, and be an enormous boon to the discovery of cancer causing genes. We are poised to scale up from arrays of a thousand probes to sets of probes in excess of 30,000 that can be rapidly mapped to very high resolution in array format. Our method will be able to resolve changes in the genome with a resolution of every 50 to 100 kilobases. Moreover, we believe that we can significantly enhance the closure of human genome sequencing project by providing independently derived BAC contigs and probes for gaps in the existing BAC maps.

Agency
National Institute of Health (NIH)
Institute
National Cancer Institute (NCI)
Type
Exploratory/Developmental Grants Phase II (R33)
Project #
2R33CA081674-02
Application #
6200166
Study Section
Special Emphasis Panel (ZCA1-SRRB-C (M1))
Program Officer
Gallahan, Daniel L
Project Start
1999-05-01
Project End
2003-07-31
Budget Start
2000-08-04
Budget End
2001-07-31
Support Year
2
Fiscal Year
2000
Total Cost
$750,111
Indirect Cost
Name
Cold Spring Harbor Laboratory
Department
Type
DUNS #
065968786
City
Cold Spring Harbor
State
NY
Country
United States
Zip Code
11724
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Healy, John; Thomas, Elizabeth E; Schwartz, Jacob T et al. (2003) Annotating large genomes with exact word matches. Genome Res 13:2306-15
Lucito, Robert; Healy, John; Alexander, Joan et al. (2003) Representational oligonucleotide microarray analysis: a high-resolution method to detect genome copy number variation. Genome Res 13:2291-305