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SECOND GENERATION DNA SEQUENCE MANAGEMENT TOOLS

Award Information

Agency:
Department of Health and Human Services
Branch:
N/A
Award ID:
60209
Program Year/Program:
2002 / SBIR
Agency Tracking Number:
HG002244
Solicitation Year:
N/A
Solicitation Topic Code:
N/A
Solicitation Number:
N/A
Small Business Information
GEOSPIZA, INC.
BOX 344, 2442 NW MARKET ST SEATTLE, WA 98107-
View profile »
Woman-Owned: No
Minority-Owned: No
HUBZone-Owned: No
 
Phase 2
Fiscal Year: 2002
Title: SECOND GENERATION DNA SEQUENCE MANAGEMENT TOOLS
Agency: HHS
Contract: 2R44HG002244-02
Award Amount: $1,091,651.00
 

Abstract:

The human genome project spurred the development of high throughput technologies, especially in the area of DNA sequencing. Not only has this effort produced a draft of the human genome, it's catalyzed development of an entire industry based on DNA sequencing and genomics. Since these technologies produce enormous amounts of data they depend on bioinformatics programs for data management. Phrap, Cross_Match, RepeatMasker and Consed are four programs that played an integral role in the human genome project and became accepted as standard. However, as the technology for sequencing has evolved, so too, have the applications. These new applications include sequencing additional genomes, EST cluster analysis, and genotyping and they have highlighted the need to update standard bioinformatics programs to meet the current needs of a broader community. In this project we will re-engineer Phrap, Cross_Match and Repeat Masker to improve performance by optimizing these algorithms and developing a hierarchical data file to store and manipulate assembled sequence data. Phrap and Cross_Match will also be modified to use XML-formatted data allowing users to apply constraints to sequence assembly. Lastly, we will develop a new program to review, edit, and manipulate sequences, thus giving users unprecedented control over their data.

Principal Investigator:

Todd M. Smith
2066334403
TODD@GEOSPIZA.COM

Business Contact:

Todd Smith
2066334403
TODD@GEOSPIZA.COM
Small Business Information at Submission:

GEOSPIZA, INC.
GEOSPIZA, INC. 3939 LEARY WAY, NW SEATTLE, WA 98107

EIN/Tax ID: 911894564
DUNS: N/A
Number of Employees: N/A
Woman-Owned: No
Minority-Owned: No
HUBZone-Owned: No