Database and system for storing, comparing and displaying genomic information

Patent 5966712 Issued on October 12, 1999. Estimated Expiration Date:

May 15, 2017. Estimated Expiration Date is calculated based on simple USPTO term provisions. It does not account for terminal disclaimers, term adjustments, failure to pay maintenance fees, or other factors which might affect the term of a patent.

Abstract Claims Description Full Text

Patent References

Method to discover genetic coding regions for complementary interacting proteins by scanning DNA sequence data banks
Patent #: 5523208
Issued on: 06/04/1996
Inventor: Kohler, et al.

Gene database retrieval system where a key sequence is compared to database sequences by a dynamic programming device
Patent #: 5706498
Issued on: 01/06/1998
Inventor: Fujimiya, et al.

Comparative gene transcript analysis Patent #: 5840484
Issued on: 11/24/1998
Inventor: Seilhamer, et al.

Inventors

Application

No. 857382 filed on 05/15/1997

US Classes:

707/104.1, Application of database or data structure (e.g., distributed, multimedia, image)435/6, Involving nucleic acid707/10Distributed or remote access

Examiners

Primary: Choules, Jack M.

Attorney, Agent or Firm

Beyer & Weaver, LLP

Foreign Patent References

WO 96/23078 WO. 08/13/1996

International Class

G06F 017/30

Abstract

Disclosed is a relational database system for storing and manipulating biomolecular sequence information, the database including genomic libraries for a plurality of types of organisms, the libraries having multiple genomic sequences, at least some of which represent open reading frames located along a contiguous sequence on each the plurality of organisms' genomes, and a user interface capable of receiving a selection of two or more of the genomic libraries for comparison and displaying the results of the comparison. The system also provides a user interface capable of receiving a selection of one or more probe open reading frames for use in determining homologous matches between such probe open reading frame(s) and the open reading frames in the genomic libraries, and displaying the results of the determination.

Other References

Keele J. E. et al. "A Conceptual Database Model for Genomic Research" Journal of Computational Biology, vol. 1, No. 1, pp. 65-75, 1994
Fickett, J. W. finding genes by computer the state of the art, TIG, vol. 12, No. 8. pp. 316-320, Sep. 1996
National Center for Biotechnology Information; UniGene. Internet--http://www3/ncbi.nlm.nih.gov/unigene (Downloaded Dec. 23, 1997)
National Center for Biotechnology Information; GenBank. Internet--http://www3.ncbi.nlm.nih.gov/web/genbank (Downloaded Dec. 23, 1997)
MAGPIE; Automated Genome Project Investigation Environment. Internet--http://www.mcs.anl.gov/home/gaasterl.magpie.html (Downloaded Dec. 23, 1997)
Stanford University, Stanford Genomic Resources. Internet--http://genome-www.stanford.edu, Sep. 22, 1996 and Dec. 20, 1997
Incyte Pharmaceuticals, LIFESEQ Version 4.2 Release Notes and Physical Data Model, Oct. 1996
Incyte Pharmaceuticals, LIFESEQ Version 3.4 Release Notes, Jan. 1996
Incyte Pharmaceuticals, LIFESEQ Version 2.5 Release Notes, Jun. 1995
Incyte Pharmaceuticals, LIFESEQ Version 3.0 Release Notes, Sep. 1995
Incyte Pharmaceuticals, LIFESEQ Version 4.0 Release Notes, Apr. 1996
Incyte Pharmaceuticals, Introduction to the LIFESEQ Database, Version 3.4, Jan. 1996
Incyte Pharmaceuticals, LIFESEQ Training Manual, Version 4.1, Jul. 1996
Matsubara, et al., "Identification of New Genes by Systematic Analysis of cDNAs and Database Construction", Current Opinion in Biology, vol. 4, pp. 672-677 (1993)
Lew, K., "GDB 6.0 Goals", http://gbd.gbdnet.ad.jp/gdb/docs/gdb6-goals.html., pp. 1-5 (Mar. 3, 1996)
The Institute for Genomic Research, TIGR Database. Internet--http://www.tigr.org (Downloaded Dec. 23, 1997)
National Center for Biotechnology Information (Index). Internet--http://www3.ncbi.nlm.nih.gov/ (Downloaded Dec. 23, 1997)
National Center for Biotechnology Information; ENTREZ. Internet--http://www3.ncbi.nlm.nih.gov/entrez (Downloaded Dec. 23, 1997)
Green, et al., "Ancient Conserved Regions in New Gene Sequences and the Protein Databases", Science, v. 259, n. 5102, pp. 1711-1716 (1993)
http://wehih.wehi.edu.au/ (1995)
Waldrop, et al., "On-line Archives Let Biologists Interrogate the Genome", Science, v. 269, n. 5229, pp. 1356-1358 (1995)
No Author, "Incyte Serves Up Information, part I", In Vivo the Business & Medicine Report, p. 32, ISSN: 0258-851X (1996)
Martin, et al., "Accessing Genetics Databases", Database, v. 17, n. 1, p. 51(8) (1994)
Kanehisa, M. "Toward Pathway Engineering: A New Database Old Genetic and Molecular Pathways." Science and Technology Japan, 1995, No. 59, pp. 34-38
Gaasterland, T. and Sensen, C. "Using Multiple Tools for Automated Genome Interpretation in a Integrated Environment", Trends In Genetics, Jan. 1996
Adams, M.D. et al. "Complementary DNA Sequencing: Expressed Sequence Tags and Human Genome Project", Science, Jun. 21, 1991, vol. 252, pp. 1651-1656
International Search Report for PCT/US97/22691 filed Dec. 11, 1997, Dated Aug. 18, 199