Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2007-07-24
2007-07-24
Riley, Jezia (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S007100, C435S007200, C436S518000, C436S536000, C536S023100, C536S024300, C536S024330
Reexamination Certificate
active
10622182
ABSTRACT:
Methods and compounds, including compositions therefrom, are provided for determining the sequence of nucleic acid molecules. The methods permit the determination of multiple nucleic acid sequences simultaneously. The compounds are used as tags to generate tagged nucleic acid fragments which are complementary to a selected target nucleic acid molecule. Each tag is correlative with a particular nucleotide and, in a preferred embodiment, is detectable by mass spectrometry. Following separation of the tagged fragments by sequential length, the tags are cleaved from the tagged fragments. In a preferred embodiment, the tags are detected by mass spectrometry and the sequence of the nucleic acid molecule is determined therefrom. The individual steps of the methods can be used in automated format, e.g., by the incorporation into systems.
REFERENCES:
patent: 4650750 (1987-03-01), Giese
patent: 4683202 (1987-07-01), Mullis
patent: 4709016 (1987-11-01), Giese
patent: 4762779 (1988-08-01), Snitman
patent: 4775619 (1988-10-01), Urdea
patent: 4942124 (1990-07-01), Church
patent: 4962020 (1990-10-01), Tabor et al.
patent: 4965349 (1990-10-01), Woo et al.
patent: 4994372 (1991-02-01), Tabor et al.
patent: 4997928 (1991-03-01), Hobbs, Jr.
patent: 5003059 (1991-03-01), Brennan
patent: 5118605 (1992-06-01), Urdea
patent: 5135870 (1992-08-01), Williams et al.
patent: 5149625 (1992-09-01), Church et al.
patent: 5262536 (1993-11-01), Hobbs, Jr.
patent: 5266466 (1993-11-01), Tabor et al.
patent: 5288644 (1994-02-01), Beavis et al.
patent: 5290925 (1994-03-01), Fino
patent: 5292873 (1994-03-01), Rokita et al.
patent: 5302509 (1994-04-01), Cheeseman
patent: 5324631 (1994-06-01), Helentjaris et al.
patent: 5346670 (1994-09-01), Renzoni et al.
patent: 5360819 (1994-11-01), Giese
patent: 5403708 (1995-04-01), Brennan et al.
patent: 5409811 (1995-04-01), Tabor et al.
patent: 5436130 (1995-07-01), Mathies et al.
patent: 5451463 (1995-09-01), Nelson et al.
patent: 5516931 (1996-05-01), Giese et al.
patent: 5547835 (1996-08-01), Köster
patent: 5602273 (1997-02-01), Giese et al.
patent: 5604097 (1997-02-01), Brenner
patent: 5604104 (1997-02-01), Giese et al.
patent: 5610020 (1997-03-01), Giese et al.
patent: 5622824 (1997-04-01), Köster
patent: 5635400 (1997-06-01), Brenner
patent: 5650270 (1997-07-01), Giese et al.
patent: 5654413 (1997-08-01), Brenner
patent: 5674716 (1997-10-01), Tabor et al.
patent: 5691141 (1997-11-01), Köster
patent: 5695934 (1997-12-01), Brenner
patent: 5700921 (1997-12-01), Westling et al.
patent: 5728526 (1998-03-01), George, Jr. et al.
patent: 5763175 (1998-06-01), Brenner
patent: 5821058 (1998-10-01), Smith et al.
patent: 5851765 (1998-12-01), Köster
patent: 5856097 (1999-01-01), Pinkel et al.
patent: 5863722 (1999-01-01), Brenner
patent: 5872003 (1999-02-01), Köster
patent: 5908745 (1999-06-01), Mirzabekov et al.
patent: 5952654 (1999-09-01), Giese
patent: 5962223 (1999-10-01), Whiteley et al.
patent: 6013431 (2000-01-01), Söderlund et al.
patent: 6027890 (2000-02-01), Ness et al.
patent: 6033909 (2000-03-01), Uhlmann et al.
patent: 6087095 (2000-07-01), Rosenthal et al.
patent: 6087186 (2000-07-01), Cargill et al.
patent: 6312893 (2001-11-01), Van Ness et al.
patent: 6576426 (2003-06-01), Southern et al.
patent: 2062454 (1992-09-01), None
patent: 127 154 (1984-12-01), None
patent: 251 786 (1988-01-01), None
patent: 300 730 (1989-01-01), None
patent: 360 940 (1990-04-01), None
patent: 401 821 (1990-12-01), None
patent: 502 595 (1992-09-01), None
patent: 514 927 (1992-11-01), None
patent: 539 343 (1993-04-01), None
patent: 639 647 (1995-02-01), None
patent: 351138 (1995-03-01), None
patent: 711 362 (1996-05-01), None
patent: 06-289018 (1994-10-01), None
patent: WO 89/12694 (1989-12-01), None
patent: WO 90/13666 (1990-11-01), None
patent: WO 92/02528 (1992-02-01), None
patent: WO 92/02638 (1992-02-01), None
patent: WO 92/10587 (1992-06-01), None
patent: WO 93/20233 (1993-10-01), None
patent: WO 93/20236 (1993-10-01), None
patent: WO 93/21340 (1993-10-01), None
patent: WO 94/08051 (1994-04-01), None
patent: WO 94/16101 (1994-07-01), None
patent: WO 94/21822 (1994-09-01), None
patent: WO 94/28418 (1994-12-01), None
patent: WO 95/04160 (1995-02-01), None
patent: WO 95/06752 (1995-03-01), None
patent: WO 95/11961 (1995-05-01), None
patent: WO 95/14108 (1995-05-01), None
patent: WO 95/25737 (1995-09-01), None
patent: WO 95/28640 (1995-10-01), None
patent: WO 96/00378 (1996-01-01), None
patent: WO 96/22966 (1996-08-01), None
Abdel-Baky, S. et al., “Detection of Electrophore-Labeled DNA and Albumin by Gas Chromatography: Labile Amide Electrophoric Release Tags,”Anal. Chem.65: 498-499, 1993.
Eggers and Ehrlich, “A Review of Microfabricated Devices for Gene-Based Diagnostics,”Hematologic Pathology 9(1): 1-15, 1995.
Toren, P.C. et al., “Determination of Impurities in Nucleoside 3′-Phosphoramidites by Fast Atom Bombardment Mass Spectrometry,”Analytical Biochemistry 152(2): 291-294, Feb. 1986.
Aebersold et al., “Design, synthesis, and characterization of a protein sequencing reagent yielding amino acid derivatives with enhanced detectability by mass spectrometry,”Protein Science 1(4):494-503, Apr. 1992.
Amankwa and Kuhr, “Trypsin-Modified Fused-Silica Capillary Microreactor for Peptide Mapping by Capillary Zone Electrophoresis,”Anal. Chem. 64:1610-1613, 1992.
Baldwin et al., “Synthesis of a Small Molecule Combinatorial Library Encoded with Molecular Tags,”J. Am. Chem. Soc. 117:5588-5589, 1995. (+Supplementary Material, 21 pages).
Borchardt and Still, “Synthetic Receptor Binding Elucidated with an Encoded Combinatorial Library,”J. Am. Chem. Soc. 116:373-374, 1994.
Brown et al., “A single-bead decode strategy using electrospray ionization mass spectrometry and a new photolabile linker: 3-Amino-3-(2-nitrophenyl)propionic acid,”Molecular Diversity 1:4-12, 1995.
Ching et al., “Polymers as Surface-Based Tethers with Photolytic Triggers Enabling Laser-Induced Release/Desorption of Covalently Bound Molecules,”Bioconjugated Chemistry 7(5):525-528, 1996.
Ching et al., “Surface Chemistries Enabling Photoinduced Uncoupling/Desorption of Covalently Tethered Biomolecules,”J. Org. Chem. 61(11):3582-3583, May 31, 1996.
Church and Kieffer-Higgins, “Multiplex DNA Sequencing,”Science 240:185-188, 1988.
Church et al., “New Technologies For Genome Sequencing and Analysis,” inDOE Human Genome Program Contractor-Grantee Workshop V.Sante Fe, New Mexico, Jan. 28-Feb. 1, 1996, available NTIS, CONF-960143, 1996, p. 51.
Cobb and Novotny, “High-sensitivity peptide mapping by capillary zone electrophoresis and microcolumn liquid chromatography, using immobilized trypsin for protein digestion,”Anal. Chem.61:2226-2231, 1989.
Colombo, “Liquid-phase synthesis of naturally occurring peptides, II. Syntheses of three mast cell degranulating tetradecapeptide amides from wasp venoms,”Hoppe Seylers Z. Physiol. Chem.362(10):1393-1403, Oct. 1981.
Covey et al., “The determination of protein, oligonucleotide and peptide molecular weights by ion-spray mass spectrometry,”Rapid Commun. Mass. Spectrom.2(11):249-256 Nov. 1988.
Geysen et al., “Isotope or mass encoding of combinatorial libraries,”Chemistry&Biology 3(8):679-688, 1996.
Giese et al., “Electophore Mass Labels For TOS-MS DNA Sequencing,” inProceedings of the 44thASMS Conference on Mass Spectrometry and Allied Topics, Portland, Oregon, May 12-16, 1996, p. 673.
Giese, “Electrophoric release tags: ultrasensitive molecular labels providing multiplicity,”Trends in Analytical Chemistry 2(7):166-168, 1983.
Greenberg and Gilmore, “Cleavage of Oligonucleotides from Solid-Phase Supports Usingo-Nitrobenzyl Photochemistry,”J. Org. Chem.59:746-753, 1994.
Greenberg, “Photochemical Cleavage of Oligonucleotides From Solid Phase Supports,”Tetrahedron Letters 34(2):251-254, 1993.
Hig
Howbert J Jeffry
Mulligan John T
Ness Jeffrey Van
Tabone John C
Operon Biotechnologies, Inc.
Riley Jezia
SEED Intellectual Property Law Group PLLC
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