Directed enrichment of genomic DNA for high-throughput...

Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid

Reexamination Certificate

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C435S091100, C435S091200

Reexamination Certificate

active

07993842

ABSTRACT:
The present invention provides microarrays of oligonucleotide primer pairs, and in particular, microarrays of primers that comprise at least one cleavable linkage. Also provided are methods to capture oligonucleotide primer pairs from one or more microarrays, and methods to use the captured oligonucleotide primer pairs, such as for amplification of a target polynucleotide sequence. In addition, methods of using a microarray to isolate, purify and/or amplify a target polynucleotide are provided.

REFERENCES:
patent: 5229273 (1993-07-01), Gottesman et al.
patent: 5445934 (1995-08-01), Fodor et al.
patent: 5616478 (1997-04-01), Chetverin et al.
patent: 5641658 (1997-06-01), Adams et al.
patent: 5677195 (1997-10-01), Winkler et al.
patent: 5695937 (1997-12-01), Kinzler et al.
patent: 5705628 (1998-01-01), Hawkins
patent: 5744305 (1998-04-01), Fodor et al.
patent: 5830663 (1998-11-01), Embleton et al.
patent: 5866330 (1999-02-01), Kinzler et al.
patent: 5898071 (1999-04-01), Hawkins
patent: 5958698 (1999-09-01), Chetverin et al.
patent: 6001568 (1999-12-01), Chetverin et al.
patent: 6010850 (2000-01-01), Weissman et al.
patent: 6375903 (2002-04-01), Cerrina et al.
patent: 6383743 (2002-05-01), Kinzler et al.
patent: 6498013 (2002-12-01), Velculescu et al.
patent: 6534262 (2003-03-01), McKernan et al.
patent: 7645866 (2010-01-01), Smith et al.
patent: 2002/0009729 (2002-01-01), McGall et al.
patent: 2004/0185484 (2004-09-01), Costa et al.
patent: 2005/0227263 (2005-10-01), Green et al.
patent: 2005/0244885 (2005-11-01), Wolber et al.
patent: 2005/0287585 (2005-12-01), Oleinikov
patent: 2006/0024681 (2006-02-01), Smith et al.
patent: 2006/0035218 (2006-02-01), Oleinikov
patent: 2006/0046251 (2006-03-01), Sampson et al.
patent: 2007/0026438 (2007-02-01), Smith et al.
patent: 2007/0172839 (2007-07-01), Smith et al.
patent: 2008/0286795 (2008-11-01), Kawashima et al.
patent: 1 256 632 (2002-11-01), None
patent: 1 518 937 (2005-03-01), None
patent: WO-91/07486 (1991-05-01), None
patent: WO-00/18957 (2000-04-01), None
patent: WO-00/53812 (2000-09-01), None
patent: WO 2004/069849 (2004-08-01), None
patent: WO 2005/010145 (2005-02-01), None
patent: WO 2005/065814 (2005-07-01), None
patent: WO 2007/002890 (2007-01-01), None
patent: WO 2007/087291 (2007-01-01), None
Adessi, C et al., “Solid Phase DNA Amplification: characterisation of primer attachment and amplification mechanisms”,Nuc Acids Researchvol. 28 (20 e87) 2000 , pp. 1-8.
Nuwaysir, E et al., “Gene Expression Analysis Using Oligonucleotide Arrays Produced by Maskless Photolithography”,Genome Research2002 , pp. 1749-1755.
PCT/US2007/007112, , “International Search Report”, Aug. 1, 2007 , pp. 1-3.
Raghavendra, N et al., “Exogenous AdoMet and its analogue sinefungin differentially influence DNA cleavage by R.EcoP151—Usefulness in SAGE”,Biochem and Biophysical Research Communications334 2005 , pp. 803-811.
Tucholski, J et al., “Two intertwined methylation activities of Mmel restriction-modification class-IIS system from Methylophilus methylotrophus”,Gene223 1998 , pp. 290-302.
Butz, J., et al., “Characterization of Mutations and Loss of Heterozygosity of p53 and K-ras2 in Pancreatic Cancer Cell Lines by Immobilized Polymerase Chain Reaction,”BMC Biotechnol., 3(11)(2003). [online] Retrieved from the Internet <URL: http://www.biomedcentral.com/1472-6750/3/11>.
Butz, J.A., et al., “Detection of Allelic Variations of Human Gene Expression by Polymerase Colonies,”BMC Genet. 5(3)(2004). [online] Retrieved from the Internet <URL: http://www.biomedcentral.com/1471-2156/5/3>.
Dahl, F., et al., “Multiplex Amplification Enabled by Selective Circularization of Large Sets of Genomic DNA Fragments,”Nucleic Acids Res., 33(8) (2005).
Dressman, D., et al., “Transforming Single DNA Molecules into Fluorescent Magnetic Particles for Detection and Enumeration of Genetic Variations,”Proc. Natl. Acad. Sci. U S A, 100(15): 8817-8822 (2003).
Jiang, D., et al., “Characterization ofEscherichia coliEndonuclease VIII,”J. Biol. Chem., 272(51): 32230-32239 (1997).
Kwiatkowski, M., et al., “Inversion of In Situ for Synthesized Oligonucleotides: Improved Reagents for Hybridization and Primer Extension in DNA Microarrays,”Nucleic Acids Res., 27(24): 4710-4714 (1999).
Lindahl, T., et al., “DNAN-Glycosidases: Properties of Uracil—DNA Glycosidase fromEscherichia coli,” J. Biol. Chem., 252(10): 3286-3294 (1977).
Lindahl, T., “DNA Repair Enzymes,”Annu. Rev. Biochem., 51: 61-64 (1982).
Mag, M., et al., “Synthesis and Selective Cleavage of an Oligodeoxynucleotide Containing a Bridged Internucleotide 5′-phosphorathioate Linkage,”Nucleic Acids Res., 19(7):1437-1441 (1991).
Melamede, R.J., et al., “Isolation and Characterization of Endonuclease VIII fromEscherichia coli,” Biochem., 33: 1255-1264 (1994).
Mitra, R.D. and Church, G.M., “In Situ Localized Amplification and Contact Replication of Many Individual DNA Molecules,”Nucleic Acids Res., 27(24) (1999).
Mitra, R.D., et al., “Digital Genotyping and Haplotyping with Polymerase Colonies,”Proc. Natl. Acad. Sci. U S A, 100(10): 5926-5931 (2003).
Shendure, J., et al., “Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome,”Science, 309:1728-1732 (2005).
Sontheimer, E.J., “Bridging Sulfur Substitutions in the Analysis of Pre-mRNA Splicing,”Methods, 18: 29-37 (1999).
Velculescu, V.E., et al., “Serial Analysis of Gene Expression,”Science, 270(5235): 484-487 (1995).
Vyle, J.S., et al., “Sequence- and Strand-Specific Cleavage in Oligodeoxyribonucleotides and DNA Containing 3′-Thiothymidine,”Biochem., 31: 3012-3018 (1992).
Wang, T.-L., et al., “Digital Karyotyping,”Proc. Natl. Acad. Sci. U S A, 99(25):16156-16161 (2002).
Bentley, D et al., Accurate whole human genome sequencing using reversible terminator chemistry, Nature, Supplementary Information, pp. 1-55 (2008).
Bentley, D et al., Accurate whole human genome sequencing using reversible terminator chemistry, Nature, vol. 456(6), pp. 53-59 (2008).
Chiu, K-P et al., Intracellular Amplification of Proviral DNA in Tissue Sections Using the Polymerase Chain Reaction, J. Histochemistry and Cytochemistry, vol. 40(3), pp. 333-341 (1992).
Quail, M. et al., Improved Protocols for the Illumina Genome Analyzer Sequencing System, Current Protocols in Human Genetics, Supplement 62, John Wiley & Sons, Inc., Unit 18.2.1-18.2.27 (2009).

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