Methods for identifying DNA copy number changes

Data processing: measuring – calibrating – or testing – Measurement system in a specific environment – Biological or biochemical

Reexamination Certificate

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C702S020000, C703S011000, C707S793000, C435S006120, C536S024500

Reexamination Certificate

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07822555

ABSTRACT:
Methods of identifying allele-specific changes in genomic DNA copy number are disclosed. Methods for identifying homozygous deletions and genetic amplifications are disclosed. An array of probes designed to detect presence or absence of a plurality of different sequences is also disclosed. The probes are designed to hybridize to sequences that are predicted to be present in a reduced complexity sample. The methods may be used to detect copy number changes in cancerous tissue compared to normal tissue. The methods may be used to diagnose cancer and other diseases associated with chromosomal anomalies.

REFERENCES:
patent: 5427932 (1995-06-01), Weier
patent: 5447841 (1995-09-01), Gray
patent: 5472842 (1995-12-01), Stokke
patent: 5633365 (1997-05-01), Stokke
patent: 5665549 (1997-09-01), Pinkel et al.
patent: 5721098 (1998-02-01), Pinkel
patent: 5801021 (1998-09-01), Gray
patent: 5830645 (1998-11-01), Pinkel
patent: 5840482 (1998-11-01), Gray
patent: 5856097 (1999-01-01), Pinkel et al.
patent: 5965362 (1999-10-01), Pinkel et al.
patent: 5976790 (1999-11-01), Pinkel et al.
patent: 6159685 (2000-12-01), Pinkel
patent: 6180349 (2001-01-01), Ginzinger et al.
patent: 6261770 (2001-07-01), Warthoe
patent: 6261775 (2001-07-01), Bastian
patent: 6268142 (2001-07-01), Duff
patent: 6268184 (2001-07-01), Gray
patent: 6277563 (2001-08-01), Shayesteh
patent: 6280929 (2001-08-01), Gray
patent: 6309822 (2001-10-01), Fodor et al.
patent: 6326148 (2001-12-01), Pauletti et al.
patent: 6335167 (2002-01-01), Pinkel et al.
patent: 6358683 (2002-03-01), Collins
patent: 6365353 (2002-04-01), Lorch
patent: 6432648 (2002-08-01), Blumenfeld
patent: 6444426 (2002-09-01), Short
patent: 6451529 (2002-09-01), Jensen
patent: 6455258 (2002-09-01), Bastian et al.
patent: 6455280 (2002-09-01), Edwards
patent: 6465180 (2002-10-01), Bastian
patent: 6465182 (2002-10-01), Gray
patent: 6468744 (2002-10-01), Cronin et al.
patent: 6475732 (2002-11-01), Shayesteh
patent: 6500612 (2002-12-01), Gray
patent: 6562565 (2003-05-01), Pinkel
patent: 6596479 (2003-07-01), Gray
patent: 6617137 (2003-09-01), Dean
patent: 6664057 (2003-12-01), Albertson
patent: 2002/0165345 (2002-11-01), Cohen
patent: 2004/0137473 (2004-07-01), Wigler et al.
patent: WO 97/10365 (1997-03-01), None
patent: WO 99/23256 (1999-05-01), None
patent: WO 2004/058945 (2004-07-01), None
Huang et al. Genome Research 2004 1(4) 287-299.
Draghici; Drug Discovery Today, vol. 7, pp. S55-63, Jun. 2002.
Kaminski et al; American Journal of Respiratory Cell and Molecular Biology, vol. 27, pp. 125-132, Aug. 2002.
Mohapatra et al; Analyses of Brain Tumor Cell Lines Comfirm a Simple Model of Relationships Among Fluorescence in Situ Hybridization, DNA Index, and Comparative Genomic Hybridization, 1997, Genes, Chromosomes, and Cancer; vol. 20, pp. 311-319.
Wodicka et al; Nature Biotechnology, 15, 1359-1367, 1997.
Zhou et al; BMC Bioinformatics, vol. 3, Jan. 2002.
Buckley et al., A Full-coverage, High-resolution Human Chromosome 22 Genomic Mircroarray for Clinical and Research Applications. Human Molecular Genetics, 2002, 3221-3229, vol. 11(5).
Dumur et al., Genome-wide Detection of LOH in Prostate Cancer Using Human SNP Microarray Technology. Genomics, 2003, 260-269, vol. 81.
Kallioniemi et al., Comparative Genomic Hybridization: A Powerful New Method for Cytogenetic Analysis of Solid Tumors. Science, 1992, 818-821, vol. 258.
Kennedy et. al., Large-scale Genotyping of Complex DNA. Nature Biotechnology, Oct. 2003, 1233-1237, vol. 21 (10).
Klein et al., Comparative Genomic Hybridization, Loss of Heterozygosity, and DNA Sequence Analysis of Single Cells, Proc Natl Acad Sci, 1999, 4494-4499, vol. 96.
Lindblad-Toh et al., Loss of Heterozygosity Analysis of Small Cell Lung Carcinomas Using Single-Nucleotide Polymorphism Arrays. Nature Biotechnology, Sep. 2000, 1001-1005, vol. 18.
Lucito et al., Representational Oligonucleotide Microarray Analysis: A High-Resolution Method to Detect Genome Copy Number Variation. Genome Research, 2003, 2291-2305, vol. 13 (10).
Lucito et al., Detecting Gene Copy Number Fluctuations in Tumor Cells by Microarray Analysis of Genomic Representations. Genome Research, 2000, 1726-1736, vol. 10(11).
Lucito et al., Genetic Analysis Using Genomic Representations. Proc Natl Acad Sci, Apr. 1998, 4487-4492, vol. 95.
Mei et al., Genome-wide Detection of Allelic Imbalance Using Human SNPs and High-density DNA Arrays. Genome Research. 2000, 1126-1137, vol. 10 (8).
Pinkel et al., High Resolution Analysis of DNA Copy Number Variation Using Comparative Genomic Hybridization to Microarrays. Nature Genetics, 1998, 207-211, vol. 20.
Pollack et al., Microarray Analysis Reveals a Major Direct Role of DNA Copy Number Alterations in the Transcriptional Program of Human Breast Tumors. Proc Natl Acad Sci, Oct. 2002, 12963-12968, vol. 99 (20).
Schubert et al., Single Nucleotide Polymorphism Array Analysis of Flow-Sorted Epithelial Cells from Frozen Versus Fixed Tissues for Whole Genome Analysis of Allelic Loss in Breast Cancer. Am J Pathol, 2002, 73-79, vol. 160.
Snijders et al., Assembly of Microarrays for Genome-wide Measurement of DNA Copy Number. Nature Genetics, 2001, 263-264, vol. 29.
Paez et al., Genome coverage and sequence fidenify of f29 polymerase-based multiple strand displacement whole genome apmplification, Nuc. Acids Research 32(9) e71 pp. 1-11.
Sebat et al., Large-Scale Copy Number Polymorphism in the Human Genome, Science vol. 305 p. 525-28.
Laan, et al., Solid-phase minisequencing confirmed by Fish analysis in determination of gene copy number, Human Genetics, 96(3), 275-80, 1995.

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