Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2011-01-04
2011-01-04
Moran, Marjorie (Department: 1631)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C702S019000, C536S023100
Reexamination Certificate
active
07863001
ABSTRACT:
The present invention relates to genetic markers whose expression is correlated with breast cancer. Specifically, the invention provides sets of markers whose expression patterns can be used to differentiate clinical conditions associated with breast cancer, such as the presence or absence of the estrogen receptor ESR1, and BRCA1 and sporadic tumors, and to provide information on the likelihood of tumor distant metastases within five years of initial diagnosis. The invention relates to methods of using these markers to distinguish these conditions. The invention also relates to kits containing ready-to-use microarrays and computer software for data analysis using the statistical methods disclosed herein.
REFERENCES:
patent: 5510270 (1996-04-01), Fodor et al.
patent: 5539083 (1996-07-01), Cook et al.
patent: 5545522 (1996-08-01), Van Gelder et al.
patent: 5556752 (1996-09-01), Lockhart et al.
patent: 5578832 (1996-11-01), Trulson et al.
patent: 5677125 (1997-10-01), Holt et al.
patent: 5716785 (1998-02-01), Van Gelder et al.
patent: 5891636 (1999-04-01), Van Gelder et al.
patent: 6028189 (2000-02-01), Blanchard
patent: 6057105 (2000-05-01), Hoon et al.
patent: 6107034 (2000-08-01), Wiegel
patent: 6203987 (2001-03-01), Friend et al.
patent: 6218122 (2001-04-01), Friend et al.
patent: 6271002 (2001-08-01), Linsley et al.
patent: 6342483 (2002-01-01), Holt et al.
patent: 6342491 (2002-01-01), Dey et al.
patent: 6358682 (2002-03-01), Jaffee et al.
patent: 6432707 (2002-08-01), Reed et al.
patent: 6455300 (2002-09-01), Htun et al.
patent: 6647341 (2003-11-01), Golub et al.
patent: 7171311 (2007-01-01), Dai et al.
patent: 2003/0086934 (2003-05-01), Botstein et al.
patent: 2003/0215805 (2003-11-01), Lillie et al.
patent: 2003/0224374 (2003-12-01), Dai et al.
patent: 2005/0048542 (2005-03-01), Baker
patent: 2006/0040302 (2006-02-01), Botstein et al.
patent: WO 98/33450 (1998-08-01), None
patent: WO 00/55173 (2000-09-01), None
patent: WO 01/05935 (2001-01-01), None
patent: WO 01/06013 (2001-01-01), None
patent: WO 01/46697 (2001-06-01), None
patent: WO 01/51628 (2001-07-01), None
patent: WO 02/16650 (2002-02-01), None
patent: WO 02/18646 (2002-03-01), None
patent: WO 02/085298 (2002-10-01), None
patent: WO 2005/086891 (2005-03-01), None
patent: WO 2006/015312 (2006-02-01), None
patent: WO 2006/084272 (2006-02-01), None
Agendia BV press release dated Feb. 5, 2007, for the MammaPrint® breast cancer prognosis test, available at http://www.agendia.com/en/Agendia/Press-Releases/Press-Release.
Alexe et al., 2006, “Breast cancer prognosis by combinatorial analysis of gene expression data,” Breast Cancer Research, Current Science 8: 1-20.
Alizadeh et al., 2000, “Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling,” Nature: 403: 503-511.
Beenken et al., 2001, “Molecurlar Biomarkers for Breast Cancer Prognosis: Coexpression of c-erbB-2 and p53”, Annals of Surgery 233:630-638.
Bendat & Piersol, Random Data Analysis and Measurement Procedures, 2ndEdition., Wiley Interscience. Chapter 4: p. 74-108.
Blanchard et al., 1996, “High-Density oligonucleotide arrays”, Biosensors and Bioelectronics 11:687-690.
Bonaldo et al., 1996, “Normalization and Subtraction: Two Approaches to Facilitate Gene Discovery”, Genome Research 6:791-806.
Casey et al., 1997, “The BRCA1 and BRCA2 breast cancer genes”, Curr Opin Oncol, 9:88-93.
Chappuis et al., 2000, “Clinico-pathological characteristics of BRCA1- and BRCA2-related breast cancer”, Semin Surg Oncol, 18:287-295.
Chirgwin et al., 1979, “Isolation of biologically active ribonucleic acid from sources enriched in ribionuclease”, Biochemistry 18:5294-5299.
Chu KC et al., 1996, “Recent trends in U.S. breast cancer incidence, survival, and mortality rates”, J Natl Cancer Inst, 88:1571-1579.
Cooper, 2001, “Applications of microarray technology in breast cancer research,” Breast Cancer Research 3:158-175.
Derisi et al., 1996, “Use of a cDNA microarray to analyse gene expression patterns in human cancer”, Nature Genetics 14:457-460.
Egholm et al., 1993, “PNA hybridizes to complementary oligonucleotides obeying the Watson-Crick hydrogen-bonding rules”, Nature 365:566-568.
Ewing et al., 2000, “Analysis of expressed sequence tags indicates 35,000 human genes”, Nature Genetics 25:232-234.
Ferguson et al., 1996, “A fiber-optic DNA biosensor microarray for the analysis of gene expression”, Nature Biotechnology 14:1681-1684.
Fodor et al., 1991, “Light-directed, spatially addressable parallel chemical synthesis”, Science 251:767-773.
Froehler et al., 1986, “Synthesis of DNA via deoxynucleoside H-phosphonate intermediates”, Nucleic Acids Research 14:5399-5407.
Gruvberger et al., 2001, “Estrogen Receptor Status in Breast Cancer is Associated with Remarkably Distinct Gene Express Patterns,” Cancer Research, American Association for Cancer Research: 61: 5979-5984.
Heldenfalk et al., 2001, “Gene-Expression Profiles in Hereditary Breast Cancer,” New England Journal of Medicine, Massachusetts Medical Society: 344: 539-548.
Hosmer & Lemeshow, Applied Logistic Regression, 2ndEdition. Chapter 5: p. 143-202, (2000).
Hughes et al., 2000, “Functional discovery via a compendium of expression profiles”, Cell, 102:109-126.
Hughes et al., 2001, “Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer”, Nature Biotechnology 19:342-347.
Jahkola et al., 1996, “Expression of Tenascin in Invasion Border of Early Breast Cancer Correlates with Higher Risk of Distant Metastasis,” Int J Cancer 69(6):445-447.
Jatoi et al., 1999, “Breast Cancer Screening”, The American Journal of Surgery 177:518-524.
Keys et al., 1983, “Clinical Oncology, Chapter 12 Breast Cancer,” Edited by: Philip Rubin, 6th edition, American Cancer Society pp. 120-128, 133, and 506.
Khan et al., 2001, “Classification and diagnostics prediction of cancers using gene expression profiling and artificial neural networks,” Nature Medicine: 7: 673-679.
Kononen et al., 1998, “Tissue microarrays for high-throughput molecular profiling of tumor specimens”, Nature Medicine 4:844-847.
Laird et al., 1999 “Deficiency of Conexin 43 Gap Junctions Is an Independend Maker for Breast Tumors.” Cancer Research 59:4104-4110.
Lander, 1996, “The new genomics: Global views of biology”, Science 274:536-539.
Li et al., “Role of Transforming Growth Factor beta 3 in Lymphatic Metastasis in Breast Center. Int. J. Cancer,” 1998, vol. 79, pp. 455-459.
Lockhart et al., 1996, “Expression monitoring by hybridization to high-density oligonucleotide arrays”, Nature Biotechnology 14:1675-1680.
Lukas et al., 2001, “Alternative and aberrant messenger RNA splicing of the mdm2 oncogene in invasive breast cancer”, Cancer Res, 61:3212-3219.
Luparello et al., “Tissue Inhibitor Metalloprotease (TIMP)-1 and Proliferative behavious of Clonal Breast Cancer Cell,” Breast Cancer Research and Treatment, 1999, vol. 54, pp. 235-244.
Marcus et al., 1996, “Hereditary breast cancer: pathobiology, prognosis, and BRCA1 and BRCA2 gene linkage”, Cancer, 77:697-709.
Maskos and Southern, 1992, “Oligonucleotide hybridizations on glass supports: a novel linker for oligonucleotide synthesis and hybridisation properties of oligonucleotides synthesised in situ”, Nucleic Acids Research 20:1679-1684.
McBride et al., 1983, “An investigation of several deoxynucleoside phosphoramidites useful for synthesizing deoxyoligonucleotides”, Tetrahedron Letters 24:245-248.
Miki et al., 1994, “A strong candidate for the breast and ovarian cancer susceptibility gene BRCA1”, Science, 266:66-71.
Nagase et al., 2000, “Prediction of the coding sequences
Bernards Rene
Dai Hongyue
Hart Augustinus A. M.
He Yudong
Linsley Peter S.
Christensen O'Connor Johnson & Kindness PLLC
Merck Sharp & Dohme Corp.
Moran Marjorie
Skibinsky Anna
The Netherlands Cancer Institute
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