Patents by Inventor Virginia Goss
Virginia Goss has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
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Patent number: 7363165Abstract: Microarrays can measure the expression of thousands of genes and thus identify changes in expression between different biological states. Methods are needed to determine the significance of these changes, while accounting for the enormous number of genes. We describe a new method, Significance Analysis of Microarrays (SAM), that assigns a score to each gene based on the change in gene expression relative to the standard deviation of repeated measurements. For genes with scores greater than an adjustable threshold, SAM uses permutations of the repeated measurements to estimate the percentage of such genes identified by chance, the false discovery rate (FDR). When the transcriptional response of human cells to ionizing radiation was measured by microarrays, SAM identified 34 genes that changed at least 1.5-fold with an estimated FDR of 12%, compared to FDRs of 60% and 84% using conventional methods of analysis. Of the 34 genes, 19 were involved in cell cycle regulation, and 3 in apoptosis.Type: GrantFiled: March 19, 2001Date of Patent: April 22, 2008Assignee: The Board of Trustees of the Leland Stanford Junior UniversityInventors: Virginia Goss Tusher, Robert Tibshirani, Gilbert Chu
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Publication number: 20060234267Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: March 20, 2006Publication date: October 19, 2006Applicant: AFFYMETRIX, INCInventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20060040380Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: October 26, 2005Publication date: February 23, 2006Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050208646Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: November 22, 2004Publication date: September 22, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050191630Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: August 11, 2003Publication date: September 1, 2005Applicant: AFFYMETRIX, INC., A Delaware Corporation.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050158819Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: October 27, 2004Publication date: July 21, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050106615Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: November 17, 2004Publication date: May 19, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050106617Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: November 22, 2004Publication date: May 19, 2005Applicant: Affymetrix, INC., A Delaware CorporationInventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050106618Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: December 16, 2004Publication date: May 19, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050089953Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: November 22, 2004Publication date: April 28, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050084895Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: November 2, 2004Publication date: April 21, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Publication number: 20050003421Abstract: A body 300 having a cavity 310 for mounting a substrate 120 fabricated with probe sequences at known locations according to the methods disclosed in U.S. Pat. No. 5,143,854 and PCT WO 92/10092 or others, is provided. The cavity includes inlets 350 and 360 for introducing selected fluids into the cavity to contact the probes. Accordingly, a commercially feasible device for use in high throughput assay systems is provided.Type: ApplicationFiled: June 25, 2004Publication date: January 6, 2005Applicant: Affymetrix, INC.Inventors: Donald Besemer, Virginia Goss, James Winkler
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Patent number: 6667394Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: GrantFiled: April 24, 2001Date of Patent: December 23, 2003Assignee: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin J. Goldberg, Richard P. Rava, Stephen P. A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler
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Publication number: 20030175409Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: ApplicationFiled: March 13, 2003Publication date: September 18, 2003Applicant: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin. J. Goldberg, Richard P. Rava, Stephen P.A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler
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Publication number: 20020147319Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: ApplicationFiled: April 24, 2001Publication date: October 10, 2002Applicant: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin J. Goldberg, Richard P. Rava, Stephen P.A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler
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Publication number: 20020019704Abstract: Microarrays can measure the expression of thousands of genes and thus identify changes in expression between different biological states. Methods are needed to determine the significance of these changes, while accounting for the enormous number of genes. We describe a new method, Significance Analysis of Microarrays (SAM), that assigns a score to each gene based on the change in gene expression relative to the standard deviation of repeated measurements. For genes with scores greater than an adjustable threshold, SAM uses permutations of the repeated measurements to estimate the percentage of such genes identified by chance, the false discovery rate (FDR). When the transcriptional response of human cells to ionizing radiation was measured by microarrays, SAM identified 34 genes that changed at least 1.5-fold with an estimated FDR of 12%, compared to FDRs of 60% and 84% using conventional methods of analysis. Of the 34 genes, 19 were involved in cell cycle regulation, and 3 in apoptosis.Type: ApplicationFiled: March 19, 2001Publication date: February 14, 2002Inventors: Virginia Goss Tusher, Robert Tibshirani, Gilbert Chu
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Patent number: 6239273Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: GrantFiled: October 26, 1999Date of Patent: May 29, 2001Assignee: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin J. Goldberg, Richard P. Rava, Stephen P. A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler
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Patent number: 5831070Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: GrantFiled: April 19, 1996Date of Patent: November 3, 1998Assignee: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin J. Goldberg, Richard P. Rava, Stephen P. A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler
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Patent number: 5599695Abstract: A method and apparatus for selectively applying a print material onto a substrate for the synthesis of an array of oligonucleotides at selected regions of a substrate. The print material includes a barrier material, a monomer sequence, a nucleoside, a deprotection agent, a carrier material, among other materials. The method and apparatus also relies upon standard DMT based chemistry, and a vapor phase deprotection agent such as solid TCA and the like.Type: GrantFiled: February 27, 1995Date of Patent: February 4, 1997Assignee: Affymetrix, Inc.Inventors: R. Fabian Pease, Glenn McGall, Martin J. Goldberg, Richard P. Rava, Stephen P. A. Fodor, Virginia Goss, Lubert Stryer, James L. Winkler