Patents by Inventor Ghassan Ghandour
Ghassan Ghandour 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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Publication number: 20120289425Abstract: Systems and methods for identifying, confirming, mapping, and categorizing sample polymers, such as nucleic acid sequences, are provided. An estimation of the fraction of first and second polymers in a sample of polymers can be calculated by inputting a first hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the first polymer and inputting a second hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the second polymer. The estimation of the fraction of the first and second polymers in the sample of polymers can then be calculated by dividing the first hybridization value by a sum of the first and second hybridization values. Estimations of the fractions of alleles in a sample can be clustered to form a fraction pattern usable for identifying, confirming, mapping, and genotyping sample nucleic acids.Type: ApplicationFiled: May 18, 2012Publication date: November 15, 2012Applicant: Affymetrix, Inc.Inventor: Ghassan Ghandour
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Publication number: 20120258879Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, i.e., the heterozygote or either of the two homozygotes.Type: ApplicationFiled: November 15, 2011Publication date: October 11, 2012Applicant: AFFYMETRIX, INC.Inventors: Robert J. Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 8095323Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, i.e., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: GrantFiled: January 25, 2010Date of Patent: January 10, 2012Assignee: Affymetrix, Inc.Inventors: Robert J. Lipshutz, Ronald J. Sapolsky, Ghassan Ghandour
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Publication number: 20100286924Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, i.e., the heterozygote or either of the two homozygotes.Type: ApplicationFiled: January 25, 2010Publication date: November 11, 2010Applicant: AFFYMETRIX, INC.Inventors: ROBERT J. LIPSHUTZ, RONALD SAPOLSKY, GHASSAN GHANDOUR
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Patent number: 7674587Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, i.e., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: GrantFiled: February 16, 2007Date of Patent: March 9, 2010Assignee: Affymetrix, Inc.Inventors: Robert J. Lipshutz, Ronald J. Sapolsky, Ghassan Ghandour
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Publication number: 20080044920Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, i.e., the heterozygote or either of the two homozygotes.Type: ApplicationFiled: February 16, 2007Publication date: February 21, 2008Applicant: Affymetrix, INC.Inventors: Robert Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 7252948Abstract: This invention provides oligonucleotide based arrays and methods for speciating and phenotyping organisms, for example, using oligonucleotide sequences based on the Mycobacterium tuberculosis rpoB gene. The groups or species to which an organism belongs may be determined by comparing hybridization patterns of target nucleic acid from the organism to hybridization patterns in a database.Type: GrantFiled: February 4, 2005Date of Patent: August 7, 2007Assignee: Affymetrix, Inc.Inventors: Thomas R. Gingeras, David Mack, Mark S. Chee, Anthony J. Berno, Lubert Stryer, Ghassan Ghandour, Ching Wang
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Publication number: 20070043517Abstract: Systems and methods for identifying, confirming, mapping, and categorizing sample polymers, such as nucleic acid sequences, are provided. An estimation of the fraction of first and second polymers in a sample of polymers can be calculated by inputting a first hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the first polymer and inputting a second hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the second polymer. The estimation of the fraction of the first and second polymers in the sample of polymers can then be calculated by dividing the first hybridization value by a sum of the first and second hybridization values. Estimations of the fractions of alleles in a sample can be clustered to form a fraction pattern usable for identifying, confirming, mapping, and genotyping sample nucleic acids.Type: ApplicationFiled: July 7, 2006Publication date: February 22, 2007Applicant: Affymetrix, Inc.Inventor: Ghassan Ghandour
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Publication number: 20060204970Abstract: This invention provides oligonucleotide based arrays and methods for speciating and phenotyping organisms, for example, using oligonucleotide sequences based on the Mycobacterium tuberculosis rpoB gene. The groups or species to which an organism belongs may be determined by comparing hybridization patterns of target nucleic acid from the organism to hybridization patterns in a database.Type: ApplicationFiled: February 4, 2005Publication date: September 14, 2006Inventors: Thomas Gingeras, David Mack, Mark Chee, Anthony Berno, Lubert Stryer, Ghassan Ghandour, Ching Wang
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Patent number: 7099777Abstract: Systems and methods for identifying, confirming, mapping, and categorizing sample polymers, such as nucleic acid sequences, are provided. An estimation of the fraction of first and second polymers in a sample of polymers can be calculated by inputting a first hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the first polymer and inputting a second hybridization value indicative of hybridization affinity of the sample of polymers to polymers probes that are complementary to the second polymer. The estimation of the fraction of the first and second polymers in the sample of polymers can then be calculated by dividing the first hybridization value by a sum of the first and second hybridization values. Estimations of the fractions of alleles in a sample can be clustered to form a fraction pattern usable for identifying, confirming, mapping, and genotyping sample nucleic acids.Type: GrantFiled: January 11, 1999Date of Patent: August 29, 2006Assignee: Affymetrix, Inc.Inventor: Ghassan Ghandour
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Publication number: 20060177843Abstract: This invention provides oligonucleotide based arrays and methods for speciating and phenotyping organisms, for example, using oligonucleotide sequences based on the Mycobacterium tuberculosis rpoB gene. The groups or species to which an organism belongs may be determined by comparing hybridization patterns of target nucleic acid from the organism to hybridization patterns in a database.Type: ApplicationFiled: October 20, 2005Publication date: August 10, 2006Applicant: Affymetrix, INC.Inventors: Thomas Gingeras, David Mack, Mark Chee, Anthony Berno, Lubert Stryer, Ghassan Ghandour, Ching Wang
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Publication number: 20060110752Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, e g, the heterozygote or either of the two homozygotes.Type: ApplicationFiled: October 11, 2005Publication date: May 25, 2006Applicant: Affymetrix, INC.Inventors: Robert Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 6953663Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, e.g., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: GrantFiled: June 27, 2003Date of Patent: October 11, 2005Assignee: Affymetrix, Inc.Inventors: Robert J. Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 6924094Abstract: This invention provides oligonucleotide based arrays and methods for speciating and phenotyping organisms, for example, using oligonucleotide sequences based on the Mycobacterium tubercluosis rpoB gene. The groups or species to which an organism belongs may be determined by comparing hybridization patterns of target nucleic acid from the organism to hybridization patterns in a database.Type: GrantFiled: November 28, 2000Date of Patent: August 2, 2005Assignee: Affymetrix, Inc.Inventors: Thomas R. Gingeras, David Mack, Mark S. Chee, Anthony J. Berno, Lubert Stryer, Ghassan Ghandour, Ching Wang
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Publication number: 20050074793Abstract: The present invention provides defined sets of genes that are used for identification and diagnosis of metastatic cancer and other conditions in a biological sample. The defined sets of genes can also be used for prognosis evaluation of a patient based on the gene expression pattern of a biological sample.Type: ApplicationFiled: April 2, 2004Publication date: April 7, 2005Inventors: Keith Wilson, J. Rao, Sandy Markowitz, Ghassan Ghandour
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Patent number: 6586186Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, e.g., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: GrantFiled: August 24, 2001Date of Patent: July 1, 2003Assignee: Affymetrix, Inc.Inventors: Robert J. Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 6516276Abstract: Computer programs and computer-implemented methods are disclosed for extracting, analyzing and comparing data from biomolecular binding experiments. The invention receives a set of values corresponding to the interaction of one or more target samples with probes on one or more arrays of biomolecular probes, and uses the values to generate one or more probability values indicating the probability that a molecular species complementary to the probe set is not present in the target samples, or is present at levels greater than or less than one or more reference levels. The probability values are generated by comparing the values for individual probes in a probe set with values for a calibration set, which may include a null set, spiked probe sets, or housekeeping probe sets. Normalized experimental values are generated for sets of probes on the arrays using statistical methods. Data is output in the form of data files including normalized experimental values and probability values for probe sets in the arrays.Type: GrantFiled: June 18, 1999Date of Patent: February 4, 2003Assignee: EOS Biotechnology, Inc.Inventors: Ghassan Ghandour, Richard Glynne
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Publication number: 20020098496Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, e.g., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: ApplicationFiled: August 24, 2001Publication date: July 25, 2002Inventors: Robert J. Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 6300063Abstract: The present invention generally provides a rapid efficient method for analyzing polymorphic or biallelic markers, and arrays for carrying out these analyses. In general, the methods of the present invention employ arrays of oligonucleotide probes that are complementary to target nucleic acids which correspond to the marker sequences of an individual. The probes are typically arranged in detection blocks, each block being capable of discriminating the three genotypes for a given marker, e.g., the heterozygote or either of the two homozygotes. The method allows for rapid, automatable analysis of genetic linkage to even complex polygenic traits.Type: GrantFiled: May 8, 1997Date of Patent: October 9, 2001Assignee: Affymetrix, Inc.Inventors: Robert J. Lipshutz, Ronald Sapolsky, Ghassan Ghandour
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Patent number: 6228575Abstract: This invention provides oligonucleotide based arrays and methods for speciating and phenotyping organisms, for example, using oligonucleotide sequences based on the Mycobacterium tuberculosis rpoB gene. The groups or species to which an organism belongs may be determined by comparing hybridization patterns of target nucleic acid from the organism to hybridization patterns in a database.Type: GrantFiled: February 7, 1997Date of Patent: May 8, 2001Assignee: Affymetrix, Inc.Inventors: Thomas R. Gingeras, David Mack, Mark S. Chee, Anthony J. Berno, Lubert Stryer, Ghassan Ghandour, Ching Wang