Patents by Inventor Charles M. Strom
Charles M. Strom 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: 20150299811Abstract: Provided herein are methods and compositions for detection of a nucleic acid target in a sample. The methods and compositions use primer directed amplification in conjunction with nucleic acid fragmentation. The methods have high sensitivity even in the presence of a large amount of non-target nucleic acid. Also provided are oligonucleotides and kits useful in the method. Exemplary nucleic acid targets are those with mutant gene sequence such as mutant sequence of the EGFR, APC, TMPRSS2, ERG and ETV1 genes.Type: ApplicationFiled: April 6, 2015Publication date: October 22, 2015Applicant: Quest Diagnostics Investments IncorporatedInventors: Heather R. Sanders, Kevin Z. Qu, Charles M. Strom, Richard A. Bender
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Patent number: 8999634Abstract: Provided herein are methods and compositions for detection of a nucleic acid target in a sample. The methods and compositions use primer directed amplification in conjunction with nucleic acid fragmentation. The methods have high sensitivity even in the presence of a large amount of non-target nucleic acid. Also provided are oligonucleotides and kits useful in the method. Exemplary nucleic acid targets are those with mutant gene sequence such as mutant sequence of the EGFR, APC, TMPRSS2, ERG and ETV1 genes.Type: GrantFiled: February 21, 2008Date of Patent: April 7, 2015Assignee: Quest Diagnostics Investments IncorporatedInventors: Heather R. Sanders, Kevin Z. Qu, Charles M. Strom, Richard A. Bender
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Publication number: 20150086996Abstract: The present invention provides aptamers that specifically bind to the EGF receptor in a sample, and diagnostic and analytical methods using those aptamers. In some embodiments, the aptamers include a 3? cap. In some embodiments, the 3? cap is an inverted deoxythymidine. In some embodiments the aptamers include a spacer and at least one moiety selected from the group consisting of binding pair member and a detectable label, wherein the spacer is attached to the 5?-end of the aptamer and the moiety is attached the 5? end of the spacer. In some embodiments the spacer is hexaethylene glycol. In some embodiments, the binding pair member biotin. In some embodiments the detectable label is a fluorophore.Type: ApplicationFiled: December 28, 2012Publication date: March 26, 2015Inventors: Chris Bock, Deborah Ayers, Malti P. Nikrad, Bharat Nathu Gawande, Jennifer C. Bertino, Weimin Sun, Charles M. Strom, Noh Jin Park
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Publication number: 20140377751Abstract: The present invention provides methods for analyzing large nucleic acids including chromosomes and chromosomal fragments. In one aspect, the present invention provides a method of nucleic acid analysis comprising the steps of (a) obtaining a sample of nucleic acid comprising at least one chromosome or fragment greater than about 1 000 base pairs in length and containing a target region; (b) creating an emulsion in which each drop of the emulsion contains an average of between about 0-2, 0-1.75, 0-1.5, 0-1.0, 0-0.75, 0-0.5, or fewer chromosomes or fragments of step (a), (c) performing emulsion PCR, (d) quantifying the number of emulsion droplets containing amplified nucleic acid from the target region; (e) calculating the ratio of droplets containing amplified nucleic acid from the target region to total droplets; and (f) comparing the ratio of step (e) to a reference ratio representing a known genotype.Type: ApplicationFiled: December 27, 2012Publication date: December 25, 2014Inventor: Charles M. Strom
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Patent number: 8871687Abstract: The present invention pertains to a method for determining a sequence of contiguous bases within a polynucleotide, the method relying on single-base primer extension using labeled dideoxynucleotide terminators. The primers are immobilized to solid supports (e.g. microspheres or two-dimensional arrays), allowing for the identification of the labeled terminator incorporated into each primer.Type: GrantFiled: September 26, 2008Date of Patent: October 28, 2014Assignee: Quest Diagnostics Investments IncorporatedInventor: Charles M. Strom
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Patent number: 8697399Abstract: The present invention provides methods of determining the size of a particular nucleic acid segment of interest in a sample of nucleic acids through fragmentation of DNA, size fractionation, an optional second fragmentation, and identification using a marker sequence. In particular aspects, an expansion or reduction of tandem repeat sequences can be detected. In further aspects, carriers and individuals afflicted with fragile X syndrome or other diseases associated with tandem repeats can be distinguished from normal individuals.Type: GrantFiled: April 11, 2007Date of Patent: April 15, 2014Assignees: Quest Diagnostics Investments Incorporated, US Genomics, Inc.Inventors: Donghui Huang, Charles M. Strom, Steven J. Potts, Jenny Ellen Rooke
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Patent number: 8492089Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: GrantFiled: February 16, 2011Date of Patent: July 23, 2013Assignee: Quest Diagnostics Investments IncorporatedInventors: Renius Owen, Charles M. Strom
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Publication number: 20130115595Abstract: Methods for determining the presence or absence of expansion of CGG repeat sequence in the FMR1 gene presence or absence of expansion of CCG repeat sequence in the FMR2 gene are provided. The methods are useful in identifying an individual with normal/intermediate, versus premutation or full mutation allele of FMR1 gene and FMR2 gene due to the expansion of CGG repeats and CCG repeats in the 5?-untranslated region respectively. The methods are also useful for screening newborns for fragile X syndrome or for screening women to determine heterozygosity status with full premutation of the CCG repeat tract. The methods are also useful in estimating the premutation and full mutation carrier frequency and estimating the prevalence of FXTAS AND FXPOI in a population. The methods are simple, rapid and require small amount of sample.Type: ApplicationFiled: February 4, 2011Publication date: May 9, 2013Applicant: QUEST DIAGNOSTICS INVESTMENTS INCORPORATEDInventors: Feras Hantash, Weimin Sun, David C. Tsao, Dana Marie Root, Charles M Strom
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Patent number: 8163480Abstract: The present invention provides methods of determining the size of a particular nucleic acid segment of interest in a sample of nucleic acids through fragmentation of DNA, size fractionation, an optional second fragmentation, and identification using a marker sequence. In particular aspects, an expansion or reduction of tandem repeat sequences can be detected. In further aspects, carriers and individuals afflicted with fragile X syndrome or other diseases associated with tandem repeats can be distinguished from normal individuals.Type: GrantFiled: October 5, 2006Date of Patent: April 24, 2012Assignees: Quest Diagnostics Investments Incorporated, US Genomics, Inc.Inventors: Donghui Huang, Charles M. Strom, Steven J. Potts, Jenny Ellen Rooke
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Publication number: 20110143957Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: ApplicationFiled: February 16, 2011Publication date: June 16, 2011Inventors: Renius Owen, Charles M. Strom
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Patent number: 7892743Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: GrantFiled: February 25, 2009Date of Patent: February 22, 2011Assignee: Quest Diagnostics Investments IncorporatedInventors: Renius X. Owen, Charles M. Strom
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Patent number: 7807359Abstract: Methods and compositions are described for use in the rapid and simultaneous screening of one or more samples for one or more mutations in the TPMT gene. The methods and compositions of the present invention can be used to rapidly determine if a mutation of the TPMT gene is present in the genome of a subject. Identifying which mutations are present in an individual allows the clinician to design an appropriate therapy using drugs metabolized by TPMT for that individual.Type: GrantFiled: December 1, 2006Date of Patent: October 5, 2010Assignee: Quest Diagnostics Investments IncorporatedInventors: Charles M. Strom, Feras M. Hantash
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Publication number: 20100167284Abstract: The present invention provides methods of determining the size of a particular nucleic acid segment of interest in a sample of nucleic acids through fragmentation of DNA, size fractionation, an optional second fragmentation, and identification using a marker sequence. In particular aspects, an expansion or reduction of tandem repeat sequences can be detected. In further aspects, carriers and individuals afflicted with fragile X syndrome or other diseases associated with tandem repeats can be distinguished from normal individuals.Type: ApplicationFiled: April 11, 2007Publication date: July 1, 2010Inventors: Donghui Huang, Charles M. Strom, Steven J. Potts, Jenny Ellen Rooke
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Publication number: 20090181378Abstract: Provided herein are methods and compositions for detection of a nucleic acid target in a sample. The methods and compositions use primer directed amplification in conjunction with nucleic acid fragmentation. The methods have high sensitivity even in the presence of a large amount of non-target nucleic acid. Also provided are oligonucleotides and kits useful in the method. Exemplary nucleic acid targets are those with mutant gene sequence such as mutant sequence of the EGFR, APC, TMPRSS2, ERG and ETV1 genes.Type: ApplicationFiled: February 21, 2008Publication date: July 16, 2009Inventors: Heather R. Sanders, Kevin Z. Qu, Charles M. Strom, Richard A. Bender
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Publication number: 20090155809Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: ApplicationFiled: February 25, 2009Publication date: June 18, 2009Inventors: Renius Owen, Charles M. Strom
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Publication number: 20090117541Abstract: Methods and compositions are described for use in the rapid and simultaneous screening of one or more samples for one or more mutations in the TPMT gene. The methods and compositions of the present invention can be used to rapidly determine if a mutation of the TPMT gene is present in the genome of a subject. Identifying which mutations are present in an individual allows the clinician to design an appropriate therapy using drugs metabolized by TPMT for that individual.Type: ApplicationFiled: December 1, 2006Publication date: May 7, 2009Inventors: Charles M. Strom, Feras M. Hantash
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Publication number: 20090088335Abstract: The present invention pertains to a method for determining a sequence of contiguous bases within a polynucleotide, the method relying on single-base primer extension using labeled dideoxynucleotide terminators. The primers are immobilized to solid supports (e.g. microspheres or two-dimensional arrays), allowing for the identification of the labeled terminator incorporated into each primer.Type: ApplicationFiled: September 26, 2008Publication date: April 2, 2009Inventor: Charles M. Strom
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Patent number: 7507539Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: GrantFiled: July 30, 2007Date of Patent: March 24, 2009Assignee: Quest Diagnostics Investments IncorporatedInventors: Renius Owen, Charles M. Strom
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Publication number: 20090035757Abstract: Provided are methods of determining differences between nucleic acids in a test sample and a reference sample. In certain embodiments the methods are used for detecting and mapping chromosomal or genetic abnormalities associated with various diseases or with predisposition to various diseases, or to detecting the phenomena of large scale copy number variants. In particular, provided are advanced methods of performing array-based comparative hybridization that allow reproducibility between samples and enhanced sensitivity by using the same detectable label for both test sample and reference sample nucleic acids. Invention methods are useful for the detection or diagnosis of particular disease conditions such as cancer, and detecting predisposition to cancer based on detection of chromosomal or genetic abnormalities and gene expression level. Invention methods are also useful for the detection or diagnosis of hereditary genetic disorders or predisposition thereto, especially in prenatal samples.Type: ApplicationFiled: July 30, 2007Publication date: February 5, 2009Inventors: Renius Owen, Charles M. Strom
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Publication number: 20080124709Abstract: The present invention provides methods of determining the size of a particular nucleic acid segment of interest in a sample of nucleic acids through fragmentation of DNA, size fractionation, an optional second fragmentation, and identification using a marker sequence. In particular aspects, an expansion or reduction of tandem repeat sequences can be detected. In further aspects, carriers and individuals afflicted with fragile X syndrome or other diseases associated with tandem repeats can be distinguished from normal individuals.Type: ApplicationFiled: October 5, 2006Publication date: May 29, 2008Inventors: Donghui Huang, Charles M. Strom, Steven J. Potts, Jenny Ellen Rooke