Patents by Inventor Clement Chu
Clement Chu 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).
-
Publication number: 20230416729Abstract: High-fidelity, high-throughput nucleic acid sequencing enables healthcare practitioners and patients to gain insight into genetic variants and potential health risks. However, previous methods of nucleic acid sequencing often introduces sequencing errors (for example, mutations that arise during the preparation of a nucleic acid library, during amplification, or sequencing). Provided herein are sequencing adapters comprising a nondegenerate or variable length molecular barcode and compositions comprising a plurality of sequencing adapters, which can be useful for sequencing nucleic acids. Further provided are methods of using the sequencing adapters, including methods of sequencing nucleic acids, methods of identifying an error in a nucleic acid sequence, and methods of determining the number of nucleic acid molecules in a library.Type: ApplicationFiled: June 12, 2023Publication date: December 28, 2023Applicant: MYRIAD WOMEN'S HEALTH, INC.Inventors: Eric Andrew Evans, Imran Saeedul Haque, Kyle Beauchamp, Clement Chu, Carlo G. Artieri, Noah Welker
-
Patent number: 11708574Abstract: High-fidelity, high-throughput nucleic acid sequencing enables healthcare practitioners and patients to gain insight into genetic variants and potential health risks. However, previous methods of nucleic acid sequencing often introduces sequencing errors (for example, mutations that arise during the preparation of a nucleic acid library, during amplification, or sequencing). Provided herein are sequencing adapters comprising a nondegenerate or variable length molecular barcode and compositions comprising a plurality of sequencing adapters, which can be useful for sequencing nucleic acids. Further provided are methods of using the sequencing adapters, including methods of sequencing nucleic acids, methods of identifying an error in a nucleic acid sequence, and methods of determining the number of nucleic acid molecules in a library.Type: GrantFiled: June 9, 2017Date of Patent: July 25, 2023Assignee: Myriad Women's Health, Inc.Inventors: Eric Andrew Evans, Imran Saeedul Haque, Kyle Beauchamp, Clement Chu, Carlo G. Artieri, Noah Welker
-
Publication number: 20230193247Abstract: Described herein are methods for enriching test samples for target nucleic acid molecules for further genetic screening. Methods may comprise isolating nucleic acid from test subjects, preparing nucleic acid libraries wherein the nucleic acid molecules are tagged or barcoded to identify sample of origin, determining fragment size distribution, determining abundance of a target nucleic acid population, calculating numerical offset values to determine amount of libraries to add for fragment size selection, performing fragment size selection, and performing a diagnostic assay on a sample enriched for a target nucleic acid.Type: ApplicationFiled: May 18, 2021Publication date: June 22, 2023Applicant: Myriad Women's Health, Inc.Inventors: Clement Chu, Mark Theilmann, Noah Welker, Peter Grauman
-
Publication number: 20220254443Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant. In some aspects, systems and methods of detecting genetic variation are provided.Type: ApplicationFiled: January 24, 2022Publication date: August 11, 2022Applicant: MYRIAD WOMEN'S HEALTH, INC.Inventors: Hunter Richards, Eric Evans, Balaji Srinivasan, Subramaniam Srinivasan, Abhik Shah, A. Scott Patterson, Clement Chu
-
Publication number: 20210348229Abstract: The present disclosure relates to methods for detecting unique genetic signatures derived from markers such as, for example, mutations, somatic or germ-line, in nucleic acids obtained from biological samples. The sensitivity of the methods provides for detection of mutations associated with a disease, e.g., cancer mutations, or with inherited disease, e.g., an autosomal recessive disease, in a noninvasive manner at ultra-low proportions of sequences carrying mutations to sequences carrying normal, e.g., non-cancer sequences, or a reference sequence, e.g., a human reference genome.Type: ApplicationFiled: July 22, 2021Publication date: November 11, 2021Applicant: Myriad Women's Health, Inc.Inventors: Jared Robert MAGUIRE, Clement CHU, Imran Saeedul HAQUE, Eric Andrew EVANS, Noah WELKER
-
Publication number: 20200157622Abstract: The present disclosure relates to methods for detecting unique genetic signatures derived from markers such as, for example, mutations, somatic or germ-line, in nucleic acids obtained from biological samples. The sensitivity of the methods provides for detection of mutations associated with a disease, e.g., cancer mutations, or with inherited disease, e.g., an autosomal recessive disease, in a noninvasive manner at ultra-low proportions of sequences carrying mutations to sequences carrying normal, e.g., non-cancer sequences, or a reference sequence, e.g., a human reference genome.Type: ApplicationFiled: February 7, 2020Publication date: May 21, 2020Applicant: MYRIAD WOMEN'S HEALTH, INC.Inventors: Jared Robert MAGUIRE, Clement CHU, Imran Saeedul HAQUE, Eric Andrew EVANS, Noah WELKER
-
Publication number: 20200111543Abstract: The present disclosure relates to processes for determining the number of nucleic acid repeats in a DNA fragment comprising a nucleic acid repeat region. One example method may include receiving DNA size and abundance data generated by resolving DNA amplification products. A set of low-pass data may be generated by applying a low-pass filter to the DNA size and abundance data and a set of band-pass data may be generated by applying a band-pass filter to the DNA size and abundance data. A peak of the DNA size and abundance data representative of a number of nucleic acid repeats in the DNA may be identified based on peaks identified from the low-pass data and the band-pass data.Type: ApplicationFiled: October 21, 2019Publication date: April 9, 2020Applicant: MYRIAD WOMEN'S HEALTH, INC.Inventors: A. Scott PATTERSON, Imran S. HAQUE, Eric A. EVANS, Clement CHU
-
Patent number: 10597717Abstract: The present disclosure relates to methods for detecting unique genetic signatures derived from markers such as, for example, mutations, somatic or germ-line, in nucleic acids obtained from biological samples. The sensitivity of the methods provides for detection of mutations associated with a disease, e.g., cancer mutations, or with inherited disease, e.g., an autosomal recessive disease, in a noninvasive manner at ultra-low proportions of sequences carrying mutations to sequences carrying normal, e.g., non-cancer sequences, or a reference sequence, e.g., a human reference genome.Type: GrantFiled: March 21, 2017Date of Patent: March 24, 2020Assignee: MYRIAD WOMEN'S HEALTH, INC.Inventors: Jared Robert Maguire, Clement Chu, Imran Saeedul Haque, Eric Andrew Evans, Noah Welker
-
Patent number: 10497463Abstract: The present disclosure relates to processes for determining the number of nucleic acid repeats in a DNA fragment comprising a nucleic acid repeat region. One example method may include receiving DNA size and abundance data generated by resolving DNA amplification products. A set of low-pass data may be generated by applying a low-pass filter to the DNA size and abundance data and a set of band-pass data may be generated by applying a band-pass filter to the DNA size and abundance data. A peak of the DNA size and abundance data representative of a number of nucleic acid repeats in the DNA may be identified based on peaks identified from the low-pass data and the band-pass data.Type: GrantFiled: November 13, 2014Date of Patent: December 3, 2019Assignee: MYRIAD WOMEN'S HEALTH, INC.Inventors: A. Scott Patterson, Imran S. Haque, Eric A. Evans, Clement Chu
-
Publication number: 20170355984Abstract: High-fidelity, high-throughput nucleic acid sequencing enables healthcare practitioners and patients to gain insight into genetic variants and potential health risks. However, previous methods of nucleic acid sequencing often introduces sequencing errors (for example, mutations that arise during the preparation of a nucleic acid library, during amplification, or sequencing). Provided herein are sequencing adapters comprising a nondegenerate or variable length molecular barcode and compositions comprising a plurality of sequencing adapters, which can be useful for sequencing nucleic acids. Further provided are methods of using the sequencing adapters, including methods of sequencing nucleic acids, methods of identifying an error in a nucleic acid sequence, and methods of determining the number of nucleic acid molecules in a library.Type: ApplicationFiled: June 9, 2017Publication date: December 14, 2017Inventors: Eric Andrew EVANS, Imran Saeedul HAQUE, Kyle BEAUCHAMP, Clement CHU, Carlo G. ARTIERI, Noah WELKER
-
Publication number: 20170321270Abstract: Prenatal genetic testing allows early detection of genetic disease in a fetus. Described herein are methods of detecting the presence or absence of a genetic variant in a region of interest in the genome of a fetus in a pregnant woman. The methods are noninvasive, and can use cell-free DNA (cfDNA) present in the plasma of the pregnant woman. A DNA library is constructed from the cfDNA, and DNA molecules comprising the region of interest or portions thereof are enriched and analyzed, for example by sequencing. The methods described herein can also rely on constructing a maternal haplotype to provide even higher resolution fetal genetic variant determination.Type: ApplicationFiled: May 5, 2017Publication date: November 9, 2017Inventors: Imran Saeedul HAQUE, Jared Robert MAGUIRE, Clement CHU, Eric Andrew EVANS
-
Publication number: 20170275689Abstract: The present disclosure relates to methods for detecting unique genetic signatures derived from markers such as, for example, mutations, somatic or germ-line, in nucleic acids obtained from biological samples. The sensitivity of the methods provides for detection of mutations associated with a disease, e.g., cancer mutations, or with inherited disease, e.g., an autosomal recessive disease, in a noninvasive manner at ultra-low proportions of sequences carrying mutations to sequences carrying normal, e.g., non-cancer sequences, or a reference sequence, e.g., a human reference genome.Type: ApplicationFiled: March 21, 2017Publication date: September 28, 2017Inventors: Jared Robert MAGUIRE, Clement CHU, Imran Saeedul HAQUE, Eric Andrew EVANS, Noah WELKER
-
Patent number: 9092401Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant. In some aspects, systems and methods of detecting genetic variation are provided.Type: GrantFiled: October 31, 2012Date of Patent: July 28, 2015Assignee: Counsyl, Inc.Inventors: Hunter Richards, Eric Evans, Balaji Srinivasan, Subramaniam Srinivasan, Abhik Shah, A. Scott Patterson, Clement Chu
-
Publication number: 20150205914Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant. In some aspects, systems and methods of detecting genetic variation are provided.Type: ApplicationFiled: October 10, 2014Publication date: July 23, 2015Inventors: Hunter RICHARDS, Eric EVANS, Balaji SRINIVASAN, Subramaniam SRINIVASAN, Abhik SHAH, A. Scott PATTERSON, Clement CHU
-
Publication number: 20150134267Abstract: The present disclosure relates to processes for determining the number of nucleic acid repeats in a DNA fragment comprising a nucleic acid repeat region. One example method may include receiving DNA size and abundance data generated by resolving DNA amplification products. A set of low-pass data may be generated by applying a low-pass filter to the DNA size and abundance data and a set of band-pass data may be generated by applying a band-pass filter to the DNA size and abundance data. A peak of the DNA size and abundance data representative of a number of nucleic acid repeats in the DNA may be identified based on peaks identified from the low-pass data and the band-pass data.Type: ApplicationFiled: November 13, 2014Publication date: May 14, 2015Inventors: A. Scott PATTERSON, Imran S. HAQUE, Eric A. EVANS, Clement CHU
-
Publication number: 20140342354Abstract: The present disclosure provides for compositions and methods for the testing and analysis of genetic alterations of a sample comprising maternal and fetal polynucleotides. Generally, the composition and methods of this disclosure provide for the isolation of a mixture of maternal and fetal polynucleotides from a sample, generally from the mother. Polynucleotides are isolated and purified and further tested to determine the presence or absence of genetic alterations, such as copy number variation, or causal variants at one or more loci in the sample.Type: ApplicationFiled: March 12, 2014Publication date: November 20, 2014Inventors: Eric Evans, Clement Chu, Daniel Davison, Hunter Richards
-
Publication number: 20140162278Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant.Type: ApplicationFiled: December 10, 2013Publication date: June 12, 2014Applicant: Counsyl, Inc.Inventors: Hunter Richards, Eric Evans, Balaji Srinivasan, Subramaniam Srinivasan, Clement Chu
-
Publication number: 20140121116Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant. In some aspects, systems and methods of detecting genetic variation are provided.Type: ApplicationFiled: October 31, 2012Publication date: May 1, 2014Applicant: Counsyl, Inc.Inventors: Hunter Richards, Eric EVANS, Balaji SRINIVASAN, Subramaniam SRINIVASAN, Abhik SHAH, A. Scott Patterson, Clement CHU
-
Publication number: 20140024541Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant.Type: ApplicationFiled: July 17, 2012Publication date: January 23, 2014Applicant: Counsyl, Inc.Inventors: Hunter Richards, Eric Evans, Balaji Srinivasan, Subramaniam Srinivasan, Clement Chu
-
Publication number: 20140024536Abstract: The invention provides methods, apparatuses, and compositions for high-throughput amplification sequencing of specific target sequences in one or more samples. In some aspects, barcode-tagged polynucleotides are sequenced simultaneously and sample sources are identified on the basis of barcode sequences. In some aspects, sequencing data are used to determine one or more genotypes at one or more loci comprising a causal genetic variant.Type: ApplicationFiled: July 17, 2012Publication date: January 23, 2014Applicant: Counsyl, Inc.Inventors: Hunter Richards, Eric Evans, Balaji Srinivasan, Subramaniam Srinivasan, Clement Chu