Patents by Inventor John West
John West 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: 11591653Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: GrantFiled: May 13, 2022Date of Patent: February 28, 2023Assignee: Personalis, Inc.Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Patent number: 11584968Abstract: Disclosed herein are methods for improving detection and monitoring of human diseases. The methods can be used to provide spatial and/or developmental localization of the source of each differential mutation within the body. The methods can also be used to generate a mutation map of a subject. And the mutation map can be used to monitoring state(s) of health of one or more tissues of a subject.Type: GrantFiled: October 5, 2021Date of Patent: February 21, 2023Assignee: Personalis, Inc.Inventor: John West
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Publication number: 20230050395Abstract: Methods for generating a composite biomarker that identifies a predicted level of responsiveness of a subject to a particular type of an immunotherapy treatment is provided. The method can include generating genomic metrics that represent one or more characteristics corresponding to one or more DNA sequences. The method can also include generating transcriptomic metrics represent one or more characteristics corresponding to a set of peptides that are translated from a corresponding RNA sequence of the one or more RNA sequences. The method can also include generating a composite biomarker score derived from the set of genomic metrics and the set of transcriptomic metrics. The method can also include determining, based on the composite biomarker score, a predicted level of responsiveness of the subject to a particular type of an immunotherapy treatment.Type: ApplicationFiled: October 13, 2022Publication date: February 16, 2023Applicant: Personalis, Inc.Inventors: Charles Wilbur ABBOTT, III, Sean Michael BOYLE, Rachel Marty PYKE, Eric LEVY, Dattatreya MELLACHERUVU, Rena MCCLORY, Richard CHEN, Robert POWER, Gabor BARTHA, Jason HARRIS, Pamela MILANI, Prateek TANDON, Paul MCNITT, Massimo MORRA, Sejal DESAI, Juan-Sebastian SALVIDAR, Michael CLARK, Christian HAUDENSCHILD, John WEST, Nick PHILLIPS, Simo V. ZHANG
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Publication number: 20230049643Abstract: The present invention relates to a process for producing a Fischer-Tropsch synthesis catalyst wherein from 15 to 40 mol. % of the cobalt thereon is in the form of cobalt oxide. The present invention also relates to a start-up process for a reduced-and-passivated cobalt-containing Fischer-Tropsch catalyst, wherein from 15 to 40 mol. % of the cobalt thereon is in the form of cobalt oxide and the reduced-and-passivated catalyst is activated by contacting the catalyst with a syngas stream.Type: ApplicationFiled: January 8, 2021Publication date: February 16, 2023Inventors: Alexander James Paterson, Richard John Mercer, John West
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Publication number: 20230031384Abstract: A seal is disclosed having a pair of side walls, a base extending between the side walls, a first concave surface extending inwardly from one of the side walls, a second concave surface extending inwardly from the other side wall, and a convex surface extending between the first concave and second concave surface to form a rounded peak having an apex. The seal has a seal width defined between the seal side walls, and a seal height defined between the apex of the rounded peak and the base. The width is at least twice the height of the seal. The seal is located in a channel recess of a first component opposite a second component to seal between the first component and the second component, the channel recess having a floor and a height defined between the floor and a surface of the first component in which the channel recess is formed.Type: ApplicationFiled: July 28, 2022Publication date: February 2, 2023Inventors: Stephan Olexander SCHNEIDER, Colin John WEST
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Publication number: 20220392577Abstract: A computer-implemented method for processing and/or analyzing nucleic acid sequencing data comprises receiving a first data input and a second data input. The first data input comprises untargeted sequencing data generated from a first nucleic acid sample obtained from a subject. The second data input comprises target-specific sequencing data generated from a second nucleic acid sample obtained from the subject. Next, with the aid of a computer processor, the first data input and the second data input are combined to produce a combined data set. Next, an output derived from the combined data set is generated. The output is indicative of the presence or absence of one or more polymorphisms of the first nucleic acid sample and/or the second nucleic acid sample.Type: ApplicationFiled: August 4, 2022Publication date: December 8, 2022Inventors: Jason Harris, Mark R. Pratt, John West, Richard Chen, Ming Li
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Patent number: 11456058Abstract: A computer-implemented method for processing and/or analyzing nucleic acid sequencing data comprises receiving a first data input and a second data input. The first data input comprises untargeted sequencing data generated from a first nucleic acid sample obtained from a subject. The second data input comprises target-specific sequencing data generated from a second nucleic acid sample obtained from the subject. Next, with the aid of a computer processor, the first data input and the second data input are combined to produce a combined data set. Next, an output derived from the combined data set is generated. The output is indicative of the presence or absence of one or more polymorphisms of the first nucleic acid sample and/or the second nucleic acid sample.Type: GrantFiled: May 17, 2022Date of Patent: September 27, 2022Assignee: Personalis, Inc.Inventors: Jason Harris, Mark R. Pratt, John West, Richard Chen, Ming Li
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Publication number: 20220290258Abstract: Disclosed herein are methods for improving detection and monitoring of human diseases. The methods can be used to provide spatial and/or developmental localization of the source of each differential mutation within the body. The methods can also be used to generate a mutation map of a subject. And the mutation map can be used to monitoring state(s) of health of one or more tissues of a subject.Type: ApplicationFiled: May 31, 2022Publication date: September 15, 2022Inventor: John West
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Publication number: 20220277810Abstract: A computer-implemented method for processing and/or analyzing nucleic acid sequencing data comprises receiving a first data input and a second data input. The first data input comprises untargeted sequencing data generated from a first nucleic acid sample obtained from a subject. The second data input comprises target-specific sequencing data generated from a second nucleic acid sample obtained from the subject. Next, with the aid of a computer processor, the first data input and the second data input are combined to produce a combined data set. Next, an output derived from the combined data set is generated. The output is indicative of the presence or absence of one or more polymorphisms of the first nucleic acid sample and/or the second nucleic acid sample.Type: ApplicationFiled: May 17, 2022Publication date: September 1, 2022Inventors: Jason Harris, Mark R. Pratt, John West, Richard Chen, Ming Li
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Publication number: 20220275446Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: ApplicationFiled: May 18, 2022Publication date: September 1, 2022Inventors: John West, Christian Haudenschild, Richard Chen
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Publication number: 20220275462Abstract: Disclosed herein are methods for improving detection and monitoring of human diseases. The methods can be used to provide spatial and/or developmental localization of the source of each differential mutation within the body. The methods can also be used to generate a mutation map of a subject. And the mutation map can be used to monitoring state(s) of health of one or more tissues of a subject.Type: ApplicationFiled: May 19, 2022Publication date: September 1, 2022Inventor: John West
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Publication number: 20220275445Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: ApplicationFiled: May 13, 2022Publication date: September 1, 2022Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Patent number: 11408033Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: GrantFiled: October 23, 2020Date of Patent: August 9, 2022Assignee: Personalis, Inc.Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Patent number: 11384394Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: GrantFiled: December 10, 2021Date of Patent: July 12, 2022Assignee: Personalis, Inc.Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Publication number: 20220195520Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: ApplicationFiled: March 7, 2022Publication date: June 23, 2022Inventors: John West, Christian Haudenschild, Richard Chen
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Patent number: 11365446Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: GrantFiled: October 21, 2021Date of Patent: June 21, 2022Assignee: Personalis, Inc.Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Publication number: 20220184582Abstract: A method is described for preparing an eggshell catalyst comprising the steps of: (i) preparing a calcined shaped alkaline earth metal aluminate catalyst support, (ii) treating the calcined shaped alkaline earth metal aluminate support with a gas containing water vapour to form a hydrated support, (iii) with or without an intervening drying step, impregnating the hydrated support with an acidic solution containing one or more catalytic metal compounds and drying the impregnated support, (iv) calcining the dried impregnated support, to form a calcined catalyst having a catalytic metal oxide concentrated at the surface of the support and (v) optionally repeating steps (ii), (iii) and (iv).Type: ApplicationFiled: April 30, 2020Publication date: June 16, 2022Inventors: Mikael CARLSSON, Mark Alexander KENT, Stefano MARTINUZZI, Shanneal READMAN, John WEST
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Patent number: 11299783Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: GrantFiled: April 20, 2021Date of Patent: April 12, 2022Assignee: Personalis, INC.Inventors: John West, Christian Haudenschild, Richard Chen
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Publication number: 20220098662Abstract: This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.Type: ApplicationFiled: December 10, 2021Publication date: March 31, 2022Inventors: Gabor T. Bartha, Gemma Chandratillake, Richard Chen, Sarah Garcia, Hugo Yu Kor Lam, Shujun Luo, Mark R. Pratt, John West
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Publication number: 20220081716Abstract: The present disclosure provides methods and systems for personalized genetic testing of a subject. In some embodiments, a sequencing assay is performed on a biological sample from the subject, which then leads to genetic information related to the subject. Next, nucleic acid molecules are array-synthesized or selected based on the genetic information derived from data of the sequencing assay. At least some of the nucleic acid molecules may then be used in an assay which may provide additional information on one or more biological samples from the subject or a biological relative of the subject.Type: ApplicationFiled: June 23, 2021Publication date: March 17, 2022Inventors: John West, Christian Haudenschild, Richard Chen