Patents by Inventor James Yu
James Yu 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: 20260347926Abstract: Methods for mitigation of methylation bias during preparation of sequencing libraries are described. The methods may comprise, e.g., extracting DNA fragments from a sample; performing at least one of: (i) a first end repair reaction, where the first end repair reaction comprises the use of a non-strand-displacing DNA polymerase; or (ii) a second end repair reaction, where the second end repair reaction comprises the use of a chain termination mechanism; performing at least one of: (iii) a tailing reaction to add an overhanging polynucleotide strand to the end-repaired DNA fragments, where the tailing reaction comprises the use of a single deoxynucleotide triphosphate (dNTP); or (iv) a nick/gap repair reaction using a DNA ligase to fill in single-stranded nicks or gaps in the end-repaired DNA fragments, to generate a plurality of modified DNA fragments; and performing methylation analysis of nucleic acid molecules derived from the plurality of modified DNA fragments.Type: ApplicationFiled: May 23, 2024Publication date: November 5, 2026Applicant: Foundation Medicine, Inc.Inventors: Nicole LAMBERT, James YU, Neil PETERMAN, Yexun WANG, Alexander ROBERTSON, Jason CLOSE
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Patent number: 12717999Abstract: A method includes: receiving an integrated circuit design including a plurality of cells; performing a first plurality of design rule checks on a first portion of the plurality of cells of the integrated circuit design based on a sequence of design rule checkers arranged in a first order; collecting data on an execution of the design rule checkers on the first portion of the plurality of cells; updating, by a processing device, the sequence of design rule checkers, based on the data, to a second order of design rule checkers; and performing a second plurality of design rule checks on a second portion of the plurality of cells of the integrated circuit design based on the sequence of design rule checkers arranged in the second order.Type: GrantFiled: June 20, 2023Date of Patent: August 25, 2026Assignee: Synopsys, Inc.Inventors: Chin-Hsiung Hsu, Sheng-Wei Yang, Chau-Chin Huang, Yu-Hsiang Cheng, Guo-Ting Wang, James Yu, Philip Hui-Yuh Tai
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Publication number: 20260201440Abstract: Provided herein are oligonucleotides, kits, and methods for appending an oligonucleotide adapter to a single-stranded DNA (ssDNA) fragment and/or double-stranded DNA (dsDNA) fragment comprising 3? overhang(s). In some embodiments, the adapter comprises a first strand comprising, from 5? to 3?: a first portion comprising one or more nucleotides, and a second portion comprising three or more consecutive nucleotides joined by phosphorothioate linkages followed by a 3? terminal dideoxynucleotide; and a second strand comprising, from 5? to 3?: a first portion comprising one or more nucleotides, and a second portion comprising at least two deoxyinosine nucleotides (diTPs) joined by a phosphorothioate linkage followed by a 3? terminal deoxynucleotide.Type: ApplicationFiled: December 13, 2023Publication date: July 16, 2026Applicant: Foundation Medicine, Inc.Inventors: James YU, Nicole LAMBERT
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Publication number: 20260063579Abstract: A gas sensor system includes at least one gas sensor configured to receive at least one gas to be sampled; a processor configured to implement computer executable instructions; a first output interface in communication with the processor; and a computer memory in communication with the processor. A method includes measuring a density of the at least one gas; at least one of a) heating and b) cooling the at least one gas with a first thermal input; determining a first rate at which the at least one gas changes temperature when at least one of a) heating and b) cooling the at least one gas; comparing at least one of the density and the first rate to a reference database of gases; and determining at least one of a) a category b) a lower explosive limit and c) a concentration of the at least one gas.Type: ApplicationFiled: November 4, 2025Publication date: March 5, 2026Inventors: Michael A. Bryan, Robert Bodnar, James Yu
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Patent number: 12461049Abstract: A gas sensor system includes at least one gas sensor configured to receive at least one gas to be sampled; a processor configured to implement computer executable instructions; a first output interface in communication with the processor; and a computer memory in communication with the processor. A method includes measuring a density of the at least one gas; at least one of a) heating and b) cooling the at least one gas with a first thermal input; determining a first rate at which the at least one gas changes temperature when at least one of a) heating and b) cooling the at least one gas; comparing at least one of the density and the first rate to a reference database of gases; and determining at least one of a) a category b) a lower explosive limit and c) a concentration of the at least one gas.Type: GrantFiled: February 29, 2024Date of Patent: November 4, 2025Assignee: Gas Activated Systems, Inc.Inventors: Michael A. Bryan, Robert Bodnar, James Yu
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Publication number: 20250026276Abstract: A hinged access door that can rotatably open in two different directions based on a user selection to provide access to a storage compartment, and more preferably, a storage compartment within a vehicle.Type: ApplicationFiled: November 29, 2022Publication date: January 23, 2025Inventors: Joseph ZHU, Zokan CHEN, Changbo LIU, James YU
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Publication number: 20240201115Abstract: A gas sensor system includes at least one gas sensor configured to receive at least one gas to be sampled; a processor configured to implement computer executable instructions; a first output interface in communication with the processor; and a computer memory in communication with the processor. A method includes measuring a density of the at least one gas; at least one of a) heating and b) cooling the at least one gas with a first thermal input; determining a first rate at which the at least one gas changes temperature when at least one of a) heating and b) cooling the at least one gas; comparing at least one of the density and the first rate to a reference database of gases; and determining at least one of a) a category b) a lower explosive limit and c) a concentration of the at least one gas.Type: ApplicationFiled: February 29, 2024Publication date: June 20, 2024Inventors: Michael A. Bryan, Robert Bodnar, James Yu
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Publication number: 20240152881Abstract: A distributed computing platform for isolating transaction nodes for managing energy post-trade processing. Plural participant computing systems each have a participant node module which executes a participant node on a decentralized computing network executing a smart contract in accordance with a decentralized protocol over a communication network. A reconciling computing system includes a reconciling module, a master database, a reconciling node module, and a reconciling distributed ledger interface module configured as an interface between the reconciling node module and other modules of the reconciling computing system. The reconciling node module is a node on the decentralized computing network. The reconciling computing system defines a domain of participant nodes on the decentralized computing network for each specific transaction which have access to trade data.Type: ApplicationFiled: November 8, 2022Publication date: May 9, 2024Inventors: James YU, Rebecca GOTTSEGEN, Don SPANKUCH
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Patent number: 11940400Abstract: A gas sensor system includes at least one gas sensor configured to receive at least one gas to be sampled; a processor configured to implement computer executable instructions; a first output interface in communication with the processor; and a computer memory in communication with the processor. A method includes measuring a density of the at least one gas; at least one of a) heating and b) cooling the at least one gas with a first thermal input; determining a first rate at which the at least one gas changes temperature when at least one of a) heating and b) cooling the at least one gas; comparing at least one of the density and the first rate to a reference database of gases; and determining at least one of a) a category b) a lower explosive limit and c) a concentration of the at least one gas.Type: GrantFiled: May 14, 2020Date of Patent: March 26, 2024Assignee: Gas Activated SystemsInventors: Michael A. Bryan, Robert Bodnar, James Yu
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Patent number: 11691148Abstract: A microfluidic device in which microfluidic channels are embedded in a culture medium chamber and have open sides. The microfluidic device is patterned with a fluid moved along a hydrophilic surface due to capillary force, and the fluid may be rapidly and uniformly patterned along an inner corner path and a microfluidic channel. In the microfluidic device, the microfluidic channel is connected to facilitate fluid flow with a culture medium through open sides thereof and openings, and thus may provide a cell culture environment in which high gas saturation is maintained. In addition, several microfluidic devices formed on one common substrate are described. Such microfluidic devices may be manufactured of a hydrophilic engineering plastic by injection molding.Type: GrantFiled: July 12, 2022Date of Patent: July 4, 2023Assignee: CURIOCHIPSInventors: Noo Li Jeon, Byungjun Lee, James Yu, Jihoon Ko
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Publication number: 20220347678Abstract: A microfluidic device in which microfluidic channels are embedded in a culture medium chamber and have open sides. The microfluidic device is patterned with a fluid moved along a hydrophilic surface due to capillary force, and the fluid may be rapidly and uniformly patterned along an inner corner path and a microfluidic channel. In the microfluidic device, the microfluidic channel is connected to facilitate fluid flow with a culture medium through open sides thereof and openings, and thus may provide a cell culture environment in which high gas saturation is maintained. In addition, several microfluidic devices formed on one common substrate are described. Such microfluidic devices may be manufactured of a hydrophilic engineering plastic by injection molding.Type: ApplicationFiled: July 12, 2022Publication date: November 3, 2022Inventors: Noo Li JEON, Byungjun LEE, James YU, Jihoon KO
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Patent number: 11383239Abstract: A microfluidic device in which microfluidic channels are embedded in a culture medium chamber and have open sides. The microfluidic device is patterned with a fluid moved along a hydrophilic surface due to capillary force, and the fluid may be rapidly and uniformly patterned along an inner corner path and a microfluidic channel. In the microfluidic device, the microfluidic channel is connected to facilitate fluid flow with a culture medium through open sides thereof and openings, and thus may provide a cell culture environment in which high gas saturation is maintained. In addition, several microfluidic devices formed on one common substrate are described. Such microfluidic devices may be manufactured of a hydrophilic engineering plastic by injection molding.Type: GrantFiled: December 19, 2019Date of Patent: July 12, 2022Assignee: CURIOCHIPSInventors: Noo Li Jeon, Byungjun Lee, James Yu, Jihoon Ko
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Patent number: 11377655Abstract: Nucleic acid compositions having nucleotide sequences that do not occur in nature are provided. Also provided are populations of different nucleic acids having universal adapters or universal primer binding sites. Methods of capturing, copying or amplifying nucleic acids of interest using universal adapters, universal primer binding sites and/or universal primers are also provided.Type: GrantFiled: July 16, 2020Date of Patent: July 5, 2022Assignee: PACIFIC BIOSCIENCES OF CALIFORNIA, INC.Inventors: Arnold Oliphant, James Yu
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Patent number: 10905899Abstract: The invention provides a two-step tapered applicator, which can be used to deliver high-dose-rate vaginal brachytherapy to a female patient's vagina post-hysterectomy. In certain embodiments, once inserted through the female patient's vaginal opening (or introitus), the applicator of the invention causes less physical discomfort to the female patient than currently available applicators. In other embodiments, the applicator is used in a female patient whose vaginal apex is larger in diameter than her vaginal introitus.Type: GrantFiled: March 29, 2018Date of Patent: February 2, 2021Assignee: Yale UniversityInventors: Amandeep Mahal, James Yu, Shari Damast, Rajwant Mahal
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Publication number: 20210017517Abstract: Nucleic acid compositions having nucleotide sequences that do not occur in nature are provided. Also provided are populations of different nucleic acids having universal adapters or universal primer binding sites. Methods of capturing, copying or amplifying nucleic acids of interest using universal adapters, universal primer binding sites and/or universal primers are also provided.Type: ApplicationFiled: July 16, 2020Publication date: January 21, 2021Applicant: Omniome, Inc.Inventors: Arnold OLIPHANT, James YU
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Publication number: 20200156062Abstract: A microfluidic device in which microfluidic channels are embedded in a culture medium chamber and have open sides. The microfluidic device is patterned with a fluid moved along a hydrophilic surface due to capillary force, and the fluid may be rapidly and uniformly patterned along an inner corner path and a microfluidic channel. In the microfluidic device, the microfluidic channel is connected to facilitate fluid flow with a culture medium through open sides thereof and openings, and thus may provide a cell culture environment in which high gas saturation is maintained. In addition, several microfluidic devices formed on one common substrate are described. Such microfluidic devices may be manufactured of a hydrophilic engineering plastic by injection molding.Type: ApplicationFiled: December 19, 2019Publication date: May 21, 2020Inventors: Noo Li JEON, Byungjun LEE, James YU, Jihoon KO
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Publication number: 20190106066Abstract: System, method and apparatus for one-pair power over Ethernet in an automotive application. In one embodiment, a power sourcing equipment transmits a forward path current to a powered device via a single conductor pair and receives a return path current from the powered device via a chassis of an automotive vehicle.Type: ApplicationFiled: October 12, 2018Publication date: April 11, 2019Applicant: AVAGO TECHNOLOGIES INTERNATIONAL SALES PTE. LIMITEDInventors: Sesha Thalpasai PANGULURI, Minh TRAN, James YU, Wael William DIAB
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Patent number: 10112558Abstract: System, method and apparatus for one-pair power over Ethernet in an automotive application. In one embodiment, a power sourcing equipment transmits a forward path current to a powered device via a single conductor pair and receives a return path current from the powered device via a chassis of an automotive vehicle.Type: GrantFiled: September 8, 2014Date of Patent: October 30, 2018Assignee: AVAGO TECHNOLOGIES GENERAL IP (SINGAPORE) PTE. LTD.Inventors: Sesha Thalpasai Panguluri, Minh Tran, James Yu, Wael William Diab
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Patent number: 10108971Abstract: The disclosed technology provides systems, architectures, and methods for providing to a Web page electronic advertisements related to the content of the Web page. In one aspect, the disclosed technology manages and serves electronic advertisements for affiliated Web page publishers and advertisers. A computer-implemented method in accordance with the disclosed technology receives a request for an electronic advertisement for a Web page, wherein the Web page is associated with a Web page publisher, accesses one or more keywords appearing in the Web page, identifies one or more relevant electronic advertisements related to the keyword(s), wherein the relevant electronic advertisement(s) are associated with an advertiser affiliated with the Web page publisher, and communicates one or more the relevant electronic advertisements to the Web page for display. The disclosed technology also includes a computer executing software, wherein the executed software causes the computer to perform the steps above.Type: GrantFiled: March 26, 2009Date of Patent: October 23, 2018Assignee: RAKUTEN MARKETING LLCInventors: Michael Rabbitt, Olumide Adebayo, Kiran Thomas, James Yu, Andy Peter Schön, Jonathan Levine
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Publication number: 20180289978Abstract: The invention provides a two-step tapered applicator, which can be used to deliver high-dose-rate vaginal brachytherapy to a female patient's vagina post-hysterectomy. In certain embodiments, once inserted through the female patient's vaginal opening (or introitus), the applicator of the invention causes less physical discomfort to the female patient than currently available applicators. In other embodiments, the applicator is used in a female patient whose vaginal apex is larger in diameter than her vaginal introitus.Type: ApplicationFiled: March 29, 2018Publication date: October 11, 2018Inventors: Amandeep MAHAL, James YU, Shari DAMAST, Rajwant MAHAL