Patents by Inventor Hayley M. Bennett
Hayley M. Bennett 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: 20230282313Abstract: Disclosed are methods, systems, and articles of manufacture for performing a process on biological samples. An analysis of biological samples in multiple regions of interest in a microfluidic device and a timeline correlated with the analysis may be identified. One or more region-of-interest types for the multiple regions of interest may be determined; and multiple characteristics may be determined for the biological samples based at least in part upon the one or more region-of-interest types. Associated data that respectively correspond to the multiple regions of interest in a user interface for at least a portion of the biological samples in the user interface based at least in part upon the multiple identifiers and the timeline. A count of the biological samples in a region of interest may be determined based at least in part upon a class or type of data using a convolutional neural network (CNN).Type: ApplicationFiled: October 21, 2022Publication date: September 7, 2023Applicant: BERKELEY LIGHTS, INC.Inventors: Darshan Thaker, Keith J. Breinlinger, Vincent Haw Tien Pai, Christoph Andreas Neyer, Thomas M. Vetterli, Hayley M. Bennett, Elisabeth Marie Walczak, Alexander Gerald Olson, Wesley Arthur Zink, John A. Tenney, Oleksandr Tokmakov, Igor Fastnacht, Yuriy Nicheporuk, Andriy Koval, Khrystyna Andres, Alona Kostenko
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Patent number: 11639495Abstract: Methods are described herein for isolating clonal populations of T cells having a defined genetic modification. The methods are performed, at least in part, in a microfluidic device comprising one or more sequestration pens. The methods include the steps of: maintaining individual T cells (or precursors thereof) that have undergone a genomic editing process in corresponding sequestration pens of a microfluidic device; expanding the T cells into respective clonal populations of T cells; detecting, in one or more T cells of each clonal population, the absence of a cell surface marker that was present in the individual T cells (or precursors thereof); and detecting, in one or more T cells of each clonal population, the presence of a first nucleic acid sequence that is indicative of the presence of an on-target genome edit in the clonal population of T cells. Also described are compositions comprising one or more clonal populations of T cells isolated according to the methods disclosed herein.Type: GrantFiled: June 27, 2019Date of Patent: May 2, 2023Assignees: The Regents of the University of California, Berkeley Lights, Inc.Inventors: Alexander Marson, Gregory G. Lavieu, Annamaria Mocciaro, Theodore L. Roth, Magali Soumillon, Hayley M. Bennett
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Publication number: 20230105220Abstract: Disclosed are methods, systems, and articles of manufacture for performing a process on biological samples. An analysis of biological samples in multiple regions of interest in a microfluidic device and a timeline correlated with the analysis may be identified. One or more region-of-interest types for the multiple regions of interest may be determined; and multiple characteristics may be determined for the biological samples based at least in part upon the one or more region-of-interest types. Associated data that respectively correspond to the multiple regions of interest in a user interface for at least a portion of the biological samples in the user interface based at least in part upon the multiple identifiers and the timeline. A count of the biological samples in a region of interest may be determined based at least in part upon a class or type of data using a convolutional neural network (CNN).Type: ApplicationFiled: May 16, 2022Publication date: April 6, 2023Applicant: BERKELEY LIGHTS, INC.Inventors: Darshan Thaker, Keith J. Breinlinger, Vincent Haw Tien Pai, Christoph Andreas Neyer, Thomas M. Vetterli, Hayley M. Bennett, Elisabeth Marie Walczak, Alexander Gerald Olson, Wesley Arthur Zink, John A. Tenney, Oleksandr Tokmakov, Igor Fastnacht, Yuriy Nicheporuk, Andriy Koval, Khrystyna Andres, Alona Kostenko
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Patent number: 11521709Abstract: Disclosed are methods, systems, and articles of manufacture for performing a process on biological samples. An analysis of biological samples in multiple regions of interest in a microfluidic device and a timeline correlated with the analysis may be identified. One or more region-of-interest types for the multiple regions of interest may be determined; and multiple characteristics may be determined for the biological samples based at least in part upon the one or more region-of-interest types. Associated data that respectively correspond to the multiple regions of interest in a user interface for at least a portion of the biological samples in the user interface based at least in part upon the multiple identifiers and the timeline. A count of the biological samples in a region of interest may be determined based at least in part upon a class or type of data using a convolutional neural network (CNN).Type: GrantFiled: May 19, 2021Date of Patent: December 6, 2022Assignee: Berkeley Lights Inc.Inventors: Darshan Thaker, Keith J. Breinlinger, Vincent Haw Tien Pai, Christoph Andreas Neyer, Thomas M. Vetterli, Hayley M. Bennett, Elisabeth Marie Walczak, Alexander Gerald Olson, Wesley Arthur Zink, John A. Tenney, Oleksandr Tokmakov, Igor Fastnacht, Yuriy Nicheporuk, Andriy Koval, Khrystyna Andres, Alona Kostenko
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Publication number: 20210272654Abstract: Disclosed are methods, systems, and articles of manufacture for performing a process on biological samples. An analysis of biological samples in multiple regions of interest in a microfluidic device and a timeline correlated with the analysis may be identified. One or more region-of-interest types for the multiple regions of interest may be determined; and multiple characteristics may be determined for the biological samples based at least in part upon the one or more region-of-interest types. Associated data that respectively correspond to the multiple regions of interest in a user interface for at least a portion of the biological samples in the user interface based at least in part upon the multiple identifiers and the timeline. A count of the biological samples in a region of interest may be determined based at least in part upon a class or type of data using a convolutional neural network (CNN).Type: ApplicationFiled: May 19, 2021Publication date: September 2, 2021Applicant: BERKELEY LIGHTS, INC.Inventors: Darshan Thaker, Keith J. Breinlinger, Vincent Haw Tien Pai, Christoph Andreas Neyer, Thomas M. Vetterli, Hayley M. Bennett, Elisabeth Marie Walczak, Alexander Gerald Olson, Wesley Arthur Zink, John A. Tenney, Oleksandr Tokmakov, Igor Fastnacht, Yuriy Nicheporuk, Andriy Koval, Khrystyna Andres, Alona Kostenko
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Publication number: 20200392567Abstract: Disclosed herein are methods for performing assays, including general functional assays, on a biological cell. The methods can include contacting a biological cell with a test agent for a period of time; lysing the biological cell while the biological cell is disposed within a sequestration pen located within an enclosure of a microfluidic device; and allowing RNA molecules released from the lysed biological cell to be captured by capture oligonucleotides linked to a capture object disposed within the sequestration pen of the microfluidic device. Each capture oligonucleotide can include a priming sequence that binds a primer, and a capture sequence. Each cDNA transcribed from a captured RNA can have an oligonucleotide sequence complementary to the captured RNA molecule, with the complementary oligonucleotide sequence being covalently linked to one of the capture oligonucleotides of the capture object.Type: ApplicationFiled: June 24, 2020Publication date: December 17, 2020Applicant: Berkeley Lights, Inc.Inventors: Hayley M. Bennett, Ravi K. Ramenani, Debjit Ray, Thomas M. Vetterli, Annamaria Mocciaro, Magali Soumillon, Mark P. White, Troy A. Lionberger, Kevin T. Chapman, Po-Yuan Tung
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Publication number: 20200048606Abstract: Methods are described herein for isolating clonal populations of T cells having a defined genetic modification. The methods are performed, at least in part, in a microfluidic device comprising one or more sequestration pens. The methods include the steps of: maintaining individual T cells (or precursors thereof) that have undergone a genomic editing process in corresponding sequestration pens of a microfluidic device; expanding the T cells into respective clonal populations of T cells; detecting, in one or more T cells of each clonal population, the absence of a cell surface marker that was present in the individual T cells (or precursors thereof); and detecting, in one or more T cells of each clonal population, the presence of a first nucleic acid sequence that is indicative of the presence of an on-target genome edit in the clonal population of T cells. Also described are compositions comprising one or more clonal populations of T cells isolated according to the methods disclosed herein.Type: ApplicationFiled: June 27, 2019Publication date: February 13, 2020Applicants: The Regents of the University of California, Berkeley Lights, Inc.Inventors: Alexander Marson, Gregory G. Lavieu, Annamaria Mocciaro, Theodore L. Roth, Magali Soumillon, Hayley M. Bennett
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Publication number: 20190345488Abstract: Apparatuses, compositions and processes for DNA barcode deconvolution are described herein. A DNA barcode may be used to provide a bead specific identifier, which may be detected in situ using hybridization strategies. The DNA barcode provides identification by sequencing analysis. The dual mode of detection may be used in a wide variety of applications to link positional information with assay information including but not limited to genetic analysis. Methods are described for generation of barcoded single cell sequencing libraries. Isolation of nucleic acids from a single cell within a microfluidic environment can provide the foundation for cell specific sequencing library preparation.Type: ApplicationFiled: March 26, 2019Publication date: November 14, 2019Inventors: Magali Soumillon, Hayley M. Bennett, Yara X. Mejia Gonzalez, Mckenzi S. Toh, Ravi K. Ramenani