Patents by Inventor Stephen P. A. Fodor

Stephen P. A. Fodor 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).

  • Patent number: 12270815
    Abstract: This disclosure provides for devices, methods, and systems for generating a plurality of droplets within a collecting container at an extremely high rate (e.g., of at least 1 million droplets per minute, etc.), each of the plurality of droplets comprising an aqueous mixture for a digital analysis, wherein upon generation, the plurality of droplets is stabilized in position within a region of the collecting container. The inventions enable partitioning of samples for digital analyses at unprecedented rates, where readout of signals from targets within such partitions can still be achieved in accordance with various assays.
    Type: Grant
    Filed: November 14, 2024
    Date of Patent: April 8, 2025
    Assignee: Countable Labs, Inc.
    Inventors: Hei Mun Christina Fan, Janice Hoiyi Lai, Sixing Li, Stephen P. A. Fodor, Eleen Yee Lam Shum
  • Patent number: 12265088
    Abstract: This disclosure provides for devices, methods, and systems for generating a plurality of droplets within a collecting container at an extremely high rate (e.g., of at least 1 million droplets per minute, etc.), each of the plurality of droplets comprising an aqueous mixture for a digital analysis, wherein upon generation, the plurality of droplets is stabilized in position within a region of the collecting container. The inventions enable partitioning of samples for digital analyses at unprecedented rates, where readout of signals from targets within such partitions can still be achieved in accordance with various assays.
    Type: Grant
    Filed: April 25, 2024
    Date of Patent: April 1, 2025
    Assignee: Countable Labs, Inc.
    Inventors: Hei Mun Christina Fan, Janice Hoiyi Lai, Sixing Li, Stephen P. A. Fodor, Eleen Yee Lam Shum
  • Patent number: 12252745
    Abstract: This disclosure provides for devices, methods, and systems for performing a non-invasive prenatal testing (NIPT) digital assay upon generating at least a large number of counts per chromosome for a set of chromosomes present in a sample, where performing the NIPT digital assay can include: distributing nucleic acids of the sample and materials for an amplification reaction across a plurality of partitions; amplifying the nucleic acids with the materials, within the plurality of partitions; and generating counts per chromosome upon detecting signals from the plurality of partitions. The inventions enable processing of samples for NIPT digital analyses and/or other digital analyses involving other loci of interest, with unprecedented partitioning, reaction, readout, and analytical performance.
    Type: Grant
    Filed: June 28, 2024
    Date of Patent: March 18, 2025
    Assignee: ENUMERIX, INC.
    Inventors: Eleen Yee Lam Shum, Hei Mun Christina Fan, Stephen P. A. Fodor, Haeun Grace Lee
  • Publication number: 20250076315
    Abstract: This disclosure provides for devices, methods, and systems for generating a plurality of droplets within a collecting container at an extremely high rate (e.g., of at least 1 million droplets per minute, etc.), each of the plurality of droplets comprising an aqueous mixture for a digital analysis, wherein upon generation, the plurality of droplets is stabilized in position within a region of the collecting container. The inventions enable partitioning of samples for digital analyses at unprecedented rates, where readout of signals from targets within such partitions can still be achieved in accordance with various assays.
    Type: Application
    Filed: November 14, 2024
    Publication date: March 6, 2025
    Inventors: Hei Mun Christina FAN, Janice Hoiyi LAI, Sixing LI, Stephen P.A. FODOR, Eleen Yee Lam SHUM
  • Publication number: 20250011763
    Abstract: The disclosure provides compositions, methods, and systems for extremely accurate generation of nucleic acid libraries, without use of bulk amplification methods. Accurate library preparation is achieved in a rapid manner, with respect to sample partitioning and amplification in a manner that achieves high performance in relation to low levels of amplification bias and low levels of artifact/chimeric sequence generation. Implementation of methods described also achieve library preparation with significantly reduced false positive rates, across a wide variety of applications.
    Type: Application
    Filed: June 28, 2024
    Publication date: January 9, 2025
    Inventors: Eleen Yee Lam SHUM, Hei Mun Christina FAN, Stephen P.A. FODOR
  • Publication number: 20250002983
    Abstract: Systems, methods, and compositions for generating a high-resolution spatial map of a distribution of targets of a sample are described. Systems and methods can further include features configured to reduce observation of smearing artifacts in generated spatial maps. Processes for generating the spatial map can include: receiving the sample at a substrate having a distribution of functionalized particles, each having a stochastic barcode sequence paired with a position on the substrate; promoting interactions between the distribution of targets of the sample and the distribution of functionalized particles; applying a set of reactions to the sample at the substrate; and obtaining a set of sequences of a population of molecules generated from the set of reactions.
    Type: Application
    Filed: June 24, 2024
    Publication date: January 2, 2025
    Inventors: Stephen P.A. FODOR, Hei Mun Christina FAN, Christina CHANG, Julie WILHELMY, Wanxin WANG
  • Publication number: 20240409998
    Abstract: The disclosure provides compositions, methods, and systems for implementation of highly multiplexed molecular diagnostic assays involving color combinatorics, stimulus-responsive probes, tandem probes, conjugated polymer probes, and other mechanisms for increasing the number of targets that can be simultaneously detected in a digital assay. Multiplexed detection of targets is achieved in a rapid manner, with respect to sample partitioning and target detection using multiple color channels for detection. Implementation of methods described also achieve detection with significantly improved signal-to-noise ratio (SNR) values.
    Type: Application
    Filed: June 17, 2024
    Publication date: December 12, 2024
    Inventors: Eleen Yee Lam SHUM, Hei Mun Christina FAN, Stephen P.A. FODOR, Janice Hoiyi LAI, Jung Won KEUM, Haeun Grace LEE
  • Publication number: 20240369572
    Abstract: This disclosure provides for devices, methods, and systems for generating a plurality of droplets within a collecting container at an extremely high rate (e.g., of at least 1 million droplets per minute, etc.), each of the plurality of droplets comprising an aqueous mixture for a digital analysis, wherein upon generation, the plurality of droplets is stabilized in position within a region of the collecting container. The inventions enable partitioning of samples for digital analyses at unprecedented rates, where readout of signals from targets within such partitions can still be achieved in accordance with various assays.
    Type: Application
    Filed: April 25, 2024
    Publication date: November 7, 2024
    Inventors: Hei Mun Christina FAN, Janice Hoiyi LAI, Sixing LI, Stephen P.A. FODOR, Eleen Yee Lam SHUM
  • Publication number: 20240368687
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Application
    Filed: July 12, 2024
    Publication date: November 7, 2024
    Inventors: Stephen P.A. Fodor, Glenn K. Fu
  • Publication number: 20240352523
    Abstract: This disclosure provides for devices, methods, and systems for performing a non-invasive prenatal testing (NIPT) digital assay upon generating at least a large number of counts per chromosome for a set of chromosomes present in a sample, where performing the NIPT digital assay can include: distributing nucleic acids of the sample and materials for an amplification reaction across a plurality of partitions; amplifying the nucleic acids with the materials, within the plurality of partitions; and generating counts per chromosome upon detecting signals from the plurality of partitions. The inventions enable processing of samples for NIPT digital analyses and/or other digital analyses involving other loci of interest, with unprecedented partitioning, reaction, readout, and analytical performance.
    Type: Application
    Filed: June 28, 2024
    Publication date: October 24, 2024
    Inventors: Eleen Yee Lam SHUM, Hei Mun Christina FAN, Stephen P.A. FODOR, Janice Hoiyi LAI, Jung Won KEUM, Haeun Grace LEE
  • Publication number: 20240344118
    Abstract: Systems, methods, and compositions for generating a spatial map of a distribution of targets of a sample are described. A system for mapping targets can include a substrate; and a distribution of functionalized features associated with the substrate, wherein a representative feature of the distribution of functionalized features comprises: one or more functionalized molecules coupled to the representative feature, the one or more molecules including at least: a handshake sequence comprising a reactive portion, a barcode segment serving as a spatial address, and a cleavable linker configured to allow the handshake sequence to be released from the representative feature in response to a stimulus. The system can be used to tag nuclei, cells, and/or other target components of a sample.
    Type: Application
    Filed: March 29, 2024
    Publication date: October 17, 2024
    Inventors: Christina CHANG, Stephen P.A. FODOR, Christina Hei Mun FAN, Anaram SHAHRAVAN, Julie WILHELMY, Bertrand YEUNG
  • Publication number: 20240318264
    Abstract: The disclosure provides for methods, compositions, and kits for multiplex nucleic acid analysis of single cells. The methods, compositions and systems may be used for massively parallel single cell sequencing. The methods, compositions and systems may be used to analyze thousands of cells concurrently. The thousands of cells may comprise a mixed population of cells (e.g., cells of different types or subtypes, different sizes).
    Type: Application
    Filed: May 1, 2024
    Publication date: September 26, 2024
    Inventors: Christina Fan, Stephen P.A. Fodor, Glenn Fu, Geoffrey Richard Facer, Julie Wilhelmy
  • Publication number: 20240294991
    Abstract: The disclosure provides for methods, compositions, and kits for multiplex nucleic acid analysis of single cells. The methods, compositions and systems may be used for massively parallel single cell sequencing. The methods, compositions and systems may be used to analyze thousands of cells concurrently. The thousands of cells may comprise a mixed population of cells (e.g., cells of different types or subtypes, different sizes).
    Type: Application
    Filed: May 1, 2024
    Publication date: September 5, 2024
    Inventors: Christina Fan, Stephen P.A. Fodor, Glenn Fu, Geoffrey Richard Facer, Julie Wilhelmy
  • Publication number: 20240287602
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Application
    Filed: May 1, 2024
    Publication date: August 29, 2024
    Inventors: Stephen P.A. Fodor, Glenn K. Fu
  • Publication number: 20240279734
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Application
    Filed: April 23, 2024
    Publication date: August 22, 2024
    Inventors: Stephen P.A. Fodor, Glenn K. Fu
  • Patent number: 12060607
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Grant
    Filed: April 10, 2020
    Date of Patent: August 13, 2024
    Assignee: Becton, Dickinson and Company
    Inventors: Stephen P. A. Fodor, Glenn K. Fu
  • Patent number: 12049668
    Abstract: The disclosure provides compositions, methods, and systems for implementation of highly multiplexed molecular diagnostic assays involving color combinatorics, stimulus-responsive probes, tandem probes, conjugated polymer probes, and other mechanisms for increasing the number of targets that can be simultaneously detected in a digital assay. Multiplexed detection of targets is achieved in a rapid manner, with respect to sample partitioning and target detection using multiple color channels for detection. Implementation of methods described also achieve detection with significantly improved signal-to-noise ratio (SNR) values.
    Type: Grant
    Filed: October 5, 2023
    Date of Patent: July 30, 2024
    Assignee: ENUMERIX, INC.
    Inventors: Eleen Yee Lam Shum, Hei Mun Christina Fan, Stephen P. A. Fodor, Janice Hoiyi Lai, Jung Won Keum, Haeun Grace Lee
  • Patent number: 12000842
    Abstract: This disclosure provides for devices, methods, and systems for generating a plurality of droplets within a collecting container at an extremely high rate (e.g., of at least 1 million droplets per minute, etc.), each of the plurality of droplets comprising an aqueous mixture for a digital analysis, wherein upon generation, the plurality of droplets is stabilized in position within a region of the collecting container. The inventions enable partitioning of samples for digital analyses at unprecedented rates, where readout of signals from targets within such partitions can still be achieved in accordance with various assays.
    Type: Grant
    Filed: April 1, 2022
    Date of Patent: June 4, 2024
    Assignee: ENUMERIX, INC.
    Inventors: Hei Mun Christina Fan, Janice Hoiyi Lai, Sixing Li, Stephen P. A. Fodor, Eleen Yee Lam Shum
  • Patent number: 11993814
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Grant
    Filed: March 27, 2023
    Date of Patent: May 28, 2024
    Assignee: Becton, Dickinson and Company
    Inventors: Stephen P. A. Fodor, Glenn K. Fu
  • Patent number: 11970737
    Abstract: Compositions, methods and kits are disclosed for high-sensitivity single molecule digital counting by the stochastic labeling of a collection of identical molecules by attachment of a diverse set of labels. Each copy of a molecule randomly chooses from a non-depleting reservoir of diverse labels. Detection may be by a variety of methods including hybridization based or sequencing. Molecules that would otherwise be identical in information content can be labeled to create a separately detectable product that is unique or approximately unique in a collection. This stochastic transformation relaxes the problem of counting molecules from one of locating and identifying identical molecules to a series of binary digital questions detecting whether preprogrammed labels are present. The methods may be used, for example, to estimate the number of separate molecules of a given type or types within a sample.
    Type: Grant
    Filed: August 26, 2019
    Date of Patent: April 30, 2024
    Assignee: Becton, Dickinson and Company
    Inventors: Stephen P. A. Fodor, Glenn K. Fu