Patents by Inventor Serge Saxonov

Serge Saxonov 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).

  • CAPSULE ARRAY DEVICES AND METHODS OF USE
    Publication number: 20150225778
    Abstract: This disclosure provides microwell capsule array devices. The microwell capsule array devices are generally capable of performing one or more sample preparation operations. Such sample preparation operations may be used as a prelude to one more or more analysis operations. For example, a device of this disclosure can achieve physical partitioning and discrete mixing of samples with unique molecular identifiers within a single unit in preparation for various analysis operations. The device may be useful in a variety of applications and most notably nucleic-acid-based sequencing, detection and quantification of gene expression and single-cell analysis.
    Type: Application
    Filed: February 17, 2015
    Publication date: August 13, 2015
    Inventors: Benjamin Hindson, Serge Saxonov
  • CAPSULE ARRAY DEVICES AND METHODS OF USE
    Publication number: 20150225777
    Abstract: This disclosure provides microwell capsule array devices. The microwell capsule array devices are generally capable of performing one or more sample preparation operations. Such sample preparation operations may be used as a prelude to one more or more analysis operations. For example, a device of this disclosure can achieve physical partitioning and discrete mixing of samples with unique molecular identifiers within a single unit in preparation for various analysis operations. The device may be useful in a variety of applications and most notably nucleic-acid-based sequencing, detection and quantification of gene expression and single-cell analysis.
    Type: Application
    Filed: February 17, 2015
    Publication date: August 13, 2015
    Inventors: Benjamin Hindson, Serge Saxonov
  • CAPSULE ARRAY DEVICES AND METHODS OF USE
    Publication number: 20150224466
    Abstract: This disclosure provides microwell capsule array devices. The microwell capsule array devices are generally capable of performing one or more sample preparation operations. Such sample preparation operations may be used as a prelude to one more or more analysis operations. For example, a device of this disclosure can achieve physical partitioning and discrete mixing of samples with unique molecular identifiers within a single unit in preparation for various analysis operations. The device may be useful in a variety of applications and most notably nucleic-acid-based sequencing, detection and quantification of gene expression and single-cell analysis.
    Type: Application
    Filed: February 17, 2015
    Publication date: August 13, 2015
    Inventors: Benjamin Hindson, Serge Saxonov
  • Methods and Systems for Processing Polynucleotides
    Publication number: 20150218633
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing.
    Type: Application
    Filed: April 7, 2015
    Publication date: August 6, 2015
    Inventors: Benjamin Hindson, Serge Saxonov, Kevin Ness, Paul Hardenbol
  • SEQUENCING METHODS
    Publication number: 20150066385
    Abstract: The invention described herein solves challenges in providing a proficient, rapid and meaningful analysis of sequencing data. Methods and computer program products of the invention allow for a system to receive, analyze, and display sequencing data in real-time. The invention provides solutions to several difficulties encountered in assembling short sequencing-reads, and by doing so the invention improves the worth and significance of sequencing data.
    Type: Application
    Filed: August 27, 2014
    Publication date: March 5, 2015
    Inventors: Michael SCHNALL-LEVIN, Mirna JAROSZ, Serge SAXONOV, Kevin NESS, Benjamin HINDSON
  • Digital assays with multiplexed detection of two or more targets in the same optical channel
    Patent number: 8951939
    Abstract: System, including methods and apparatus, for performing a digital assay with multiplexed detection of two or more distinct targets in the same optical channel.
    Type: Grant
    Filed: July 12, 2012
    Date of Patent: February 10, 2015
    Assignee: Bio-Rad Laboratories, Inc.
    Inventors: Serge Saxonov, Simant Dube, John Frederick Regan
  • METHODS AND COMPOSITIONS FOR DETECTING GENETIC MATERIAL
    Publication number: 20150031034
    Abstract: This invention provides compositions and methods for detecting differences in copy number of a target polynucleotide. In some cases, the methods and compositions provided herein are useful for diagnosis of fetal genetic abnormalities, when the starting sample is maternal tissue (e.g., blood, plasma). The methods and materials described apply techniques for allowing detection of small, but statistically significant, differences in polynucleotide copy number.
    Type: Application
    Filed: September 22, 2014
    Publication date: January 29, 2015
    Inventors: Benjamin Hindson, Serge Saxonov, Philip Belgrader, Kevin Ness, Michael Lucero, Billy Colston
  • METHODS AND COMPOSITIONS FOR NUCLEIC ACID ANALYSIS
    Publication number: 20150011432
    Abstract: Provided herein are methods, compositions, and kits for assays, many of which involve amplification reactions such as digital PCR or droplet digital PCR. The assays may be used for such applications as sequencing, copy number variation analysis, and others. In some cases, the assays involve subdividing a sample into multiple partitions (e.g., droplets) and merging the partitions with other partitions that comprise adaptors with barcodes.
    Type: Application
    Filed: September 22, 2014
    Publication date: January 8, 2015
    Inventor: Serge Saxonov
  • METHODS AND COMPOSITIONS FOR NUCLEIC ACID ANALYSIS
    Publication number: 20150011430
    Abstract: Provided herein are methods, compositions, and kits for assays, many of which involve amplification reactions such as digital PCR or droplet digital PCR. The assays may be used for such applications as sequencing, copy number variation analysis, and others. In some cases, the assays involve subdividing a sample into multiple partitions (e.g., droplets) and merging the partitions with other partitions that comprise adaptors with barcodes.
    Type: Application
    Filed: September 22, 2014
    Publication date: January 8, 2015
    Inventor: Serge Saxonov
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20150005200
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: January 1, 2015
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20150005199
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: January 1, 2015
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20140378345
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: December 25, 2014
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20140378349
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: December 25, 2014
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20140378350
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: December 25, 2014
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • COMPOSITIONS AND METHODS FOR SAMPLE PROCESSING
    Publication number: 20140378322
    Abstract: This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.
    Type: Application
    Filed: June 26, 2014
    Publication date: December 25, 2014
    Inventors: Benjamin Hindson, Christopher Hindson, Michael Schnall-Levin, Kevin Ness, Mirna Jarosz, Donald Masquelier, Serge Saxonov, Landon Merrill, Andrew Price, Paul Hardenbol, Yuan Li
  • Capsule Array Devices and Methods of Use
    Publication number: 20140287963
    Abstract: This disclosure provides microwell capsule array devices. The microwell capsule array devices are generally capable of performing one or more sample preparation operations. Such sample preparation operations may be used as a prelude to one more or more analysis operations. For example, a device of this disclosure can achieve physical partitioning and discrete mixing of samples with unique molecular identifiers within a single unit in preparation for various analysis operations. The device may be useful in a variety of applications and most notably nucleic-acid-based sequencing, detection and quantification of gene expression and single-cell analysis.
    Type: Application
    Filed: April 10, 2014
    Publication date: September 25, 2014
    Applicant: 10X Technologies, Inc.
    Inventors: Benjamin Hindson, Serge Saxonov
  • POLYNUCLEOTIDE BARCODE GENERATION
    Publication number: 20140235506
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing. In some cases, this disclosure provides methods for the generation of polynucleotide barcode libraries, and for the attachment of such polynucleotides to target polynucleotides.
    Type: Application
    Filed: April 11, 2014
    Publication date: August 21, 2014
    Applicant: 10X Technologies, Inc.
    Inventors: Benjamin Hindson, Mirna Jarosz, Paul Hardenbol, Michael Schnall-Levin, Kevin Ness, Serge Saxonov
  • POLYNUCLEOTIDE BARCODE GENERATION
    Publication number: 20140228255
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing. In some cases, this disclosure provides methods for the generation of polynucleotide barcode libraries, and for the attachment of such polynucleotides to target polynucleotides.
    Type: Application
    Filed: February 7, 2014
    Publication date: August 14, 2014
    Applicant: 10X Technologies, Inc.
    Inventors: Benjamin Hindson, Mirna Jarosz, Paul Hardenbol, Michael Schnall-Levin, Kevin Ness, Serge Saxonov
  • PARTITIONING AND PROCESSING OF ANALYTES AND OTHER SPECIES
    Publication number: 20140227684
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing.
    Type: Application
    Filed: February 7, 2014
    Publication date: August 14, 2014
    Applicant: 10X Technologies, Inc.
    Inventors: Benjamin Hindson, Serge Saxonov, Kevin Ness, Paul Hardenbol, Christopher Hindson, Donald Masquelier, Mima Jarosz, Michael Schnall-Levin
  • Methods and Systems for Processing Polynucleotides
    Publication number: 20140206554
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing.
    Type: Application
    Filed: December 12, 2013
    Publication date: July 24, 2014
    Applicant: 10X Technologies, Inc.
    Inventors: Benjamin Hindson, Serge Saxonov, Kevin Ness, Paul Hardenbol