Patents by Inventor Daniel S. Fisher

Daniel S. Fisher 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).

  • Publication number: 20210054461
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Application
    Filed: September 1, 2020
    Publication date: February 25, 2021
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20210002722
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Application
    Filed: July 16, 2020
    Publication date: January 7, 2021
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 10774382
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Grant
    Filed: August 31, 2018
    Date of Patent: September 15, 2020
    Assignee: The Board of Trustees of the Leland Stanford University Junior University
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 10774383
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Grant
    Filed: June 21, 2018
    Date of Patent: September 15, 2020
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 10196689
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Grant
    Filed: February 10, 2016
    Date of Patent: February 5, 2019
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20190024171
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Application
    Filed: August 31, 2018
    Publication date: January 24, 2019
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20180363059
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Application
    Filed: June 21, 2018
    Publication date: December 20, 2018
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20180127827
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Application
    Filed: December 20, 2017
    Publication date: May 10, 2018
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 9909180
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Grant
    Filed: February 4, 2014
    Date of Patent: March 6, 2018
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20160333405
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Application
    Filed: February 10, 2016
    Publication date: November 17, 2016
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 9290811
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Grant
    Filed: June 9, 2015
    Date of Patent: March 22, 2016
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 9234240
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Grant
    Filed: May 6, 2011
    Date of Patent: January 12, 2016
    Assignee: THE BOARD OF TRUSTEES OF THE LELAND STANFORD JUNIOR UNIVERSITY
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20150292009
    Abstract: A precise measurement of the immunological receptor diversity present in a sample is obtained by sequence analysis. Samples of interest are generally complex, comprising more than 102, 103, 104, 105, 106, 107, 108, 109, 1010, 1011, 1012 or more different sequences for a receptor of interest. Immunological receptors of interest include immunoglobulins, T cell antigen receptors, and major histocompatibility receptors. The specific composition of immunological receptor sequence variations in the sample can be recorded and output. The composition is useful for predictive, diagnostic and therapeutic methods relating to the immune capabilities and history of an individual. Such predictions and diagnoses are used to guide clinical decisions.
    Type: Application
    Filed: June 9, 2015
    Publication date: October 15, 2015
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Patent number: 8949523
    Abstract: The present invention provides an HDD performance enhancement system that utilizes excess disk capacity as cache memory to enhance the I/O performance of the drive. The cache memory is distributed throughout the disk, for example in alternating tracks, sectors dedicated to serving as cache, or other distributed cache track segments or segment groups. Distributing the cache throughout the disk reduces the physical distance of the I/O head to the closest available cache location. The system minimizes the write seek time by storing write data in the closest available cache location. High utilization data blocks are stored in multiple cache location locations to reduce read seek time for high utilization data. The cached data is eventually written to permanent memory and cleared from the cache during idle or low data storage utilization periods.
    Type: Grant
    Filed: July 16, 2012
    Date of Patent: February 3, 2015
    Assignee: LSI Corporation
    Inventors: Gregory L. Huff, Daniel S. Fisher, Daniel R. Zaharris
  • Publication number: 20140235478
    Abstract: High-throughput long read sequencing is used to perform immunogenomic characterization of expressed antibody repertoires in the context of vaccination. Informatic analysis allows global characterizations of isotype distributions, determination of the lineage structure of the repertoire and measure age and antigen related mutational activity. Global analysis of the immune system's clonal structure provides direct insight into the effects of vaccination and provides a detailed molecular portrait of age-related effects.
    Type: Application
    Filed: February 4, 2014
    Publication date: August 21, 2014
    Inventors: Stephen R. Quake, Joshua Weinstein, Ning Jiang, Daniel S. Fisher
  • Publication number: 20140207996
    Abstract: An apparatus is described that is configured to control operations in a hybrid hard disk drive. In an implementation, the apparatus includes a hybrid flash storage processor connected to the host interface that is configured to communicatively couple a flash storage component and to a hard disk integrated circuit chip. The integrated circuit chip includes a read/write channel device configured to communicatively couple to a hard disk drive assembly and a hard disk drive controller operatively coupled to the read/write channel device. The hard disk drive controller is configured to operate the read/write channel device to store and to retrieve data on the hard disk drive assembly. The flash storage processor is configured to furnish a command to the integrated circuit chip when the command represents an instruction for accessing the hard disk drive assembly and is configured to access the flash storage component when the command represents an instruction for accessing the flash storage component.
    Type: Application
    Filed: January 18, 2013
    Publication date: July 24, 2014
    Applicant: LSI CORPORATION
    Inventors: Daniel S. Fisher, Daniel R. Zaharris
  • Publication number: 20140032814
    Abstract: A hybrid storage device comprises at least one storage disk, a disk controller configured to control writing of data to and reading of data from the storage disk, a non-volatile electronic memory, and a bridge device coupled between the disk controller and the non-volatile electronic memory. The disk controller comprises a plurality of high-speed serial interfaces. In one embodiment, the high-speed serial interfaces include a first high-speed serial interface configured to interface the disk controller to a host device, and a second high-speed serial interface configured to interface the disk controller to the non-volatile memory via the bridge device. The non-volatile memory may comprise a flash memory, and the bridge device may comprise a flash controller. The disk controller may be implemented in the form of an SOC integrated circuit that is operative in a plurality of modes including a hybrid mode of operation and an enterprise mode of operation.
    Type: Application
    Filed: July 25, 2012
    Publication date: January 30, 2014
    Applicant: LSI Corporation
    Inventors: Daniel S. Fisher, Jun Oie, Jeffrey J. Holm, Philip G. Brace, Daniel J. Dolan, JR.
  • Publication number: 20140019681
    Abstract: The present invention provides an HDD performance enhancement system that utilizes excess disk capacity as cache memory to enhance the I/O performance of the drive. The cache memory is distributed throughout the disk, for example in alternating tracks, sectors dedicated to serving as cache, or other distributed cache track segments or segment groups. Distributing the cache throughout the disk reduces the physical distance of the I/O head to the closest available cache location. The system minimizes the write seek time by storing write data in the closest available cache location. High utilization data blocks are stored in multiple cache location locations to reduce read seek time for high utilization data. The cached data is eventually written to permanent memory and cleared from the cache during idle or low data storage utilization periods.
    Type: Application
    Filed: July 16, 2012
    Publication date: January 16, 2014
    Applicant: LSI CORPORATION
    Inventors: Gregory L. Huff, Daniel S. Fisher, Daniel R. Zaharris
  • Patent number: 6738924
    Abstract: A disc drive includes a base and a disc rotatably attached to the base. A controller for a disc drive uses a system for mapping logical block addresses to actual location on a disc drive stores the number of skipped or defective sectors which occur prior to a target cylinder in a cylinder skip table. The system estimates a starting cylinder location for the selected logical block address. After estimating the cylinder location, a number of skipped defective sectors that have occurred prior to a cylinder start is determined. The starting location of the cylinder is slipped by this amount. A target track and associated head is also determined. Information in the track identification field is used to adjust the actual location on the track and to determine if a track seek to another track is needed.
    Type: Grant
    Filed: January 14, 2000
    Date of Patent: May 18, 2004
    Assignee: Seagate Tech. LLC
    Inventors: Steven S. Williams, Stanton M. Keeler, Daniel S. Fisher, Mike B. Propps, Edward S. Hoskins
  • Patent number: 6157984
    Abstract: A single chip integrated disc/servo controller and processor (CPU) for a disc drive reduces timing overhead associated with processor/controller/memory communication paths, increases speed, reduces the number of ASIC components, and increases reliability. The processor has a core that can be customized and implemented with appropriate hard disc drive specific controller technology including code or algorithms. Timing overhead associated with the conventional multi-chip communication paths is reduced by the inventive structure as the single on-chip processor has direct access to a buffer memory through a buffer manager within the controller logic. This eliminates the pin and pad delays that are present in conventional implementations. This performance increase has a direct positive impact on disc drive performance generally, and more particularly on disc drive performance when running code from the buffer memory.
    Type: Grant
    Filed: May 15, 1997
    Date of Patent: December 5, 2000
    Assignee: Seagate Technology, LLC
    Inventors: Daniel S. Fisher, Stanton M. Keeler