Patents by Inventor Richard Shen

Richard Shen 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: 20140108231
    Abstract: A system allowing traders, etc. to use instant messaging (IM) (or other non-FIX based) communications to input trading instructions directly into a broker's Order Management System (OMS) for managing/executing trades. Accordingly, trading instructions may be provided electronically directly from a buy-side trader, and directly to a sell-side broker's/brokerage's OMS, without the need for the sell-side broker to manually re-key the order into the sell-side firm's OMS. Further, trading instructions are provided in electronic format directly to the broker's OMS without the need for the buy-side trader to have an expensive FIX based OMS or associated FIX connection, which is also expensive, thereby allowing relatively smaller investment houses/buy-side organizations to enjoy the benefits of electronic delivery of trading instructions directly to brokers' OMS.
    Type: Application
    Filed: December 23, 2013
    Publication date: April 17, 2014
    Inventors: Thomas R. Keen, JR., Richard Shen
  • Publication number: 20140080721
    Abstract: Provided herein is a method of inhibiting degradation of nucleic acids during a nucleic acid processing step selected from fragmentation and detection comprising contacting the nucleic acids with a solution comprising gallic acid, analogues, derivatives thereof or mixtures thereof, during the processing step, wherein the contacting inhibits degradation of the nucleic acids. Also provided herein is a method of inhibiting light-induced degradation of nucleic acids. Additionally, provided herein is a method of reducing or inhibiting nucleic acid damage during preparation of a nucleic acid sample comprising fragmenting the nucleic acid sequences in the sample in a solution comprising one of more compounds, the compounds inhibiting degradation of the nucleic acid sequences in the sample.
    Type: Application
    Filed: January 12, 2012
    Publication date: March 20, 2014
    Applicant: ILLUMINA, INC.
    Inventors: Kay Klausing, Min-Jui Richard Shen, John Moore, Vincent Peter Smith, Kevin Hall, Niall Anthony Gormley, Avgousta Ioannou, Epameinondas Fritzilas, Roberto Rigatti
  • Publication number: 20140073514
    Abstract: Provided are methods and apparatuses for performing sequencing using droplet manipulation, for example, via electrowetting-based techniques. Also provided are integrated methods and apparatuses for performing sample preparation and sequencing on the same apparatus. In addition, provided are methods of reducing reagent waste and preloaded consumable cartridges comprising reagents for sample preparation and/or sequencing.
    Type: Application
    Filed: November 19, 2013
    Publication date: March 13, 2014
    Applicant: ILLUMINA, INC.
    Inventors: Min-Jui Richard Shen, Robert C. Kain, Kenneth M. Kuhn, AmirAli Hajhossein Talasaz, Arash Jamshidi, George Sakaldasis, Eric Vermaas, Sebastian Bohm, Tarun Khurana, Helmy A. Eltoukhy, Jian Gong
  • Patent number: 8637242
    Abstract: Provided are methods and apparatuses for performing sequencing using droplet manipulation, for example, via electrowetting-based techniques. Also provided are integrated methods and apparatuses for performing sample preparation and sequencing on the same apparatus. In addition, provided are methods of reducing reagent waste and preloaded consumable cartridges comprising reagents for sample preparation and/or sequencing.
    Type: Grant
    Filed: November 6, 2012
    Date of Patent: January 28, 2014
    Assignee: Illumina, Inc.
    Inventors: Min-Jui Richard Shen, Robert C. Kain, Kenneth M. Kuhn, AmirAli Hajhossein Talasaz, Arash Jamshidi
  • Patent number: 8635296
    Abstract: A system allowing traders, etc. to use instant messaging (IM) (or other non-FIX based) communications to input trading instructions directly into a broker's Order Management System (OMS) for managing/executing trades. Accordingly, trading instructions may be provided electronically directly from a buy-side trader, and directly to a sell-side broker's/brokerage's OMS, without the need for the sell-side broker to manually re-key the order into the sell-side firm's OMS. Further, trading instructions are provided in electronic format directly to the broker's OMS without the need for the buy-side trader to have an expensive FIX based OMS or associated FIX connection, which is also expensive, thereby allowing relatively smaller investment houses/buy-side organizations to enjoy the benefits of electronic delivery of trading instructions directly to brokers' OMS.
    Type: Grant
    Filed: May 8, 2012
    Date of Patent: January 21, 2014
    Assignee: Pivot Inc.
    Inventors: Thomas R. Keen, Jr., Richard Shen
  • Publication number: 20130338042
    Abstract: A method including (a) providing an amplification reagent including an array of sites, and a solution having different target nucleic acids; and (b) reacting the amplification reagent to produce amplification sites each having a clonal population of amplicons from a target nucleic acid from the solution. The reacting can include simultaneously transporting the nucleic acids to the sites at an average transport rate, and amplifying the nucleic acids that transport to the sites at an average amplification rate, wherein the average amplification rate exceeds the average transport rate. The reacting can include producing a first amplicon from a nucleic acid that transports to each of the sites, and producing subsequent amplicons from the nucleic acid or from the first amplicon, wherein the average rate at which the subsequent amplicons are generated exceeds the average rate at which the first amplicon is generated.
    Type: Application
    Filed: March 1, 2013
    Publication date: December 19, 2013
    Applicant: ILLUMINA, INC.
    Inventors: Min-Jui Richard Shen, Jonathan Mark Boutell, Kathryn M. Stephens, Mostafa Ronaghi, Kevin Gunderson, Bala Murali Venkatesan, M. Shane Bowen, Kandaswamy Vijayan
  • Publication number: 20130274148
    Abstract: A portable detector is disclosed for detecting certain analytes of interest, such as genetic material (e.g., nucleic acids). The detector includes a reading component for the detection of the analytes, and control circuitry for controlling operation of the reading component. Processing circuitry may be included to perform both primary analysis of acquired data, and where desired, secondary analysis. Where desired, some or all of the computationally intensive tasks may be off-loaded to enhance the portability and speed of the device. The device may incorporate various types of interface, technologies for reading and analysis, positioning system interfaces, and so forth. A number of exemplary use cases and methods are also disclosed.
    Type: Application
    Filed: March 8, 2013
    Publication date: October 17, 2013
    Applicant: ILLUMINA, INC.
    Inventors: Robert C. Kain, Min-Jui Richard Shen, John A. Moon, Helmy A. Eltoukhy
  • Publication number: 20130244882
    Abstract: A method for detecting nucleic acids by (a) providing a sample having target nucleic acids, each nucleic acid having contiguous first, second, and third domains; (b) contacting the sample with probe sets to form hybridization complexes, wherein each probe set includes (i) a first probe having a sequence that is complementary to the first domain; and (ii) a second probe having a sequence substantially complementary to the third domain; (c) extending the first probes along the second domains of the complexes while the complexes are immobilized on a solid support; (d) ligating the extended first probes to the second probes to form templates; (e) amplifying the templates with primers that are complementary to the first and second priming sequences to produce amplicons; and (f) detecting the amplicons on the surface of a nucleic acid array.
    Type: Application
    Filed: September 6, 2012
    Publication date: September 19, 2013
    Applicant: ILLUMINA, INC.
    Inventors: Arnold Oliphant, John R. Stuelpnagel, Mark S. Chee, Scott L. Butler, Jian-Bing Fan, Min-Jui Richard Shen
  • Publication number: 20130071879
    Abstract: Methods for amplifying nucleic acids are provided. The methods can be used to minimise sequence specific bias caused by the preferential amplification of certain nucleic acid sequences. Methods are described which can lower the efficiency of AT rich templates relative to GC rich templates, thereby minimising GC bias during amplification reactions with multiple templates of different sequence. The methods are suited to solid phase amplification, for example, utilising flow cells.
    Type: Application
    Filed: February 23, 2011
    Publication date: March 21, 2013
    Applicant: ILLUMINA CAMBRIDGE LIMITED
    Inventors: Roberto Rigatti, Jonathan Mark Boutell, Min-Jui Richard Shen
  • Patent number: 8288103
    Abstract: The invention is directed to a variety of multiplexing methods used to amplify and/or genotype a variety of samples simultaneously.
    Type: Grant
    Filed: May 28, 2010
    Date of Patent: October 16, 2012
    Assignee: Illumina, Inc.
    Inventors: Arnold Oliphant, John R. Stuelpnagel, Mark S. Chee, Scott L. Butler, Jian-Bing Fan, Min-Jui Richard Shen
  • Publication number: 20120246249
    Abstract: A system allowing traders, etc. to use instant messaging (IM) (or other non-FIX based) communications to input trading instructions directly into a broker's Order Management System (OMS) for managing/executing trades. Accordingly, trading instructions may be provided electronically directly from a buy-side trader, and directly to a sell-side broker's/brokerage's OMS, without the need for the sell-side broker to manually re-key the order into the sell-side firm's OMS. Further, trading instructions are provided in electronic format directly to the broker's OMS without the need for the buy-side trader to have an expensive FIX based OMS or associated FIX connection, which is also expensive, thereby allowing relatively smaller investment houses/buy-side organizations to enjoy the benefits of electronic delivery of trading instructions directly to brokers' OMS.
    Type: Application
    Filed: May 8, 2012
    Publication date: September 27, 2012
    Applicant: PIVOT SOLUTIONS, INC.
    Inventors: Thomas R. Keen, JR., Richard Shen
  • Publication number: 20120196758
    Abstract: A method of inhibiting light-induced degradation of nucleic acids includes irradiating a portion of the nucleic acids in the presence of a detection solution comprising a polyphenolic compound. A method of detecting a nucleic acid having a fluorescent tag includes irradiating at least a portion of the nucleic acid with light of a suitable wavelength to induce a fluorescence emission and detecting the fluorescence emission. Optionally, the polyphenolic compound is gallic acid, a lower alkyl ester thereof, or mixtures thereof. A kit includes one or more nucleotides, an enzyme capable of catalyzing incorporation of the nucleotides into a nucleic acid strand and a polyphenolic compound suitable for preparing a detection solution.
    Type: Application
    Filed: January 31, 2011
    Publication date: August 2, 2012
    Inventors: Kay KLAUSING, Vincent Smith, Min-Jui Richard Shen, John Moore, Kevin Hall
  • Publication number: 20120122737
    Abstract: The invention provides methods for controlling the density of different molecular species on the surface of a solid support. A first mixture of different molecular species is attached to a solid support under conditions to attach each species at a desired density, thereby producing a derivatized support having attached capture molecules. The derivatized support is treated with a second mixture of different molecular species, wherein different molecular species in the second mixture bind specifically to the different capture molecules attached to the solid support. One or more of the capture molecules can be reversibly modified such that the capture molecules have a different activity before and after the second mixture of molecular species are attached. In particular embodiments, the different molecular species are nucleic acids that are reversibly modified to have different activity in an amplification reaction.
    Type: Application
    Filed: August 25, 2009
    Publication date: May 17, 2012
    Applicant: ILLUMINA, INC.
    Inventors: Andrea Sabot, Roberto Rigatti, Min-Jui Richard Shen
  • Patent number: 8176127
    Abstract: A system allowing traders, etc. to use instant messaging (IM) (or other non-FIX based) communications to input trading instructions directly into a broker's Order Management System (OMS) for managing/executing trades. Accordingly, trading instructions may be provided electronically directly from a buy-side trader, and directly to a sell-side broker's/brokerage's OMS, without the need for the sell-side broker to manually re-key the order into the sell-side firm's OMS. Further, trading instructions are provided in electronic format directly to the broker's OMS without the need for the buy-side trader to have an expensive FIX based OMS or associated FIX connection, which is also expensive, thereby allowing relatively smaller investment houses/buy-side organizations to enjoy the benefits of electronic delivery of trading instructions directly to brokers' OMS.
    Type: Grant
    Filed: July 29, 2005
    Date of Patent: May 8, 2012
    Assignee: Pivot Solutions, Inc.
    Inventors: Thomas R. Keen, Jr., Richard Shen
  • Patent number: 8003354
    Abstract: The invention is directed to a variety of multiplexing methods used to amplify and/or genotype a variety of samples simultaneously.
    Type: Grant
    Filed: February 15, 2008
    Date of Patent: August 23, 2011
    Assignee: Illumina, Inc.
    Inventors: Min-Jui Richard Shen, Arnold Oliphant, Scott L. Butler, John R. Stuelpnagel, Mark S. Chee, Kenneth M. Kuhn, Jian-Bing Fan
  • Patent number: 7955794
    Abstract: The invention is directed to a variety of multiplexing methods used to amplify and/or genotype a variety of samples simultaneously.
    Type: Grant
    Filed: June 20, 2002
    Date of Patent: June 7, 2011
    Assignee: Illumina, Inc.
    Inventors: Mun-Jui Richard Shen, Arnold Oliphant, Scott L. Butler, John E. Stuelpnagel, Mark S. Chee, Kenneth M. Kuhn, Jian-Bing Fan
  • Publication number: 20100311064
    Abstract: The invention is directed to a variety of multiplexing methods used to amplify and/or genotype a variety of samples simultaneously.
    Type: Application
    Filed: May 28, 2010
    Publication date: December 9, 2010
    Applicant: Illumina, Inc.
    Inventors: Arnold Oliphant, John R. Stuelpnagel, Mark S. Chee, Scott L. Butler, Jian-Bing Fan, Min-Jui Richard Shen
  • Publication number: 20100151473
    Abstract: Methods and compositions for hybridizing nucleic acids are disclosed herein. Also disclosed herein are methods and compositions to detect a nucleic acid provided to an array.
    Type: Application
    Filed: December 9, 2009
    Publication date: June 17, 2010
    Inventors: Joanne M. Yeakley, Ross Edward Lenta, Min-Jui Richard Shen
  • Publication number: 20100015626
    Abstract: The invention is directed to a variety of multiplexing methods used to amplify and/or genotype a variety of samples simultaneously.
    Type: Application
    Filed: July 21, 2009
    Publication date: January 21, 2010
    Applicant: Illumina, Inc.
    Inventors: Arnold Oliphant, John R. Stuelpnagel, Mark S. Chee, Scott L. Butler, Jian-Bing Fan, Min-Jui Richard Shen
  • Publication number: 20090226975
    Abstract: The invention provides methods for controlling the density of different molecular species on the surface of a solid support. A first mixture of different molecular species is attached to a solid support under conditions to attach each species at a desired density, thereby producing a derivatized support having attached capture molecules. The derivatized support is treated with a second mixture of different molecular species, wherein different molecular species in the second mixture bind specifically to the different capture molecules attached to the solid support. One or more of the capture molecules can be reversibly modified such that the capture molecules have a different activity before and after the second mixture of molecular species are attached. In particular embodiments, the different molecular species are nucleic acids that are reversibly modified to have different activity in an amplification reaction.
    Type: Application
    Filed: February 27, 2009
    Publication date: September 10, 2009
    Applicant: Illumina, Inc.
    Inventors: Andrea Sabot, Roberto Rigatti, Min-Jui Richard Shen