Patents by Inventor Yong Xu

Yong Xu 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: 6919194
    Abstract: The present invention relates to recombinant DNA which encodes the Tth111II restriction endonuclease-methylase fusion protein (Tth111IIRM), expression of Tth111II restriction endonuclease-methylase fusion protein in E. coli cells containing the recombinant DNA, and purification of Tth111II endonuclease-methylase fusion protein to near homogeneity.
    Type: Grant
    Filed: January 8, 2003
    Date of Patent: July 19, 2005
    Assignee: New England Biolabs, Inc.
    Inventors: Zhenyu Zhu, Derek Robinson, Jack Benner, Shuang-yong Xu
  • Publication number: 20050153313
    Abstract: The invention relates to newly discovered nucleic acid molecules and proteins associated with ovarian cancer. Compositions, kits, and methods for detecting, characterizing, preventing, and treating human ovarian cancers are provided.
    Type: Application
    Filed: October 7, 2004
    Publication date: July 14, 2005
    Applicant: MILLENNIUM PHARMACEUTICALS, INC.
    Inventors: Wilson Endege, Donna Ford, Manjula Gannavarapu, Karen Glatt, Sebastian Hoersch, Shubhangi Kamatkar, John Monahan, Robert Schlegel, Yong Xu, Xumei Zhao
  • Publication number: 20050136462
    Abstract: Methods are provided for identifying novel strand-specific nicking endonucleases by means of in vitro backcrosses of mutagenized restriction endonuclease genes with their wild-type counterpart and identifying the resulting nicking endonucleases by their cleavage activity and their strand specificity. Examples of nicking endonucleases identified by this method include Nt.Bsa I and Nb.BsaI, Nt.BsmAI and Nb.BsmAI and Nt.BsmBI.
    Type: Application
    Filed: December 15, 2004
    Publication date: June 23, 2005
    Applicant: New England Biolabs, Inc.
    Inventors: Zhenyu Zhu, Shuang-yong Xu
  • Publication number: 20050071142
    Abstract: A method for simulation of at least one biological and/or chemical reaction pathway comprising: preparing a map of at least one biological and/or chemical reaction pathway; constructing at least one set of binding and reaction equation from the pathway map; constructing at least one set of concentration equation for molecules of the pathway map; constructing an electronic circuit corresponding to every set of equation; determining simulation of pathway by measuring voltage at two or more connection points of the circuit. It is also provided a method for molecular dynamics simulation of biomolecules and/or nano-molecular systems comprising: constructing at least one set of equation representing the molecular dynamics of at least one molecule of the biomolecules and/or the nano-molecular systems; constructing an electronic circuit representing every set of equation; determining molecular dynamics simulation by measuring voltage at two or more connection points of the circuit.
    Type: Application
    Filed: September 29, 2003
    Publication date: March 31, 2005
    Inventors: Yu Chen, Yong Xu, Jianzhong Chen
  • Patent number: 6869786
    Abstract: The present invention relates to recombinant DNA encoding the BsrGI restriction endonuclease as well as BsrGI methyltransferase, expression of BsrGI restriction endonuclease and BsrGI methyltransferase in E. coli cells containing the recombinant DNA.
    Type: Grant
    Filed: January 8, 2003
    Date of Patent: March 22, 2005
    Assignee: New England Biolabs, Inc.
    Inventors: Ningyuan Fang, Shuang-yong Xu
  • Publication number: 20050055184
    Abstract: Data from a target system (616) that exhibits a non-linear relationship between system properties and measurement data, is processed by applying a linear filter (F) to improve resolution and accuracy. The filter reduces inaccuracies that are introduced by an algorithm used to reconstruct the data. The filter is defined by assigning time varying functions, such as sinusoids (200), to elements (210) in a model (Y) of the system to perturbate the elements. The resulting data output from the model is reconstructed using the same algorithm used to subsequently reconstruct the data from the target system. The filter is defined as a matrix (F) that transforms the reconstructed data of the model (X) back toward the known properties of the model (Y). A library of filters can be pre-calculated for different applications. In an example implementation, the system is tissue that is imaged using optical tomography.
    Type: Application
    Filed: July 19, 2004
    Publication date: March 10, 2005
    Applicant: NIRx Medical Technologies, L.L.C.
    Inventors: Randall Barbour, Harry Graber, Yaling Pei, Yong Xu
  • Publication number: 20050042642
    Abstract: The invention relates to nucleic acid molecules and proteins associated with breast cancer. Compositions, kits, and methods for detecting, characterizing, preventing, and treating human breast cancers are provided.
    Type: Application
    Filed: May 26, 2004
    Publication date: February 24, 2005
    Applicant: MILLENNIUM PHARMACEUTICALS, INC.
    Inventors: John Monahan, Sebastian Hoersch, Dustin Anderson, Wilson Endege, Donna Ford, Karen Glatt, Bella Gorbatcheva, Shubhangi Kamatkar, Yong Xu, Manjula Gannavarapu, Xumei Zhao, Robert Schlegel, Maureen Mertens
  • Publication number: 20050003420
    Abstract: A method is described for increasing the activity of restriction endonuclease mutants that have altered binding or cleavage activities. Restriction endonuclease variants can carry one or more amino acid substitutions that change substrate specificity and at the same time decrease the enzyme catalytic activity. A method is described for isolating derivatives of the endonuclease variants by subjecting them to additional rounds of mutagenesis and screening in a dinD::lacZ indicator strain, such that second-site mutations within the nucleotide coding sequence of the endonuclease are obtained that increased the enzyme specific activity.
    Type: Application
    Filed: June 23, 2004
    Publication date: January 6, 2005
    Inventors: Shuang-yong Xu, Zhenyu Zhu, Paul Riggs, Pei-chung Hsieh
  • Patent number: 6825539
    Abstract: An IC-integrated, flexible, shear-stress sensor skin is made by providing a wafer with integrated circuits and sensor elements which are fabricated in the wafer, disposing a first polymer layer on the wafer and sensor elements to provide mechanical support for the sensor elements, defining a cavity below the sensor elements to provide thermal isolation, while the sensor element remains supported by the first polymer layer, and isolating the sensor elements into a plurality of islands defined in the wafer, so that the islands, with at least one sensor element on at least one of the islands, and the integrated circuits form the IC-integrated, flexible, shear-stress sensor skin. The invention is an IC-integrated, flexible, sensor skin made according to the method.
    Type: Grant
    Filed: March 31, 2003
    Date of Patent: November 30, 2004
    Assignee: California Institute of Technology
    Inventors: Yu-Chong Tai, Yong Xu
  • Patent number: 6815537
    Abstract: The present invention relates to cloned DNA containing origin of DNA replication and to cloned DNA encoding repliation protein, RepT.
    Type: Grant
    Filed: September 18, 2000
    Date of Patent: November 9, 2004
    Assignee: New England Biolabs, Inc.
    Inventors: Jay Wayne, Shuang-yong Xu
  • Publication number: 20040219584
    Abstract: Methods are provided for altering the cleavage specificity of a Type IIG restriction endonuclease, the Type IIG restriction endonuclease being characterized by a cleavage domain adjacent to a methylase domain, the methylase domain located adjacent to a specificity domain. The method includes ligating DNA or protein sequences to form a fusion DNA or fusion protein. Where a fusion DNA is formed, the host cell is transformed with the fusion DNA to express a Type IIG restriction endonuclease with altered cleavage specificity.
    Type: Application
    Filed: March 15, 2004
    Publication date: November 4, 2004
    Inventors: Shuang-yong Xu, Daniela Kobbe, Zhenyu Zhu, James Samuelson
  • Publication number: 20040219900
    Abstract: A notch filter with a high Q factor, which is integrated with a first and a second cascoded LNA, is totally contained on an integrated chip. The notch filter, comprising two Q-enhancement circuits, is coupled to the second differential LNA. The two Q-enhancement circuits are combined to generate sufficient negative impedance to compensate for the loss in the on-chip low Q inductors. To improve the image rejection of the notch filter in a wide frequency band, the notch filter uses an automatic current tuning circuit which consists of an analog multiplier and fixed and voltage controlled current sources. Furthermore, by modifying the connection and location of the tunable varactor, another wideband tunable notch filter is implemented. The notch filter can be applied in all current wireless receiver systems.
    Type: Application
    Filed: April 30, 2003
    Publication date: November 4, 2004
    Applicant: Agency for Science, Technology and Research
    Inventors: Yuanjin Zheng, Sheng Jau Wong, Yong Xu
  • Publication number: 20040209257
    Abstract: The present invention relates to recombinant DNA encoding the AcuI restriction endonuclease as well as AcuI methylase, and expression of AcuI restriction endonuclease and AcuI methylase in E. coli cells containing the recombinant DNA.
    Type: Application
    Filed: April 16, 2003
    Publication date: October 21, 2004
    Inventors: James Samuelson, Shuang-Yong Xu, Diana O'Loane
  • Patent number: 6794172
    Abstract: The present invention relates to recombinant DNA encoding the PpuMI restriction endonuclease as well as PpuMI methylase, expression of PpuMI restriction endonuclease and PpuMI methylase in E. coli cells containing the recombinant DNA.
    Type: Grant
    Filed: May 17, 2002
    Date of Patent: September 21, 2004
    Assignee: New England Biolabs, Inc.
    Inventors: James Samuelson, Shuang-yong Xu
  • Publication number: 20040175816
    Abstract: The present invention relates to recombinant DNA encoding the OkrAI restriction endonuclease as well as OkrAI methylase, expression of OkrAI restriction endonuclease in E. coli cells containing the recombinant DNA.
    Type: Application
    Filed: March 3, 2003
    Publication date: September 9, 2004
    Applicant: New England Biolabs, Inc.
    Inventors: Shuang-Yong Xu, Jian-Ping Xiao, Rebecca B. Kucera, James Samuelson
  • Patent number: 6782755
    Abstract: A surface-micromachined high-pressure sensor, formed by forming a cavity using a sacrificial layer. The sacrificial layer can be reflowed to make the edges of the cavity more rounded. The material that is used for the diaphragm can be silicon nitride, or multiple layers including silicon nitride and other materials. The pressure sensor is intended to be used in high pressure applications, e.g. pressure is higher than 6000, 10,000 or 30,000 P.S.I.
    Type: Grant
    Filed: July 6, 2001
    Date of Patent: August 31, 2004
    Assignees: California Institute of Technology, Schlumberger Technology Corporation
    Inventors: Yu-Chong Tai, Yong Xu, Fukang Jiang
  • Patent number: 6764843
    Abstract: The present invention relates to recombinant DNA that encodes the BsmBI restriction endonuclease as well as BsmBI methyltransferase, expression of BsmBI restriction endonuclease and BsmBI methylase in E. coli cells containing the recombinant DNA. It also relates to a method for purification of the recombinant BsmBI restriction endonuclease.
    Type: Grant
    Filed: September 28, 2001
    Date of Patent: July 20, 2004
    Assignee: New England Biolabs, Inc.
    Inventors: Shuang-yong Xu, Andrew Dore, Adam Hume, John Pelletier, Jing Zhou
  • Publication number: 20040132129
    Abstract: The present invention relates to recombinant DNA which encodes the Tth111II restriction endonuclease-methylase fusion protein (Tth111IIRM), expression of Tth111II restriction endonuclease-methylase fusion protein in E. coli cells containing the recombinant DNA, and purification of Tth111II endonuclease-methylase fusion protein to near homogeneity.
    Type: Application
    Filed: January 8, 2003
    Publication date: July 8, 2004
    Applicant: New England Biolabs, Inc.
    Inventors: Zhenyu Zhu, Derek Robinson, Jack Benner, Shuang-Yong Xu
  • Patent number: 6723546
    Abstract: The present invention relates to recombinant DNA which encodes the BsaI restriction endonuclease as well as BsaI methylase, expression of BsaI restriction endonuclease and BsaI methylase in E. coli cells containing the recombinant DNA, and purification of BsaI restriction endonuclease to near homogeneity.
    Type: Grant
    Filed: March 26, 2002
    Date of Patent: April 20, 2004
    Assignee: New England Biolabs, Inc.
    Inventors: Zhenyu Zhu, Shuang-Yong Xu
  • Patent number: 6673588
    Abstract: The present invention relates to recombinant DNA coding for the MspA1I restriction endonuclease as well as MspA1I methylase, expression of MspA1I restriction endonuclease and MspA1I methylase in E. coli cells containing the recombinant DNA.
    Type: Grant
    Filed: February 26, 2002
    Date of Patent: January 6, 2004
    Assignee: New England Biolabs, Inc.
    Inventors: Shuang-yong Xu, Robert Maunus, Katy Stropnicky