Patents by Inventor Michael Siani-Rose

Michael Siani-Rose 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).

  • Method, system and computer software providing a genomic web portal for functional analysis of alternative splice variants
    Publication number: 20040049354
    Abstract: A system for analyzing alternative splice variant sequences is described, comprising an input manager for receiving alternative splice variant sequences that are identified by one or more probe sets, a correlator that correlates functional domains with each of the alternative splice variant sequences and an associater that associates putative functions with the alternative splice variant sequences based upon a combination of the functional domains. A method for analyzing alternative splice variant sequences is also described, comprising the acts of receiving alternative splice variant sequences that are identified by one or more probe sets, correlating functional domains with the alternative splice variant sequences and associating putative functions with the alternative splice variant sequences based upon a combination of the functional domains.
    Type: Application
    Filed: April 25, 2003
    Publication date: March 11, 2004
    Applicants: Affymetrix, Inc., a Corporation Organized under the laws of Delaware
    Inventors: Ann Loraine, Melissa Cline, Gregg A. Helt, Michael A. Siani-Rose, David C. Kulp, Ron T. Shigeta
  • METHOD, SYSTEM AND COMPUTER SOFTWARE FOR ONLINE ORDERING OF CUSTOM PROBE ARRAYS
    Publication number: 20030120432
    Abstract: A genomic portal system is described that receives user-selected identifiers of potential probes. The system determines verified probes corresponding to the identifiers and generates a custom probe array design. The system then displays the custom probe array design to the user via a graphical user interface and receives a user selection specifying acceptance, modification, or rejection of the design. The system provides the user with the accepted or modified custom probe array. The system may also enable a number of users to share space on a custom probe array. Another optional feature is to enable a number of users to share in ordering portions of a lot of catalog probe arrays to take advantage of economies of scale from lot-size purchases.
    Type: Application
    Filed: November 26, 2002
    Publication date: June 26, 2003
    Applicant: Affymetrix, Inc.
    Inventors: Xue Mei Zhou , David P. Smith , Elizabeth M. Kerr , Lianne McLean , Shaw Sun , Michael A. Siani-Rose , Michael A. Mittman , Shawn H. Becker , Lee A. Jacobek
  • METHOD, SYSTEM AND COMPUTER SOFTWARE FOR VARIANT INFORMATION VIA A WEB PORTAL
    Publication number: 20030100995
    Abstract: A genomic web portal is described that receives from a user over the Internet a selection of identifiers of probes for detecting biological molecules. The portal may also receive hybridization intensity values produced from biological probe array experiments. The portal determines alternative splice variants based on factors that may include the hybridization intensity values. The portal correlates alternative splice variants with annotation data and provides for the user a graphical representation of the alternative splice variants and the correlated annotation data. The selection of annotation data to be displayed may be based on a user selection of a genomic, primary-transcript, mRNA, or protein display type.
    Type: Application
    Filed: November 26, 2002
    Publication date: May 29, 2003
    Applicant: Affymetrix, Inc.
    Inventors: Ann E. Loraine , Gregg A. Helt , Michael A. Siani-Rose , David C. Kulp
  • Computer software for automated annotation of biological sequences
    Publication number: 20030023384
    Abstract: Methods, software products and systems are provided for automated high throughout gene characterization. In one exemplary embodiment, HMM models are used to characterize genes. Biological sequences are classified according to their hit with different HMM models using a curve analysis.
    Type: Application
    Filed: December 5, 2001
    Publication date: January 30, 2003
    Inventors: Michael A. Siani-Rose, Ron Shigeta
  • Method, system, and computer software for providing a genomic web portal
    Publication number: 20020183936
    Abstract: A genomic portal system receives from a user a selection of one or more probe-set identifiers associated with one or more probe sets. The probe-set identifiers may be submitted in a batch file and may include one or more annotation terms. The system also correlates the user-selected probe-set identifiers with one or more biological sequences, and correlates the one or more biological sequences with a first set of probe sets. A network server identifies the first set of probe sets to the user. The genomic portal system may also receive from a user a selection of one or more probe-set identifiers associated with one or more probe sets, wherein the probe-set identifiers include one or more biological sequences. The system periodically update one or more local genomic databases, clusters the one or more biological sequences based on the local genomic databases, and provide the clustered data to a user.
    Type: Application
    Filed: May 2, 2002
    Publication date: December 5, 2002
    Applicant: Affymetrix, Inc.
    Inventors: David C. Kulp, Michael A. Siani-Rose, Shaw Sun, Ron T. Shigeta, Guoying Liu, Stephen Chervitz Trutane
  • Nucleic acid endocing growth factor protein
    Publication number: 20020164709
    Abstract: The present invention provides a novel growth factor polynucleotide, growth factor polypeptide, gene delivery vehicles comprising and/or expressing the growth factor polynucleotide, antibodies and fragments capable of specifically binding to the growth factor polypeptide, receptors of the growth factor polypeptide, modulators of the growth factor activity, and modulators of growth factor expression. Also provided by the invention are host cells and transgenic organisms comprising the gene delivery vehicle of the present invention. Also provided by the invention are computer readable media containing the polynucleotide or polypeptide sequences of the present invention. Further provided are methods of using these compositions for diagnosis and treatment of growth factor associated diseases.
    Type: Application
    Filed: February 26, 2002
    Publication date: November 7, 2002
    Applicant: Affymetrix, INC. A corporation organized under the laws of Delaware
    Inventors: Ron T. Shigeta, Michael A. Siani-Rose
  • Nucleic acid endocing growth factor protein
    Publication number: 20020123083
    Abstract: The present invention provides a novel growth factor polynucleotide, growth factor polypeptide, gene delivery vehicles comprising and/or expressing the growth factor polynucleotide, antibodies and fragments capable of specifically binding to the growth factor polypeptide, receptors of the growth factor polypeptide, modulators of the growth factor activity, and modulators of growth factor expression. Also provided by the invention are host cells and transgenic organisms comprising the gene delivery vehicle of the present invention. Also provided by the invention are computer readable media containing the polynucleotide or polypeptide sequences of the present invention. Further provided are methods of using these compositions for diagnosis and treatment of growth factor associated diseases.
    Type: Application
    Filed: February 26, 2002
    Publication date: September 5, 2002
    Applicant: Affymetrix, INC.
    Inventors: Ron T. Shigeta, Michael A. Siani-Rose