Patents Assigned to Perlegen Sciences, Inc.
  • Publication number: 20150354010
    Abstract: Correlations between polymorphisms and breast cancer are provided. Methods of diagnosing, prognosing, and treating breast cancer are provided. Systems and kits for diagnosis, prognosis and treatment of breast cancer are provided. Methods of identifying breast cancer modulators are also described.
    Type: Application
    Filed: June 12, 2015
    Publication date: December 10, 2015
    Applicants: Perlegen Sciences, Inc., University of Cambridge
    Inventors: David Cox, Dennis Ballinger, Bruce Ponder, Doug Easton
  • Publication number: 20110200588
    Abstract: Methods of treating an individual exhibiting a medical condition are disclosed. The methods involve determining a score of an individual based on the individual's genotypic information, comparing the score to at least one threshold value, wherein the result of the comparison is indicative of a beneficial response to a treatment, and providing a suitable treatment to the individual.
    Type: Application
    Filed: April 27, 2011
    Publication date: August 18, 2011
    Applicant: Perlegen Sciences, Inc.
    Inventors: David R. Cox, Mark A. McCamish
  • Publication number: 20090239226
    Abstract: Correlations between polymorphisms and breast cancer are provided. Methods of diagnosing, prognosing, and treating breast cancer are provided. Systems and kits for diagnosis, prognosis and treatment of breast cancer are provided. Methods of identifying breast cancer modulators are also described.
    Type: Application
    Filed: February 13, 2009
    Publication date: September 24, 2009
    Applicants: PERLEGEN SCIENCES, INC., UNIVERSITY OF CAMBRIDGE
    Inventors: David Cox, Dennis Ballinger, Bruce Ponder, Doug Easton
  • Publication number: 20090239763
    Abstract: Correlations between polymorphisms and breast cancer are provided. Methods of diagnosing, prognosing, and treating breast cancer are provided. Systems and kits for diagnosis, prognosis and treatment of breast cancer are provided. Methods of identifying breast cancer modulators are also described.
    Type: Application
    Filed: February 13, 2009
    Publication date: September 24, 2009
    Applicants: PERLEGEN SCIENCES, INC., UNIVERSITY OF CAMBRIDGE
    Inventors: David Cox, Dennis Ballinger, Bruce Ponder, Doug Easton
  • Publication number: 20090208962
    Abstract: Correlations between polymorphisms and breast cancer are provided. Methods of diagnosing, prognosing, and treating breast cancer are provided. Systems and kits for diagnosis, prognosis and treatment of breast cancer are provided. Methods of identifying breast cancer modulators are also described.
    Type: Application
    Filed: February 13, 2009
    Publication date: August 20, 2009
    Applicants: PERLEGEN SCIENCES, INC., UNIVERSITY OF CAMBRIDGE
    Inventors: DAVID COX, DENNIS BALLINGER, BRUCE PONDER, DOUG EASTON
  • Publication number: 20090124514
    Abstract: Multiple unique selection probes are provided in a single medium. Each selection probe has a sequence that is complementary to a unique target sequence that may be present in a sample under consideration. For example, each selection probe may be complementary to a sequence that includes one of the SNPs used to genotype an organism. Single-stranded selection probes anneal or hybridize with sample sequences having the unique target sequences specified by the selection probe sequences. Sequences from the sample that do not anneal or hybridize with the selection probes are separated from the bound sequences by an appropriate technique. The bound sequences can then be freed to provide a mixture of isolated target sequences, which can be used as needed for the application at hand.
    Type: Application
    Filed: October 24, 2008
    Publication date: May 14, 2009
    Applicant: PERLEGEN SCIENCES, INC.
    Inventors: Glenn Fu, Laura Stuve, Julie Montgomery, John Sheehan, Charit Pethiyagoda, Amy Ollmann, Naiping Shen, Michael Kennemer, Andrew B. Sparks, Dennis Ballinger
  • Publication number: 20090087854
    Abstract: Methods of treating an individual exhibiting a medical condition are disclosed. The methods involve determining a score of an individual based on the individual's genotypic information, comparing the score to at least one threshold value, wherein the result of the comparison is indicative of a beneficial response to a treatment, and providing a suitable treatment to the individual.
    Type: Application
    Filed: September 23, 2008
    Publication date: April 2, 2009
    Applicant: Perlegen Sciences, Inc.
    Inventors: David R. Cox, Mark A. McCamish
  • Publication number: 20090006128
    Abstract: Improved life sciences business systems and methods are disclosed. One or more genomes are scanned for single nucleotide polymorphisms. The polymorphisms are used in association studies for pharmaceutical and diagnostic developments. In certain embodiments, an association study comprises both genotyping of these polymorphisms and resequencing of genomic regions that contain polymorphisms associated with a phenotypic state of interest.
    Type: Application
    Filed: July 3, 2007
    Publication date: January 1, 2009
    Applicant: Perlegen Sciences, Inc.
    Inventors: Bradley A. Margus, David A. Cox
  • Publication number: 20080299125
    Abstract: The invention provides a collection of polymorphic sites associated with response to treatment by an SSRI or placebo in depression patients. The polymorphic sites and others in linkage disequilibrium with them are useful in determining whether to treat a patient with an SSRI or include a patient in a clinical trial to test an SSRI.
    Type: Application
    Filed: June 5, 2007
    Publication date: December 4, 2008
    Applicant: Perlegen Sciences, Inc.
    Inventors: David A. Hinds, David R. Cox, Craig L. Hyde, Hakan Sakul
  • Publication number: 20080280955
    Abstract: In one aspect, the invention provides a method of screening and, optionally, treatment of an individual suffering from an insulin resistance disorder by screening an individual in need of treatment for an insulin resistance disorder for one or more genetic variations indicating a predisposition to a response to an insulin sensitizer; and, optionally, administering or not administering an insulin sensitizer to the individual based on the results of the screening. The insulin sensitizer for which the individual is screened and the insulin sensitizer that is administered or not administered may be the same or different. In another aspect, the invention provides methods comprising identifying one or more genetic variations, e.g.
    Type: Application
    Filed: September 29, 2006
    Publication date: November 13, 2008
    Applicant: Perlegen Sciences, Inc.
    Inventor: Mark A. McCamish
  • Patent number: 7427480
    Abstract: Improved life sciences business systems and methods are disclosed. One or more genomes are scanned for single nucleotide polymorphisms. The polymorphisms are assigned to haplotype blocks, and representative SNPs from the haplotype blocks are used in association studies for pharmaceutical and diagnostic developments.
    Type: Grant
    Filed: July 13, 2005
    Date of Patent: September 23, 2008
    Assignee: Perlegen Sciences, Inc.
    Inventors: Bradley A Margus, David R Cox
  • Patent number: 7341865
    Abstract: Methods and devices are provided for using high-density arrays of diverse chemical entities. In preferred embodiments, small volumes of multiple liquids are delivered to multiple reaction sites on a single substrate where the liquids are constrained to localized reaction sites. The substrate need not be cut apart prior to being used for analysis. Accordingly, the area of the substrate on which analysis may be performed is maximized. In many embodiments of the present invention, constraining regions hinder the transport of liquids between adjacent reaction sites.
    Type: Grant
    Filed: November 26, 2002
    Date of Patent: March 11, 2008
    Assignee: Perlegen Sciences, Inc.
    Inventors: Michael Norris, Mark Trulson
  • Patent number: 7335474
    Abstract: Methods and systems for identifying biological marker-placebo effect correlations are provided. Clinical trial design and data analysis of clinical trial data is modified to accommodate marker-placebo effect correlations.
    Type: Grant
    Filed: September 13, 2004
    Date of Patent: February 26, 2008
    Assignee: Perlegen Sciences, Inc.
    Inventors: Bradley Margus, David Cox, Jesse Hsu
  • Publication number: 20080026367
    Abstract: The present invention relates to business methods for discovery of therapeutic and diagnostic products by identifying variations that occur in the human genome, relating these variations to one another, and, ultimately, relating these variations to the genetic bases of phenotype such as disease resistance, disease susceptibility or drug response.
    Type: Application
    Filed: May 30, 2003
    Publication date: January 31, 2008
    Applicant: Perlegen Sciences, Inc.
    Inventors: David Cox, Nila Patil, Anthony Berno, David Hinds
  • Publication number: 20070166738
    Abstract: Correlations between polymorphisms and breast cancer are provided. Methods of diagnosing, prognosing, and treating breast cancer are provided. Systems and kits for diagnosis, prognosis and treatment of breast cancer are provided. Methods of identifying breast cancer modulators are also described.
    Type: Application
    Filed: November 29, 2006
    Publication date: July 19, 2007
    Applicants: Perlegen Sciences, Inc., University of Cambridge
    Inventors: David Cox, Dennis Ballinger, Bruce Ponder, Doug Easton
  • Publication number: 20070148664
    Abstract: The invention provides a collection of polymorphic sites associated with variations in human skin color, and genes containing or proximal to the sites.
    Type: Application
    Filed: September 1, 2006
    Publication date: June 28, 2007
    Applicants: Perlegen Sciences, Inc.
    Inventors: Krishna Pant, Renee Stokowski, David Cox, Martin Green, Franciscus Van Der Ouderaa, Rebecca Ginger, Amelia Fereday, Wendy Filsell, Carl Jarman, Anthony Dadd
  • Publication number: 20070092889
    Abstract: Compositions and methods for use in the therapeutic and preventative treatment, study, diagnosis and prognosis of PD-related disease are disclosed. Also provided are kits and reagents for prognosis and diagnosis of PD-related disease and related conditions.
    Type: Application
    Filed: June 2, 2006
    Publication date: April 26, 2007
    Applicant: Perlegen Sciences, Inc.
    Inventors: David Cox, Demetrius Maraganore, Dennis Ballinger, Krishna Pant, Timothy Lesnick
  • Publication number: 20070037198
    Abstract: Methods are described for assessing an individual's likelihood of developing or exhibiting a multifactorial trait, and for predicting the effectiveness of a drug treatment regimen in an individual. The methods include determining a plurality of genotypes for the individual at a plurality of biallelic polymorphic loci, using the genotypes to compute a score for the individual, and comparing the score to at least one threshold value. Genetic tests are also described for assessing an individual's likelihood of developing or exhibiting a multifactorial trait.
    Type: Application
    Filed: August 25, 2006
    Publication date: February 15, 2007
    Applicant: Perlegen Sciences, Inc.
    Inventors: David Cox, Mark McCamish
  • Publication number: 20070003938
    Abstract: Disclosed are techniques for reliably detecting target sequences in a complex nucleic acid sample, typically in the range of about 400 MB or greater, without employing a complexity reduction technique. The method employs relatively high quantities of a hybridization competitor, e.g., multiple times the amount of nucleic acid sample present. When the sample and competitor come in contact with nucleic acid probes complementary to target sequences, for an appropriate length of time under defined hybridization conditions (buffer composition, temperature, etc.), the target and probe hybridize reliably.
    Type: Application
    Filed: June 30, 2005
    Publication date: January 4, 2007
    Applicant: Perlegen Sciences, Inc.
    Inventors: Glenn Fu, Heng Tao
  • Patent number: 7135286
    Abstract: Improved pharmaceutical and diagnostic business systems and methods are disclosed. One or more genomes are scanned for single nucleotide polymorphisms. The polymorphisms are assigned to haplotype blocks, and representative SNPs from the haplotype blocks are used in association studies for pharmaceutical and diagnostic development.
    Type: Grant
    Filed: March 26, 2002
    Date of Patent: November 14, 2006
    Assignee: Perlegen Sciences, Inc.
    Inventors: Bradley A. Margus, David R. Cox, Stephen P. A. Fodor