Patents by Inventor Radoje T. Drmanac

Radoje T. Drmanac 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: 20180350259
    Abstract: Exemplary embodiments of the present invention beneficially provide systems, computer-implemented methods, and computer-readable program products to facilitate a plurality of user-driven virtual sponsoring sessions for a plurality of users through one or more user-designed virtual sponsors where the topic of the virtual sponsoring session, the type of virtual sponsoring session, and the form of each virtual sponsoring statement is controlled by each of the plurality of users. The virtual sponsoring sessions can be for any subject matter domain through user-designed virtual sponsors that have no domain-specific knowledge, such that users are provided with real-time, on-demand access to virtual sponsoring services via a user-designed virtual sponsor designed and constructed responsive to the personality, preferences, and specifications of each individual user.
    Type: Application
    Filed: March 7, 2018
    Publication date: December 6, 2018
    Inventors: Radoje T. Drmanac, Snezana Drmanac
  • Publication number: 20180002735
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.
    Type: Application
    Filed: March 13, 2017
    Publication date: January 4, 2018
    Applicant: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew J. Callow
  • Publication number: 20160378916
    Abstract: The present invention is directed to logic for analysis of nucleic acid sequence data that employs algorithms that lead to a substantial improvement in sequence accuracy and that can be used to phase sequence variations, e.g., in connection with the use of the long fragment read (LFR) process.
    Type: Application
    Filed: June 28, 2016
    Publication date: December 29, 2016
    Inventors: Radoje T. Drmanac, Brock A. Peters, Bahram Ghaffarzadeh Kermani
  • Patent number: 9476054
    Abstract: The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.
    Type: Grant
    Filed: October 31, 2007
    Date of Patent: October 25, 2016
    Assignee: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew Callow, Snezana Drmanac
  • Publication number: 20160194686
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.
    Type: Application
    Filed: December 7, 2015
    Publication date: July 7, 2016
    Inventors: Radoje T. Drmanac, Matthew J. Callow
  • Patent number: 9334490
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are constructs that include pairs of target sequences which are separated by a known distance in the polynucleotide from which they are derived.
    Type: Grant
    Filed: November 9, 2007
    Date of Patent: May 10, 2016
    Assignee: COMPLETE GENOMICS, INC.
    Inventor: Radoje T. Drmanac
  • Patent number: 9238834
    Abstract: Methods are provided for efficient shotgun sequencing to allow efficient selection and sequencing of nucleic acids of interest contained in a library. The nucleic acids of interest can be defined any time before or after preparation of the library. One example of nucleic acids of interest is missing or low confidence genome sequences resulting from an initial sequencing procedure. Other nucleic acids of interest include subsets of genomic DNA, RNA or cDNAs (exons, genes, gene sets, transciptomes). By designing an efficient (simple to implement, speedy, high specificity, low cost) selection procedure, a more complete sequence is achieved with less effort than by using highly redundant shotgun sequencing in an initial sequencing procedure.
    Type: Grant
    Filed: October 8, 2012
    Date of Patent: January 19, 2016
    Assignee: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Clifford Reid
  • Patent number: 9228228
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.
    Type: Grant
    Filed: February 25, 2011
    Date of Patent: January 5, 2016
    Assignee: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew Callow
  • Patent number: 8785127
    Abstract: The invention relates to methods and devices for analyzing single molecules, i.e., nucleic acids. Such single molecules may be derived from natural samples, such as cells, tissues, soil, air, and water without separating or enriching individual components. In certain aspects of the invention, the methods and devices are useful in performing nucleic acid sequence analysis by probe hybridization.
    Type: Grant
    Filed: October 1, 2012
    Date of Patent: July 22, 2014
    Assignee: Callida Genomics, Inc.
    Inventor: Radoje T. Drmanac
  • Patent number: 8722326
    Abstract: The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.
    Type: Grant
    Filed: October 31, 2007
    Date of Patent: May 13, 2014
    Assignee: Callida Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew Callow, Snezana Drmanac
  • Patent number: 8445196
    Abstract: Random arrays of single molecules are provided for carrying out large scale analyses, particularly of biomolecules, such as genomic DNA, cDNAs, proteins, and the like. In one aspect, arrays of the invention comprise concatemers of DNA fragments that are randomly disposed on a regular array of discrete spaced apart regions, such that substantially all such regions contain no more than a single concatemer. Preferably, such regions have areas substantially less than 1 ?m2 and have nearest neighbor distances that permit optical resolution of on the order of 109 single molecules per cm2. Many analytical chemistries can be applied to random arrays of the invention, including sequencing by hybridization chemistries, sequencing by synthesis chemistries, SNP detection chemistries, and the like, to greatly expand the scale and potential applications of such techniques.
    Type: Grant
    Filed: October 31, 2007
    Date of Patent: May 21, 2013
    Assignee: Callida Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew J. Callow, Snezana Drmanac, Brian K. Hauser, George Yeung
  • Publication number: 20130071821
    Abstract: Exemplary embodiments of the present invention beneficially provide systems, computer-implemented methods, and computer-readable program products to facilitate a plurality of user-driven virtual sponsoring sessions for a plurality of users through one or more user-designed virtual sponsors where the topic of the virtual sponsoring session, the type of virtual sponsoring session, and the form of each virtual sponsoring statement is controlled by each of the plurality of users. The virtual sponsoring sessions can be for any subject matter domain through user-designed virtual sponsors that have no domain-specific knowledge, such that users are provided with real-time, on-demand access to virtual sponsoring services via a user-designed virtual sponsor designed and constructed responsive to the personality, preferences, and specifications of each individual user.
    Type: Application
    Filed: April 30, 2010
    Publication date: March 21, 2013
    Inventors: Radoje T. Drmanac, Snezana Drmanac
  • Patent number: 8278039
    Abstract: The invention relates to methods and devices for analyzing single molecules, i.e. nucleic acids. Such single molecules may be derived from natural samples, such as cells, tissues, soil, air and water without separating or enriching individual components. In certain aspects of the invention, the methods and devices are useful in performing nucleic acid sequence analysis by probe hybridization.
    Type: Grant
    Filed: October 31, 2007
    Date of Patent: October 2, 2012
    Assignee: Complete Genomics, Inc.
    Inventor: Radoje T. Drmanac
  • Publication number: 20120135893
    Abstract: The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.
    Type: Application
    Filed: October 31, 2007
    Publication date: May 31, 2012
    Applicant: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew Callow, Snezana Drmanac
  • Patent number: 8105771
    Abstract: The invention relates to methods and devices for analyzing single molecules, i.e. nucleic acids. Such single molecules may be derived from natural samples, such as cells, tissues, soil, air and water without separating or enriching individual components. In certain aspects of the invention, the methods and devices are useful in performing nucleic acid sequence analysis by probe hybridization.
    Type: Grant
    Filed: February 26, 2004
    Date of Patent: January 31, 2012
    Assignee: Callida Genomics, Inc.
    Inventor: Radoje T. Drmanac
  • Publication number: 20120004126
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.
    Type: Application
    Filed: February 25, 2011
    Publication date: January 5, 2012
    Applicant: COMPLETE GENOMICS, INC.
    Inventors: Radoje T. Drmanac, Matthew Callow
  • Publication number: 20110268724
    Abstract: The invention provides novel polynucleotides and polypeptides encoded by such polynucleotides and mutants or variants thereof that correspond to a novel human secreted CD84-like polypeptide. These polynucleotides comprise nucleic acid sequences isolated from cDNA library from human spleen (Hyseq clone identification numbers 2938352 (SEQ ID NO: 1)). Other aspects of the invention include vectors containing processes for producing novel human secreted CD84-like polypeptides, and antibodies specific for such polypeptides.
    Type: Application
    Filed: July 8, 2011
    Publication date: November 3, 2011
    Inventors: Chiaoyun Kuo, Bryan J. Boyle, Jian-Rui Wang, Y. Tom Tang, Chenghua Liu, Radoje T. Drmanac
  • Patent number: 8034566
    Abstract: The invention provides methods for sequencing by hybridization (SBH) using pools of probes that allow greater efficiency in conducting SBH by reducing the number of separate measurements of hybridization signals required to identify each particular nucleotide in a target nucleic acid sequence. The invention also provides pools and sets of pools of probes, as well as methods of generating pools of probes.
    Type: Grant
    Filed: October 30, 2007
    Date of Patent: October 11, 2011
    Assignee: Callida Genomics, Inc.
    Inventors: Radoje T. Drmanac, Snezana Drmanac, David Kita, Cory Cooke, Chongjun Xu
  • Patent number: 7981413
    Abstract: The invention provides novel polynucleotides and polypeptides encoded by such polynucleotides and mutants or variants thereof that correspond to a novel human secreted CD84-like polypeptide. These polynucleotides comprise nucleic acid sequences isolated from cDNA library from human spleen (Hyseq clone identification numbers 2938352 (SEQ ID NO: 1)). Other aspects of the invention include vectors containing processes for producing novel human secreted CD84-like polypeptides, and antibodies specific for such polypeptides.
    Type: Grant
    Filed: August 20, 2008
    Date of Patent: July 19, 2011
    Assignee: ARCA Biopharma Inc.
    Inventors: Chiaoyun Kuo, Bryan J. Boyle, Jian Rui Wang, Y. Tom Tang, Chenghua Liu, Radoje T. Drmanac
  • Patent number: 7910354
    Abstract: The present invention is related generally to analysis of polynucleotides, particularly polynucleotides derived from genomic DNA. The invention provides methods, compositions and systems for such analysis. Encompassed by the invention are arrays of polynucleotides in which the polynucleotides have undergone multiple rounds of amplification in order to increase the strength of signals associated with single polynucleotide molecules.
    Type: Grant
    Filed: October 29, 2007
    Date of Patent: March 22, 2011
    Assignee: Complete Genomics, Inc.
    Inventors: Radoje T. Drmanac, Matthew Callow