Patents Examined by Teresa Strzelecka
-
Patent number: 9885076Abstract: The present invention provides methods, compositions, kits, systems and apparatus that are useful for multiplex PCR of one or more nucleic acids present in a sample. In particular, various target-specific primers are provided that allow for the selective amplification of one or more target sequences. In one aspect, the invention relates to target-specific primers useful for the selective amplification of one or more target sequences associated with cancer or inherited disease. In some aspects, amplified target sequences obtained using the disclosed methods, kits, systems and apparatuses can be used in various downstream processes including nucleic acid sequencing and used to detect the presence of genetic variants.Type: GrantFiled: July 10, 2015Date of Patent: February 6, 2018Assignee: Life Technologies CorporationInventors: John Leamon, Mark Andersen, Michael Thornton
-
Patent number: 9862990Abstract: The present invention relates to compositions and methods for the use of enzymes composed of nucleic acid and/or protein enzymes to generate and amplify a signal indicative of the presence of a target. More particularly, the invention relates to compositions comprising nucleic acid structures that serve as partial or complete enzyme substrates and methods for using these structures to facilitate detection of targets.Type: GrantFiled: November 21, 2011Date of Patent: January 9, 2018Assignee: SPEEDX PTY LTDInventors: Alison Velyian Todd, Evelyn Meiria Linardy, Elisa Mokany, Dina Lonergan
-
Patent number: 9845496Abstract: Digital assay system, including methods, apparatus, and compositions, for performing target assays in partitions each containing a generic reporter and a specific reporter for target amplification.Type: GrantFiled: December 21, 2015Date of Patent: December 19, 2017Assignee: Bio-Rad Laboratories, Inc.Inventors: John F. Regan, Svilen S. Tzonev, Yann Jouvenot, Claudia Litterst, Dianna Maar, Geoff McDermott
-
Patent number: 9840741Abstract: Provided herein are methods for the diagnosis, or management of liver diseases, e.g. hepatocellular carcinoma, using profiles of the miRNAs determined from cellular or acellular body fluids.Type: GrantFiled: March 14, 2011Date of Patent: December 12, 2017Assignee: QUEST DIAGNOSTICS INVESTMENTS INCORPORATEDInventors: Kevin Qu, Ke Zhang, Maher Albitar
-
Patent number: 9822408Abstract: Described herein are improved methods, compositions and kits for next generation sequencing (NGS). The methods, compositions and kits described herein enable phasing of two or more nucleic acid sequences in a sample, i.e. determining whether the nucleic acid sequences (which can comprise regions of sequence variation) are located on the same chromosome and/or the same chromosomal fragment. Phasing information can be obtained by performing multiple, successive sequencing reactions from the same immobilized nucleic acid template. The methods, compositions and kits provided herein can be useful, for example, for haplotyping, SNP phasing, or for determining downstream exons in RNA-seq.Type: GrantFiled: March 14, 2014Date of Patent: November 21, 2017Assignee: Nugen Technologies, Inc.Inventors: Doug Amorese, Benjamin G. Schroeder, Jonathan Scolnick
-
Patent number: 9803250Abstract: Disclosed herein are methods for detecting a fungal pathogen in a patient sample, involving isolating the sample, carrying out a PCR reaction on the sample to generate an amplicon that includes a region of the fungal 28S ribosomal RNA gene, and detecting the PCR amplicon. Also disclosed are sequences of primers for specifically detecting a broad range of fungal pathogens in the presence of human ribosomal DNA. In certain embodiments, the amplicon is detected by sequencing or by two-dimensional melt-curve analysis. In yet other embodiments, more than one fungal pathogen is detected in a sample using the methods disclosed herein.Type: GrantFiled: November 24, 2009Date of Patent: October 31, 2017Assignee: Fred Hutchinson Cancer Research CenterInventors: David N. Fredricks, Prasanna D. Khot, Daisy L. Ko
-
Patent number: 9777333Abstract: The disclosure provides gene fusion variants and novel associations with disease states, as well as kits, probes, and methods of using the same.Type: GrantFiled: April 3, 2014Date of Patent: October 3, 2017Assignee: Life Technologies CorporationInventors: Daniel Rhodes, Seth Sadis, Peter Wyngaard, Armand Bankhead, Dinesh Cyanam, Nikolay Khazanov
-
Patent number: 9771610Abstract: Methods and kits are provided for nucleic acid analysis. In an illustrative method a target nucleic acid is amplified using a first primer and a second primer, wherein the first primer comprises a probe element specific for a locus of the target nucleic acid and a template-specific primer region, and the probe element is 5? of the template-specific primer region, subsequently allowing the probe element to hybridize to the locus to form a hairpin, generating a melting curve for the probe element by measuring fluorescence from a dsDNA binding dye as the mixture is heated, wherein the dye is not covalently bound to the first primer, and analyzing the shape of the melting curve. Kits may include one or more of the first and second primers, the dsDNA binding dye, a polymerase, and dNTPs.Type: GrantFiled: February 19, 2013Date of Patent: September 26, 2017Assignees: University of Utah Research Foundation, BioFire Defense, LLCInventors: Carl T. Wittwer, Luming Zhou, Mark Aaron Poritz
-
Patent number: 9758812Abstract: The present invention is in the fields of molecular biology. The present invention is directed to novel compositions, methods and kits useful for the generation of nucleic acids from an RNA template and further nucleic acid replication. Specifically, the invention is directed to the generation and amplification of nucleic acids by reverse transcriptase-polymerase chain reaction.Type: GrantFiled: August 13, 2012Date of Patent: September 12, 2017Assignee: Qiagen GmbHInventors: Nan Fang, Andreas Missel
-
Patent number: 9758780Abstract: The present invention relates to innovative means of generating sequence-linked DNA fragments and subsequent uses of such linked DNA fragments for de novo haplotype-resolved whole genome mapping and massively parallel sequencing. In various embodiments described herein, the methods of the invention relate to methods of generating paired-end nucleic acid fragment sharing common linker nucleic acid sequences using a nicking endonuclease, a T7 endonuclease, a restriction enzyme, or a transposase, methods of analyzing the nucleotides sequences from the linked-paired-end sequenced fragments, and methods of de novo whole genome mapping. Thus, the methods of this invention allow establishing sequence contiguity across the whole genome, and achieving high-quality, low-cost de novo assembly of complex genomes.Type: GrantFiled: June 2, 2015Date of Patent: September 12, 2017Assignee: Drexel UniversityInventors: Ming Xiao, Justin Sibert
-
Patent number: 9752201Abstract: Nucleic acid oligomers specific for human parvovirus genomic DNA are disclosed. An assay for amplifying and detecting human parvovirus genotypes 1, 2 and 3 nucleic acid in biological specimens is disclosed. Compositions for amplifying and detecting the presence of human parvovirus genotypes 1, 2 and 3 genomic DNA in human biological specimens are disclosed.Type: GrantFiled: July 13, 2012Date of Patent: September 5, 2017Assignee: GEN-PROBE INCORPORATEDInventors: Kui Gao, Jeffrey M. Linnen, Kurt Craft Norton, Patricia C. Gordon, Dat Do, Tan N. Le
-
Patent number: 9752172Abstract: Methods and kits are provided for performing multiple rounds of sense RNA synthesis. The sense RNA molecules can be used in various research and diagnostic applications, such as gene expression studies involving nucleic acid microarrays.Type: GrantFiled: December 21, 2011Date of Patent: September 5, 2017Assignee: Genisphere, LLCInventors: Robert C. Getts, Kelly Sensinger, James Kadushin
-
Patent number: 9752188Abstract: Next Generation DNA sequencing promises to revolutionize clinical medicine and basic research. However, while this technology has the capacity to generate hundreds of billions of nucleotides of DNA sequence in a single experiment, the error rate of approximately 1% results in hundreds of millions of sequencing mistakes. These scattered errors can be tolerated in some applications but become extremely problematic when “deep sequencing” genetically heterogeneous mixtures, such as tumors or mixed microbial populations. To overcome limitations in sequencing accuracy, a method Duplex Consensus Sequencing (DCS) is provided. This approach greatly reduces errors by independently tagging and sequencing each of the two strands of a DNA duplex. As the two strands are complementary, true mutations are found at the same position in both strands. In contrast, PCR or sequencing errors will result in errors in only one strand.Type: GrantFiled: March 15, 2013Date of Patent: September 5, 2017Assignee: UNIVERSITY OF WASHINGTON THROUGH ITS CENTER FOR COMMERCIALIZATIONInventors: Michael Schmitt, Jesse Salk, Lawrence A. Loeb
-
Patent number: 9752173Abstract: The present invention realtes to systems and methods for amplifying nucleic acid. In particular, systems and methods are provided for inhibiting polymerase based terminal transferase activity within a polynucleotide amplification setting (e.g., polymerase chain reaction). In addition, systems and methods are provided for generating amplified products generated with polynucleotide amplification techniques having reduced 3? non-templated nucleotide addition.Type: GrantFiled: June 29, 2015Date of Patent: September 5, 2017Assignee: IBIS BIOSCIENCES, INC.Inventors: Sherilynn Manalili Wheeler, James C. Hannis, Steven A. Hofstadler
-
Patent number: 9732386Abstract: The present invention provides methods of determining whether a subject is a suitable candidate for an anti-depressant treatment to alleviate a mood disorder by measuring telomere length and telomerase activity. The present invention also provides methods of assessing the efficacy of an anti-depressant treatment to alleviate a mood disorder and of predicting whether a subject is at risk of developing depression.Type: GrantFiled: June 24, 2011Date of Patent: August 15, 2017Assignee: THE REGENTS OF THE UNIVERSITY OF CALIFORNIAInventors: Owen M. Wolkowitz, Synthia H. Mellon, Elissa S. Epel, Jue Lin, Elizabeth H. Blackburn
-
Patent number: 9708662Abstract: The present invention concerns a method for evaluating the epidermal homeostasis of the skin of a subject, comprising differential analysis of the expression of a gene, preferably of two genes, selected from the group of genes consisting of KRT6B, KRT16, ESRRA, CBX3, MAP3K5, TRIO, PIK3CD, TCRB, PRRG2, ICP22BP, GPX3, GBA, BPGM, NID1, SMT3H2, LGALS2, DOC1, PRKCG, S100A8, S100A9, S100A2, S100A7, K15, SPRR1B and GSN in response to a physical or chemical challenge of the stratum corneum. It also concerns various methods for diagnosing the state of the epidermis of an individual and methods for detecting and screening products or procedures which can improve epidermal homeostasis. The invention also pertains to kits and arrays which can be used in these various methods and processes.Type: GrantFiled: July 22, 2009Date of Patent: July 18, 2017Assignee: L'OrealInventors: Peggy Sextius, Bruno Bernard, Françoise Bernerd, Claire Marionnet
-
Patent number: 9702000Abstract: The present invention relates to methods of analyzing airborne nucleic acid molecules using a device for the filtering and/or collecting of said molecules using an air sampling system, isolating the nucleic acids, and subsequent analysis thereof.Type: GrantFiled: March 3, 2015Date of Patent: July 11, 2017Assignee: biotec GmbHInventor: Andreas Bermpohl
-
Patent number: 9677119Abstract: In certain embodiments, the present invention provides amplification methods in which nucleotide tag(s) and, optionally, a barcode nucleotide sequence are added to target nucleotide sequences. In other embodiments, the present invention provides a microfluidic device that includes a plurality of first input lines and a plurality of second input lines. The microfluidic device also includes a plurality of sets of first chambers and a plurality of sets of second chambers. Each set of first chambers is in fluid communication with one of the plurality of first input lines. Each set of second chambers is in fluid communication with one of the plurality of second input lines. The microfluidic device further includes a plurality of first pump elements in fluid communication with a first portion of the plurality of second input lines and a plurality of second pump elements in fluid communication with a second portion of the plurality of second input lines.Type: GrantFiled: February 13, 2014Date of Patent: June 13, 2017Assignee: Fluidigm CorporationInventors: Andrew May, Peilin Chen, Jun Wang, Fiona Kaper, Megan Anderson
-
Patent number: 9670540Abstract: The present invention is directed to methods for capturing, amplifying and identifying one or more of a plurality of target nucleotide sequences in a sample. The present invention is further directed to a device comprising a solid support having a plurality of wells or pillars and a plurality of oligonucleotides attached to the wells or pillars. Other aspects of the invention are directed to methods of making such devices.Type: GrantFiled: July 23, 2012Date of Patent: June 6, 2017Assignees: Cornell University, Board of Supervisors of Louisiana State University and Agricultural and Mechanical CollegeInventors: Francis A. Barany, Steven A. Soper, George Grills, Yu-wei Cheng, Jianmin Huang, Hong Wang, Malgorzata A. Witek, Daniel Sang-won Park, Michael C. Murphy, Robin Lindsey McCarley, Mateusz L. Hupert
-
Patent number: 9663829Abstract: Disclosed are nucleic acid oligomers, including amplification oligomers, capture probes, and detection probes, for detection of a 16S rRNA or its encoding gene from bacterial species associated with bacterial vaginosis. Also disclosed are methods of specific nucleic acid amplification and detection using the disclosed oligomers, as well as corresponding reaction mixtures and kits.Type: GrantFiled: September 10, 2012Date of Patent: May 30, 2017Assignee: GEN-PROBE INCORPORATEDInventors: Damon Kittredge Getman, Paul M. Darby