Patents Issued in December 1, 2016
  • Publication number: 20160348134
    Abstract: Systems and methods for producing bioproducts are shown. The systems and methods herein can be configured and used in an integrated biorefinery. The integrated biorefinery may comprise a sugar production facility such as a sugar mill, a production facility for one or more bioproduct(s) such as butanol, and optionally an ethanol production facility employing the system and method.
    Type: Application
    Filed: May 30, 2015
    Publication date: December 1, 2016
    Applicant: COBALT TECHNOLOGIES INC.
    Inventors: Stacy M. Burns-Guydish, Anthony F. Cann, Dhruti Dalal, Lawrence W. Fry, Michael S. Hershkowitz, William F. McDonald, Andrew D. Meyer, Victor O. Nava-Salgado, Brandon T. Olson, Ishmael M. Sonico, David C. Walther, Yongming Zhu
  • Publication number: 20160348135
    Abstract: The object of the invention is to provide a method which specifically and efficiently produces a compound having a phenol propane structure from natural biomass containing lignins by causing microorganisms to act on biomass. The object is achieved by a method for producing a phenyl propane-based compound comprising a step of producing a phenyl propane-based compound by causing microorganisms of the genus Novosphingobium to act on biomass containing lignins and/or lignin-related substances.
    Type: Application
    Filed: February 9, 2015
    Publication date: December 1, 2016
    Applicant: JAPAN AGENCY FOR MARINE-EARTH SCIENCE AND TECHNOLOGY
    Inventors: Yukari OHTA, Yuji HATADA, Ryoichi HASEGAWA
  • Publication number: 20160348136
    Abstract: The object of the invention is to provide a method which, if compared with prior art, more specifically and efficiently produces a compound having a phenol propane structure from natural biomass containing lignins by causing enzymes to act on the biomass. The object is achieved by a method for producing a phenyl propane-based compound comprising a step of producing a phenyl propane-based compound by causing enzymes derived from microorganisms of the genus Novosphingobium to act on biomass containing lignins and/or lignin-related substances in the presence of NAD and reduction type glutathione.
    Type: Application
    Filed: February 9, 2015
    Publication date: December 1, 2016
    Applicant: JAPAN AGENCY FOR MARINE-EARTH SCIENCE AND TECHNOLOGY
    Inventors: Yukari Ohta, Yuji Hatada, Ryoichi Hasegawa, Shinro Nishi
  • Publication number: 20160348137
    Abstract: There is described a method for producing an ester of 3-hydroxypropionic acid, the method comprising: culturing an Acetobacter lovaniensis bacterium in a growth medium containing phosphate at a level which is more than 1 g/litre, wherein culturing of the bacterium produces the ester of 3-hydroxypropionic acid.
    Type: Application
    Filed: February 6, 2015
    Publication date: December 1, 2016
    Inventor: Irene Finnegan
  • Publication number: 20160348138
    Abstract: The invention relates to a method for accumulating triacylglycerols in microalgae by inhibiting the sterol metabolism, N by incubating the microalgae with an inhibitor of sterol metabolism. The invention also relates to a method for producing fatty acids, biofuels, pharmaceutical or cosmetic compositions, and also food supplements, comprising a triacylglycerols accumulation step in microalgae according to the invention. Finally, the invention concerns the use of an inhibitor of sterol metabolism to accumulate triglycerides in microorganisms, and preferably microalgae.
    Type: Application
    Filed: January 27, 2015
    Publication date: December 1, 2016
    Inventors: Melissa Conte, Lina-Juana Dolch, Coline Mei, Caroline Barette, Dimitris Petroutsos, Denis Falconet, Juliette Jouhet, Fabrice Rebeille, Jean-Christophe Cintrat, Eric Marechal
  • Publication number: 20160348139
    Abstract: Bile detergents can be used to denature glycoproteins prior to enzymatically deglycosylating the glycoproteins. Bile detergents, and especially bile salts, render glycans on a glycoprotein accessible to deglycosylation enzymes, especially the enzyme PNGase F, and are compatible with the enzyme. The bile detergents can be conveniently removed by solid phase or liquid-liquid extraction techniques, and many bile detergents can be removed by acid precipitation, allowing the bile detergent to be quickly separated from the glycans, the deglycosylated protein, or both.
    Type: Application
    Filed: May 27, 2016
    Publication date: December 1, 2016
    Inventors: Michael J. KIMZEY, Francis T. HAXO
  • Publication number: 20160348140
    Abstract: Method for the production of dextran comprising the following steps: prepare a culture medium containing the appropriated mixture and balance of ingredients, mainly after accurate selection of nature and concentration of carbon and nitrogen sources, with a specific initial pH, inoculate the culture medium with an appropriated quantity of bacteria strain (to standardize the production and avoid as much as possible the variability of the system); carry out the fermentation for a given time and at a given temperature; precipitate the dextran to separate the product from the culture medium; the bacteria strain is a strain of Weissella cibaria.
    Type: Application
    Filed: February 10, 2014
    Publication date: December 1, 2016
    Inventor: Giulia CINTI
  • Publication number: 20160348141
    Abstract: Functionalized substrate materials, for example inorganic particles and/or synthetic polymeric particles, are used to enhance bioprocesses such as saccharification and fermentation.
    Type: Application
    Filed: August 9, 2016
    Publication date: December 1, 2016
    Inventors: Marshall Medoff, Thomas Craig Masterman, Harrison Medoff
  • Publication number: 20160348142
    Abstract: Compositions, methods and kits are disclosed for synthesizing and amplifying pools of probes using precursor oligonucleotides. In some aspects the precursor is amplified and nicking enzymes are used to separate the full length probes from the amplification products. The methods enable the preparation of single stranded DNA probes of defined sequence and length that are suitable for use in target detection assays.
    Type: Application
    Filed: May 6, 2016
    Publication date: December 1, 2016
    Inventors: Yuker Wang, Keith W. Jones, Ronald J. Sapolsky
  • Publication number: 20160348143
    Abstract: The invention concerns the field of recombinant gene engineering. It concerns novel artificial introns and compositions comprising such introns as well as a method to improve expression of polypeptides from nucleic acids such as cloned genes, especially genes encoding antibodies and antibody derived fragments, and the production of various polypeptides in eukaryotic host cells using said novel artificial intron sequences.
    Type: Application
    Filed: July 28, 2016
    Publication date: December 1, 2016
    Inventor: Barbara ENENKEL
  • Publication number: 20160348144
    Abstract: Methods for production of virus particles with simplified glycosylation on structural or surface proteins are provided. When used as targets for vaccine production, the conserved nature of such sites generates vaccines that are less sensitive to viral mutations. Use of glycosylation inhibitors for production of viruses with simplified glycosylation profiles are disclosed. An exemplary disclosure of influenza viruses and methods for production of mono-glycosylated influenza virus particles is provided. Methods for production of mono-glycosylated forms of influenza A virus, NIBRG-14 (H5N1) are provided.
    Type: Application
    Filed: May 26, 2016
    Publication date: December 1, 2016
    Applicant: Academia Sinica
    Inventors: Chi-Huey Wong, Che Ma, Yung-Chieh Tseng
  • Publication number: 20160348145
    Abstract: The present invention relates to a cell for the production of an antibody molecule such as an antibody useful for various diseases having high antibody-dependent cell-mediated cytotoxic activity, a fragment of the antibody and a fusion protein having the Fc region of the antibody or the like, a method for producing an antibody composition using the cell, the antibody composition and use thereof.
    Type: Application
    Filed: July 5, 2016
    Publication date: December 1, 2016
    Applicant: KYOWA HAKKO KIRIN CO., LTD
    Inventors: Yutaka KANDA, Mitsuo SATOH, Kazuyasu NAKAMURA, Kazuhisa UCHIDA, Toyohide SHINKAWA, Naoko YAMANE, Emi HOSAKA, Kazuya YAMANO, Motoo YAMASAKI, Nobuo HANAI
  • Publication number: 20160348146
    Abstract: A microorganism measuring system set control reference values with higher accuracy than ever. Based on results of repeated CFU countings and results of repeated ATP measurements, a microorganism measuring system obtains a probability density function of ATP measured values in a normal condition; determines an alert reference value at which a desired probability of false positives is equal to or less than a probability, and an action reference value at which a desired probability of false negatives is equal to or less than a probability; and thereby controls the ATP measured values. For this reason, the microorganism measuring system can set the control reference values with higher accuracy than ever, without being influenced by an error in the conversion of ATP contents into CFU counts.
    Type: Application
    Filed: March 13, 2015
    Publication date: December 1, 2016
    Applicant: HITACHI PLANT SERVICES CO., LTD.
    Inventors: Noe MIYASHITA, Makoto TANAKA
  • Publication number: 20160348147
    Abstract: The presently disclosed subject matter relates to modular peptide-substrate protease assays, in particular low cost and reliable methodology for measurement of protease and other enzyme activity that may be detected by optical turbidimetry or visual observation. The presently disclosed subject matter also relates to methods of using the disclosed assays within methods of detecting and monitoring diseases, methods of drug discovery, as well as in detection devices and systems.
    Type: Application
    Filed: February 4, 2015
    Publication date: December 1, 2016
    Inventors: Gabriel P. Lopez, Ashutosh Chilkoti, Ali Ghoorchian, Felipe Garcia
  • Publication number: 20160348148
    Abstract: A microwell plate for high-throughput detection is provided. The microwell plate includes a plurality of microwell groups, the microwell group includes at least a first microwell and a second microwell, and the microwell group further includes a gas diffusion passage for communicating the first microwell and the second microwell. The application of the microwell plate to high-throughput detection of gas produced through biochemical reaction is also provided. The described methodology is applicable to high-throughput detection and can prevent biological and/or chemical reaction and target substance detection from being interfered with each other, and particularly can attain high-throughput screening of enzyme activity regulators.
    Type: Application
    Filed: August 27, 2014
    Publication date: December 1, 2016
    Applicant: SHANGHAI JIAOTONG UNIVERSITY
    Inventors: Fang WU, Yueyang ZHOU, Jing YU
  • Publication number: 20160348149
    Abstract: Reagents and methods are provided for detecting the presence of a target polynucleotide in a sample are disclosed. In one aspect, a method for producing a labeled amplification product by amplifying a target nucleic acid sequence to produce an amplification product comprising the target sequence, a first probe-binding sequence 5? to the target sequence, and a second probe-binding sequence 3? to the target sequence, thereby producing an amplification product; and hybridizing a first detection probe to the amplification product, the first detection probe comprising a first segment that hybridizes to the first probe-binding sequence and a second segment that hybridizes to the second probe-binding sequence, thereby producing a labeled amplification product is disclosed.
    Type: Application
    Filed: May 2, 2016
    Publication date: December 1, 2016
    Inventors: Kenneth J. Livak, Jason A. A. West, Robert C. Jones
  • Publication number: 20160348150
    Abstract: Denaturation and hybridisation of double-stranded DNA is a crucial reaction in many biological processes, such as DNA replication. DNA denaturation and hybridisation can be controlled by e.g. temperature, altering the pH and ionic strength and different chemical agents. This reversible reaction also plays a role in many diagnostic-based methods and applications such as any nucleic acid amplification method. The present invention provides alternate means to control denaturation and hybridisation of nucleic acids comprising contacting a nucleic acid molecule with a compound capable of interacting with a nucleic acid molecule and altering the state or a property of the compound to achieve denaturation or hybridisation of the nucleic acid molecule.
    Type: Application
    Filed: November 12, 2013
    Publication date: December 1, 2016
    Inventors: Till Bachmann, Andrew Mount, Jason Crain, Schulze Holger
  • Publication number: 20160348151
    Abstract: The present invention provides methods and composition suitable for stabilizing cell-containing samples such as blood samples. The stabilizers used are primary or secondary carboxylic acid amides.
    Type: Application
    Filed: March 18, 2014
    Publication date: December 1, 2016
    Inventors: Ralf Wyrich, Thorsten Voss, Kalle Günther, Uwe Oelmüller
  • Publication number: 20160348152
    Abstract: Compositions comprising activated topoisomerase adaptors (TOPO-adaptors) and methods of using the activated TOPO-adaptors are provided for preparing a library of target DNA duplexes derived from sample polynucleotides (e.g., DNA, RNA) for the streamlined preparation of a large number of samples. Such libraries may be used for Next Generation Sequencing (NGS).
    Type: Application
    Filed: May 26, 2016
    Publication date: December 1, 2016
    Applicant: Molecular Cloning Laboratories (MCLAB) LLC
    Inventors: Jianping Zheng, Changping Shi, Dan Shen, Thang Nguyen
  • Publication number: 20160348153
    Abstract: This application provides a novel lysis buffer that can be used for storage of nucleic acid molecules on a solid support, and methods of storing nucleic acid molecules on a solid support and extracting nucleic acid molecules from a solid support.
    Type: Application
    Filed: May 31, 2016
    Publication date: December 1, 2016
    Applicant: THE UNITED STATES OF AMERICA, as represented by the Secretary, Department of Health and Human Serv
    Inventors: Jothikumar Narayanan, Vincent Hill, Jan Vinje, Theresa Cromeans
  • Publication number: 20160348154
    Abstract: A parallel preceding system for processing samples is described. In one embodiment, the parallel processing system includes an instrument interface parallel controller to control a tray motor driving system, a close-loop heater control and detection system, a magnetic particle transfer system, a reagent release system, a reagent pre-mix pumping system and a wash buffer pumping system.
    Type: Application
    Filed: August 10, 2016
    Publication date: December 1, 2016
    Applicant: LUMINEX CORPORATION
    Inventors: Steve Jia Chang YU, Jesus CHING, Phillip You Fai LEE, David Hsiang HU
  • Publication number: 20160348155
    Abstract: The present invention relates to a method for determining the probiotic/paraprobiotic activity of a composition comprising microorganisms, in particular bacteria, said method being based on evaluating, by metagenomic analysis, the qualitative and/or quantitative change in faecal microbiota following intake of the composition. Moreover, the present invention relates to a kit for carrying out said method.
    Type: Application
    Filed: September 5, 2014
    Publication date: December 1, 2016
    Inventors: Simone Domenico GUGLIELMETTI, Ruggero ROSSI, Walter FIORE, Andrea BIFFI
  • Publication number: 20160348156
    Abstract: A region of the Chlamydia trachomatis pmpA gene has been identified which is useful for performing amplification assays to determine specifically whether C. trachomatis is present in the sample being tested. Oligonucleotides useful for detecting this gene by performing the polymerase chain reaction (PCR) are disclosed. The disclosed oligonucleotides can be used in an assay which is specific for multiple strains or serovars of C. trachomatis, including the variant E serovar, and which does not show cross reactivity with the genomes of other microorganisms or with human DNA. In addition, the disclosed oligonucleotides can be used to in a multiplex system. This invention also contemplates a kit including oligonucleotides, and optionally other reagents, for the detection of C. trachomatis using PCR.
    Type: Application
    Filed: August 12, 2016
    Publication date: December 1, 2016
    Applicant: Becton, Dickinson and Company
    Inventors: Courtney E. Maus, Jason P. Stevens, Danielle Koffenberger
  • Publication number: 20160348157
    Abstract: 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: Application
    Filed: February 19, 2013
    Publication date: December 1, 2016
    Inventors: Carl T. Wittwer, Luming Zhou, Mark Aaron Porter
  • Publication number: 20160348158
    Abstract: The invention provides, inter alia, novel probes, methods, reaction mixtures, and kits for detecting the presence or absence of a target nucleic acid sequence.
    Type: Application
    Filed: May 28, 2015
    Publication date: December 1, 2016
    Inventor: Stephen Gordon Will
  • Publication number: 20160348159
    Abstract: The present invention relates to a method for accurately detecting a target nucleic acid by asymmetrically and isothermally amplifying the target nucleic acid using an external primer set, an internal primer set having different percentages of forward and reverse DNA-RAN-DNA hybrid primers, and a DNA-RNA-DNA hybrid signal probe and amplifying a signal of the probe at the same time. According to the present invention, the signal of the probe can be efficiently amplified compared with the method of the prior art, a symmetric iTPA method, which is an isothermal primer and probe amplification method using the same percentage of primers. Therefore, the present invention is applied to the accurate detection and confirmation of pathogens, detection of gene modification inducing identified phenotypes, diagnosis of susceptibility to genetic diseases, evaluation of gene expression, and various genome projects, and thus is useful in the molecular biological researches and disease diagnosis.
    Type: Application
    Filed: February 2, 2015
    Publication date: December 1, 2016
    Inventor: MinHwan KIM
  • Publication number: 20160348160
    Abstract: Methods, systems, and devices for decontaminating materials containing biological or biologically derived materials, such as microorganisms or DNA products, are provided. The methods, systems, and devices may be used for decontaminating or sterilizing materials, such as surfaces, including, but not limited to reducing the number of viable microorganisms on surfaces. The methods, systems, and devices may further be used for rendering DNA non-amplifiable in nucleic acid amplification reactions that synthesize DNA amplification products.
    Type: Application
    Filed: August 8, 2016
    Publication date: December 1, 2016
    Applicant: RASIRC, Inc.
    Inventors: Daniel Alvarez, JR., Jeffrey J. Spiegelman, Russell J. Holmes, James Hogan
  • Publication number: 20160348161
    Abstract: The present invention provides modified oligonucleotides and methods for their use in the detection of nucleic acids. The oligonucleotides and methods find particular application in amplifying and/or detecting areas of genetic variation in target nucleic acid sequences.
    Type: Application
    Filed: February 20, 2013
    Publication date: December 1, 2016
    Applicant: SPEEDX PTY LTD
    Inventors: Alison Velyian Todd, Elisa Mokany, Samantha Walker, Cortny Donald, Dina Lonergan, Lit Yeen Tan
  • Publication number: 20160348162
    Abstract: Compositions, reaction mixtures, and methods for performing an amplification reaction, including multiplex amplification reaction, wherein the method comprises using one or more amplification oligomer complexes comprising linked first and second amplification oligomer members. In one aspect, the amplification oligomer complex is hybridized to a target nucleic acid, the target nucleic acid with hybridized amplification oligomer complex is then captured, and other components are washed away. Target sequences of the target nucleic acids are pre-amplified to generate a first amplification product. The first amplification product is amplified in one or more secondary amplification reactions to generate second amplification products.
    Type: Application
    Filed: March 2, 2016
    Publication date: December 1, 2016
    Inventors: Steven T. BRENTANO, Dmitry LYAKHOV, Norman C. NELSON, James D. CARLSON, Michael M. BECKER, Lyle J. ARNOLD, Jr.
  • Publication number: 20160348163
    Abstract: An apparatus for analysing a molecule comprising:•a substrate;•at least one nanopore provided in the substrate;•first and second reservoirs separated by the substrate for respectively providing and receiving the molecule;•a controller to induce the molecule to move by from the first reservoir to the second reservoir via the nanopore;•at least one nanostructure arranged in the nanopore and/or around the nanopore on one side of the substrate for producing a localised electromagnetic field by plasmon resonance;•at least one coating provided in the substrate and/or on one side of the substrate for cooling the substrate and/or reflecting electromagnetic radiation incident thereon;;•a source of electromagnetic radiation arranged on the side of the substrate bearing the nanostructure(s) to induce plasmon resonance in each nanostructure and•a detector to detect signals produced by interaction of the electromagnetic field with the molecule as it passes through the nanopore.
    Type: Application
    Filed: January 30, 2015
    Publication date: December 1, 2016
    Applicant: BASE4 INNOVATION LTD
    Inventors: Gareth PODD, Jekaterina KULESHOVA, Bruno Flavio Nogueira de Sousa SOARES
  • Publication number: 20160348164
    Abstract: The invention relates to a novel method of error-free sequencing of DNA. Further, the present invention provides for a four-part oligonucleotide, comprising a fixed sequence, a randomized sequence, a restriction nuclease recognition site and/or restriction site, and a primer binding site. The invention also relates to the use of the sequenced DNA fragments obtained by the methods of the invention in methods for DNA sequence analysis, generation of cell lineage trees or assessment of copy numbers.
    Type: Application
    Filed: February 5, 2015
    Publication date: December 1, 2016
    Inventors: Christoph KLEIN, Stefan KIRSCH, Zbigniew Tadeusz CZYZ, Urs LAHRMANN
  • Publication number: 20160348165
    Abstract: The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. The methods of the invention include correcting one or more phenomena that are encountered during nucleotide sequencing, such as using sequencing by synthesis methods. These phenomena include, without limitation, sequence lead, sequence lag, spectral crosstalk, and noise resulting from variations in illumination and/or filter responses.
    Type: Application
    Filed: May 2, 2016
    Publication date: December 1, 2016
    Inventors: Steven Gordon, Jerzy Olejnik
  • Publication number: 20160348166
    Abstract: Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing or nucleic acid amplification. Such properties include enhanced performance with large nucleotide analogs, increased stability, increased readlength, and improved detection of modified bases, and can also include resistance to photodamage, enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased accuracy, altered speed, increased cosolvent resistance, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
    Type: Application
    Filed: June 21, 2016
    Publication date: December 1, 2016
    Inventors: SATWIK KAMTEKAR, ERIK MILLER
  • Publication number: 20160348167
    Abstract: Systems for nucleic acid sequencing include template constructs that comprise double stranded portions in a partially or completely contiguous constructs, to provide for redundant sequence determination through sequencing of both sense and antisense strands.
    Type: Application
    Filed: July 22, 2016
    Publication date: December 1, 2016
    Inventors: KEVIN TRAVERS, Geoff Otto, Stephen Turner, Cheryl Heiner, Congcong Ma
  • Publication number: 20160348168
    Abstract: A system and method employing at least one semiconductor device, or an arrangement of insulating and metal layers, having at least one detecting region which can include, for example, a recess or opening therein, for detecting a charge representative of a component of a polymer, such as a nucleic acid strand proximate to the detecting region, and a method for manufacturing such a semiconductor device. The system and method can thus be used for sequencing individual nucleotides or bases of ribonucleic acid (RNA) or deoxyribonucleic acid (DNA). The semiconductor device includes at least two doped regions, such as two n-typed regions implanted in a p-typed semiconductor layer or two p-typed regions implanted in an n-typed semiconductor layer. The detecting region permits a current to pass between the two doped regions in response to the presence of the component of the polymer, such as a base of a DNA or RNA strand.
    Type: Application
    Filed: August 8, 2016
    Publication date: December 1, 2016
    Inventors: Jon S. SAUER, Bart J. VAN ZEGHBROECK
  • Publication number: 20160348169
    Abstract: Disclosed herein are compositions and methods related to the elimination of molecules of a selected sequence from a nucleic acid sample or from an sequence dataset resulting from the sequencing of a sample, for example to exclude such molecules from downstream analysis or sequencing, or to exclude such sequences from a downstream data set.
    Type: Application
    Filed: February 3, 2015
    Publication date: December 1, 2016
    Inventors: Keith Brown, Peter Dansky
  • Publication number: 20160348170
    Abstract: The present technology relates to molecular sciences, such as genomics. More particularly, the present technology relates to methods for obtaining long lengths of sequencing data.
    Type: Application
    Filed: August 15, 2016
    Publication date: December 1, 2016
    Applicant: ILLUMINA, INC.
    Inventors: Mostafa Ronaghi, Helmy A. Eltoukhy
  • Publication number: 20160348171
    Abstract: Provided are methods for amplifying a gene or RNA or sets thereof of interest using a tandem PCR process. The primers in the first PCR or set of PCR reactions are locus-specific. The primers in the second PCR or set of PCR reactions are specific for a sub-sequence of the locus-specific primers and completely consumed during the second PCR amplification. For RNA amplification, the first PCR is reverse transcription and the resulting cDNA(s) provide a template for cRNA synthesis, endpoint PCR or real time PCR. Also provided is a tandem PCR method which accepts raw, completely unpurified mouthwash, cheek swabs and ORAGENE-stabilized saliva as the sample input, the resulting amplicons serving as the substrate for complex, microarray-based genetic testing. Also provided is a method of allelotyping a gene or set thereof by amplifying the gene(s) using tandem PCR on DNA or RNA comprising the sample.
    Type: Application
    Filed: August 15, 2016
    Publication date: December 1, 2016
    Inventors: Michael E. Hogan, Georgina Lopez Padilla, Melissa R. May, Andrew T. Abalos, Frederick H. Eggars, Kevin M. O'Brien
  • Publication number: 20160348172
    Abstract: An ex vivo method of diagnosing or predicting an hereditary spastic paraplegias (HSP) in a subject is provided which comprises detecting a mutation in the KIAA1840 gene or protein (spatacsin), wherein that mutation is indicative of an hereditary spastic paraplegias (HSP).
    Type: Application
    Filed: March 12, 2014
    Publication date: December 1, 2016
    Applicant: Institut National De La Sante Et De La Recherche Medicale (INSERM)
    Inventors: Hamid AZZEDINE, Alexis BRICE, Giovanni STEVANIN, Filippo SANTORELLI, Paola DENORA
  • Publication number: 20160348173
    Abstract: Panels of 8-, 9- and 12-biomarker for diagnostic and prognostic methods to determine a subject's radiation exposure and discriminates between persons who have been exposed to radiation only, inflammation stress only, or a combination of the two.
    Type: Application
    Filed: November 7, 2014
    Publication date: December 1, 2016
    Applicant: THE REGENTS OF THE UNIVERSITY OF CALIFORNIA
    Inventors: Andrew J. Wyrobek, Antoine M. Snijders
  • Publication number: 20160348174
    Abstract: Provided herein are methods, compositions, and kits for diagnosing acute rejection of renal transplants using the gene expression profile of sets of classifier genes. Such methods and compositions are independent of external confounders such as recipient age, transplant center, RNA source, assay, cause of end-stage renal disease, co-morbidities, immunosuppression usage, and the like.
    Type: Application
    Filed: September 5, 2014
    Publication date: December 1, 2016
    Inventor: Minnie M. Sarwal
  • Publication number: 20160348175
    Abstract: A method for screening a distressed neonate for risk of having or developing HIE comprises the steps of assaying a biological sample obtained from the distressed neonate, the mother of the neonate, or from the umbilical cord or placenta, for an abundance of miR-374a in the sample, and comparing the abundance of miR-374a in the sample with a reference abundance of miR-374a, wherein a reduced abundance of miR-374a in the sample compared with the reference abundance of miR-374a is indicative of the distressed neonate being at risk of having or developing HIE. Risk of severe HIE can be determined by assaying a biological sample from the distressed neonate identified as being at risk of HIE for an abundance of a plurality of metabolites including succinate, glycerol, acetone and 3-hydroxybutyrate, providing the sum of glycerol and succinate abundance and the sum of acetone and 3-hydroxybutyrate; and correlating the sums with risk of severe HIE.
    Type: Application
    Filed: January 16, 2015
    Publication date: December 1, 2016
    Applicant: UNIVERSITY COLLEGE CORK - NATIONAL UNIVERSITY OF IRELAND, CORK
    Inventors: Deirdre Murray, Ann Marie Looney, Geraldine Boylan, John Cryan
  • Publication number: 20160348176
    Abstract: The present invention relates to a method for determining the state of peri-implant disease comprising the steps of quantifying the expression level of one or more regulated markers of a group of markers forming a panel, said one or more regulated markers being related to the plasminogen system and/or inflammation and/or proteolytic activity or combinations thereof or ratios thereof in an ex vivo sample; and determining the state of peri-implant disease by comparing the expression level obtained in step a with a reference value. The present invention also relates to a kit for performing the invention.
    Type: Application
    Filed: January 29, 2015
    Publication date: December 1, 2016
    Inventor: Jan HALL
  • Publication number: 20160348177
    Abstract: Compositions and methods useful for the diagnosis and treatment of juvenile idiopathic arthritis are disclosed.
    Type: Application
    Filed: August 10, 2016
    Publication date: December 1, 2016
    Inventors: Terri H. Finkel, Haitao Zhang, Hakon Hakonarson
  • Publication number: 20160348178
    Abstract: The invention provides a comprehensive, rapid, unbiased, and accurate method for identifying and/or discovering disease-associated genetic variations, e.g., disease-associated variations. The present invention further provides novel disease-associated genetic variations for use as genetic markers of disease, e.g., cancer. The invention further provides methods for assessing an individual's risk for developing a disease, e.g., cancer, by detecting the presence the novel disease-associated genetic variations of the invention.
    Type: Application
    Filed: August 18, 2015
    Publication date: December 1, 2016
    Inventors: David J. Sugarbaker, Raphael Bueno
  • Publication number: 20160348179
    Abstract: The present disclosure describes the use of genetic variance information for folate transport or metabolism genes or pyrimidine transport or metabolism genes in the selection of effective methods of treatment of a disease or condition. The variance information is indicative of the expected response of a patient to a method of treatment. Methods of determining relevant variance information and additional methods of using such variance information are also described.
    Type: Application
    Filed: December 28, 2015
    Publication date: December 1, 2016
    Inventor: Vincent P. Stanton
  • Publication number: 20160348180
    Abstract: The invention provides methods for predicting whether an ovarian cancer patient's tumor will be resistant to chemotherapy. The invention also provides methods for monitoring the effectiveness of treatment, particularly a chemotherapeutic treatment, in a patient treated for ovarian cancer. The invention further provides methods for treating ovarian cancer, by reducing chemotherapeutic drug resistance in said cells. In addition, the invention provides methods of screening compounds to identify tumor cell growth inhibitors in tumor cells resistant to conventional chemotherapeutic treatment regimes.
    Type: Application
    Filed: February 24, 2016
    Publication date: December 1, 2016
    Applicant: The Penn State Research Foundation
    Inventor: Samer Al-Murrani
  • Publication number: 20160348181
    Abstract: There are provided a method for an early diagnosis and a screening test for a therapeutic agent of breast cancer by using tissue and blood, and a quantitative reverse transcription polymerase chain reaction kit for same. According to the present invention, it is possible to provide help in more effective treatment and diagnosis of breast cancer through expression rates of HER2 expressed in blood and a cancer-related marker in the blood in addition to a tissue specimen.
    Type: Application
    Filed: December 20, 2013
    Publication date: December 1, 2016
    Inventors: Hye Young LEE, Hye Young WANG, Yeun KIM
  • Publication number: 20160348182
    Abstract: The present disclosure relates to the identification of genes and gene combinations that are correlated with patients having or being predisposed to developing pancreatic ductal adenocarcinoma (PDAC). In some instances, methods herein utilize panels of 5 or 10 genes to accurately diagnose PDAC, determine the likelihood of developing PDAC, or determine the severity/stages of PDAC. These panels may be used in a molecular diagnostic test.
    Type: Application
    Filed: February 4, 2015
    Publication date: December 1, 2016
    Inventors: Roya KHOSRAVIFAR, Towia Aron LIBERMANN, Manoj K. BHASIN
  • Publication number: 20160348183
    Abstract: A method predicts the residual risk of recurrence after a taxane-free chemotherapy, and the benefit from inclusion of taxane in a chemotherapy regimen in a patient suffering from or at risk of developing recurrent breast cancer. From determination of expression levels of the genes UBE2C, KIF20A, PTGER3, OSBPL1A, CYP27A1, IGKC, in a tumor sample a prognostic score is determined by mathematically combining the expression level values. The prognostic score is compared to thresholds, classifying the patient in three outcome groups. The expression levels of three genes STC1, PCSK6, S100P in the tumor sample are determined, and the expression level values for STC1, PCSK6 and S100P are mathematically combined to yield a predictive combined score, whereas a high predictive combined score generally indicates an increased likelihood of benefit from inclusion of taxane in a chemotherapy regimen in a patient classified to poor and/or intermediate outcome group.
    Type: Application
    Filed: February 11, 2015
    Publication date: December 1, 2016
    Applicant: Myriad Genetics, Inc.
    Inventors: Jan Christoph BRASE, Marcus SCHMIDT, Ralf KRONENWETT, Karin FISCH, Karsten WEBER