Rna Or Dna Which Encodes Proteins (e.g., Gene Library, Etc.) Patents (Class 506/17)
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Publication number: 20110086770Abstract: This invention relates to polypeptide libraries comprising polypeptides having a C-type lectin domain (CTLD) with a randomized loop region, as well as nucleic acid libraries comprising nucleic acid molecules encoding such polypeptides. The invention also relates to methods for generating the randomized polypeptides and the polypeptide libraries. The invention further relates to methods of screening the polypeptide and nucleic acid libraries based on the specific binding of the modified CTLDs to a target molecule of interest. The invention also relates to polypeptides derived from such libraries that bind to target molecules of interest.Type: ApplicationFiled: February 10, 2010Publication date: April 14, 2011Inventors: Martha Wild, Anke Kretz-Rommel, Katherine S. Bowdish, Mark Renshaw
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Publication number: 20110082055Abstract: Methods and compositions that reduce complexity of libraries of variant biological molecules, that reduce oversampling of these libraries during screening and that improve screening efficiency are provided. Sets of efficient degenerate codon sets are provided that efficiently encode all, or nearly all canonical amino acids. Degenerate oligonucleotides comprising these codons are provided, as are polynucleotide variants. Variant pooling strategies are used during library construction. Logical filtering is applied to select codon sites for mutagenesis, or to select amino acid sets to be incorporated at such sites. Methods for reducing non-optimal oversampling during screening are provided.Type: ApplicationFiled: September 17, 2010Publication date: April 7, 2011Applicant: Codexis, Inc.Inventors: Richard Fox, Lorraine J. Giver, Daniel Held, Douglas Hattendorf, Trish Choudhary
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Publication number: 20110082054Abstract: Provided are compositions and methods for preparing and identifying antibodies having CDR3s that vary in sequence and in length from very short to very long. Libraries encoding antibodies with the CDR3s are also provided. The libraries can be provided by modifying a pre-existing nucleic acid library.Type: ApplicationFiled: September 14, 2010Publication date: April 7, 2011Applicant: DYAX CORP.Inventor: Robert C. Ladner
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Publication number: 20110071049Abstract: Methods and compositions are provided for translational profiling and molecular phenotyping of specific tissues, cells and cell subtypes of interest. The methods provided herein facilitate the analysis of gene expression in the selected subset present within a heterogeneous sample.Type: ApplicationFiled: March 12, 2009Publication date: March 24, 2011Inventors: Nathaniel Heintz, Paul Greengard, Myriam Heiman, Anne Schaefer, Joseph P. Doyle, Joseph D. Dougherty
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Publication number: 20110071048Abstract: An object of the present invention is to provide a test apparatus for testing a DNA substrate on which a plurality of DNA fragments for testing are arranged, wherein absolute precision is not required. The above-described problem was solved by providing a substrate on which a plurality of biomolecule spots containing a group of biomolecules (e.g., DNA, etc.) of a specific type are formed, where the pattern or position of the DNA spot is changed depending on specific data so that information of the specific data is recorded on the substrate.Type: ApplicationFiled: October 1, 2010Publication date: March 24, 2011Applicant: Panasonic CorporationInventor: Mitsuaki Oshima
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Publication number: 20110071053Abstract: 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: ApplicationFiled: September 15, 2010Publication date: March 24, 2011Applicant: Callida Genomics, Inc.Inventors: Radoje DRMANAC, Matthew J. Callow, Snezana Drmanac, Brian K. Hauser, George Yeung
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Publication number: 20110065981Abstract: Single nucleotide polymorphic sites at positions 19069 and 25402 of the bovine STAT3 gene are associated with improved fertilization rate and/or improved embryo survival rate. The interactions between these two polymorphisms, and between them and the bovine STAT1 gene and fertilization and early embryonic survival rates were also disclosed. The interactions between STAT3 SNPs, and between STAT1 and STAT3 SNP19069 were highly significant for embryonic survival rate. Also disclosed are nucleic acid molecules, kits, methods of genotyping and marker assisted bovine breeding methods.Type: ApplicationFiled: September 15, 2010Publication date: March 17, 2011Applicant: WISCONSIN ALUMNI RESEARCH FOUNDATIONInventor: HASAN KHATIB
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Publication number: 20110065596Abstract: The invention provides methods and compositions for screening polypeptide libraries that include variants comprising unnatural amino acids. In addition, the invention provides vector packaging systems and methods for packaging a nucleic acid in a vector.Type: ApplicationFiled: October 31, 2008Publication date: March 17, 2011Inventors: Chang Liu, Meng-Lin Tsao, Vaughn Smider, Peter G. Schultz
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Publication number: 20110053804Abstract: The cytokine TGF?, in the tumor microenvironment, primes cancer cells for metastasis to the lungs. TGF? response status (TBRS) can be determined by comparing expression levels of a panel of genes from cancer cells to the expression levels of the same genes in epithelial cell lines before and after induction with TGF?. A TGF? gene response signature reveals a clinical association between TGF? activity in primary estrogen receptor negative (ER?) tumors and risk of lung metastasis. Further, combining the gene signature of the present invention with the known lung metastasis signature (LMS) increases the predictive value of the LMS considerably.Type: ApplicationFiled: April 3, 2009Publication date: March 3, 2011Applicant: SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCHInventors: Joan Massague, Xiang Zhang, David Padua
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Publication number: 20110053803Abstract: Methods and composition for the preparation of gene libraries of antibodies or parts of antibodies which contain the variable domains. For example, in certain aspects methods for providing polynucleotide library involving annealing and extending are described. Furthermore, the invention provides polynucleotide or antibody fragment libraries prepared by the methods.Type: ApplicationFiled: August 25, 2010Publication date: March 3, 2011Inventors: Xin Ge, Yariv Mazor, George Georgiou
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Publication number: 20110047643Abstract: The invention provides seed and plants of the bean line designated 08550815. The invention thus relates to the plants, seeds and tissue cultures of bean line 08550815, and to methods for producing a bean plant produced by crossing a plant of bean line 08550815 with itself or with another bean plant, such as a plant of another line. The invention further relates to seeds and plants produced by such crossing. The invention further relates to parts of a plant of bean line 08550815, including the pods and gametes of such plants.Type: ApplicationFiled: August 20, 2009Publication date: February 24, 2011Inventor: DAVID WEBSTER
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Publication number: 20110046014Abstract: This invention provides a series of low-copy number plasmids comprising restriction endonuclease recognition sites useful for cloning at least three different genes or operons, each flanked by a terminator sequence, the plasmids containing variants of glucose isomerase promoters for varying levels of protein expression. The materials and methods are useful for genetic engineering in microorganisms, especially where multiple genetic insertions are sought.Type: ApplicationFiled: November 5, 2010Publication date: February 24, 2011Applicant: E. I. DU PONT DE NEMOURS AND COMPANYInventors: MARK S. PAYNE, Stephen K. Picataggio, Amy Kuang-Hua Hsu, Ramesh V. Nair, Fernando Valle, Philippe Soucaille, Donald E. Trimbur
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Publication number: 20110045998Abstract: Analysis of the gene expression changes identified a series of novel candidate genes and blood biomarkers for bipolar disorder, alcoholism and stress disorder. These are used for diagnosing the disorders, predicting and monitoring response to treatment. A novel treatment for these co-morbid disorders, DHA (Docosahexaenoic acid—an omega-3 fatty acid) was identified, using these genes and biomarkers, as well as the transgenic animal model.Type: ApplicationFiled: September 25, 2008Publication date: February 24, 2011Inventors: Alexander B. Niculescu, Helen Le-Niculescu
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Publication number: 20110047645Abstract: The present invention provides double stranded RNA compositions and transgenic plants capable of inhibiting expression of essential genes in parasitic nematodes, and methods associated therewith.Type: ApplicationFiled: April 29, 2009Publication date: February 24, 2011Inventors: Shawn Motyka, Bonnie McCaig, Peifeng Ron, John McMillan, Lawrence Talton
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Publication number: 20110046002Abstract: The invention provides a molecular marker set that can be used for prognosis of breast cancer in a patient using histologically normal tissue. The invention also provides methods for evaluating prognosis of breast cancer in a patient based on a molecular molecular signature.Type: ApplicationFiled: November 20, 2008Publication date: February 24, 2011Applicant: UNIVERSITY OF SOUTH FLORIDAInventors: Timothy Yeatman, Dung-Tsa Chen, Aejaz Nasir
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Publication number: 20110039723Abstract: The invention provides for malignancy-risk gene signatures that predict the risk of developing breast cancer, the recurrence of breast cancer, and/or the metastasis of breast cancer. These signatures have numerous clinical applications including assessing risk of breast cancer development following routine breast biopsy, assessing the need for adjuvant radiotherapy after lumpectomy, and determining the need for completion mastectomy following lumpectomy for the breast cancer patient and other treatment plans that are personalized for the patient.Type: ApplicationFiled: January 12, 2009Publication date: February 17, 2011Inventors: Dung-Tsa Chen, Timothy J. Yeatman
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Publication number: 20110039708Abstract: The invention relates to a 15-gene molecular classifier consisting of the following genes: CNDP2; STMN1; AFG3L2; STK38; PARP1; CPSF6; LOC151162; C20orf100; FRY; FLJ21438; MGST1; ALDH2; CTSF; ATF4; FAM49A. The level of expression of these genes in bone marrow plasma cells of patients with multiple myeloma is a useful marker for evaluating their probability of survival.Type: ApplicationFiled: February 27, 2008Publication date: February 17, 2011Applicant: INSTITUT NATIONAL DE LA SANTE ET DE LA RECHERCHE MEDICALE (INSERM)Inventors: Stéphane Minvielle, Hervé Avet-Loiseau, Florence Magrangeas, Loic Campion
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Publication number: 20110038866Abstract: The invention provides fibronectin type III (Fn3)-based binding molecules that bind to a specific target antigen. The invention further provides bispecific Fn3-based binding molecules that bind to two or more targets simultaneously. The Fn3-based binding molecules of the invention can also be linked together to form multispecific Fn3-based binding molecules, and/or can be conjugated to a non-Fn3 moiety, such as, Human Serum Albumin (HSA), for improved half life and stability. The invention also provides methods for generating, screening and using Fn3-based binding molecules in a variety of therapeutic and diagnostic applications.Type: ApplicationFiled: May 4, 2009Publication date: February 17, 2011Inventors: John Hastewell, Andreas Loew
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Publication number: 20110034349Abstract: Efficient sequence specific gene silencing is possible through the use of siRNA technology. By selecting particular siRNAs by rational design, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes. Methods, compositions, and kits generated through rational design of siRNAs are disclosed including those directed to nucleotide sequences for MET.Type: ApplicationFiled: September 8, 2010Publication date: February 10, 2011Applicant: DHARMACON, INC.Inventors: Anastasia Khvorova, Angela Reynolds, Devin Leake, William Marshall, Steven Read, Stephen Scaringe
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Publication number: 20110027184Abstract: The invention provides methods, nucleic acids, compositions and kits for predicting a subject's response to treatment with activated protein C or protein C like compound to identify subjects having a greater benefit from treatment with activated protein C. The method generally comprises determining a protein C pathway associated gene polymorphism genotype(s) of a subject for one or more polymorphisms in the these genes, comparing the determined genotype with known genotypes for the polymorphism that correspond with an improved response polymorphism to identify potential subjects having an inflammatory condition who are more likely to benefit from treatment with activated protein C or protein C like compound and subsequent to treatment recover from the inflammatory condition. The invention also provides for methods of treating such subjects with an anti-inflammatory agent or anti-coagulant agent based on the subject's genotype.Type: ApplicationFiled: January 12, 2007Publication date: February 3, 2011Inventors: James A. Russell, Keith R. Walley
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Publication number: 20110028348Abstract: The invention provides variant heavy chain variable domains (VH) with increased folding stability. Libraries comprising a plurality of these polypeptides are also provided. In addition, compositions and methods of generating and using these polypeptides and libraries are provided.Type: ApplicationFiled: October 15, 2010Publication date: February 3, 2011Applicant: GENENTECH, INC.Inventors: PIERRE A. BARTHELEMY, SACHDEV S. SIDHU
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Publication number: 20110028338Abstract: The present invention relates, in general, to gene expression profiles, and in particular, to a peripheral blood gene expression profile of an environmental exposure, ionizing radiation. The invention further relates to methods of screening patients for radiation exposure based on gene expression profiling and to kits suitable for use in such methods.Type: ApplicationFiled: April 2, 2009Publication date: February 3, 2011Inventors: John Chute, Joseph Nevins, Holly Dressman, Nelson Chao
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Publication number: 20110028387Abstract: The invention relates to methods for identifying novel PP1-interacting polypeptides and proteins, compounds which are able to inhibit the binding of PP1c to certain factors naturally interacting with it, especially proteins of the Bcl-2 family (such as Bcl-xL and Bcl-w).Type: ApplicationFiled: April 6, 2010Publication date: February 3, 2011Applicant: INSTITUT PASTEURInventors: ALPHONSE GARCIA, XAVIER CAYLA, ANGELITA REBOLLO
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Publication number: 20110020317Abstract: We describe a method of assigning a grade to a breast tumour, which grade is indicative of the aggressiveness of the tumour, the method comprising detecting the expression of a gene selected from the genes set out in Table D1 (SWS Classifier 0).Type: ApplicationFiled: October 19, 2007Publication date: January 27, 2011Applicant: AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCHInventors: Lance D. Miller, Vladimir Kuznetsov, Anna Ivshina
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Publication number: 20110008795Abstract: Disclosed is a polynucleotide marker or a protein marker for use in the specific detection of an IL-17-producing helper T-cell (a Th17 cell). Also disclosed is a method for detecting a Th17 cell, which is characterized by detecting the occurrence of the polynucleotide marker or the protein marker.Type: ApplicationFiled: February 27, 2009Publication date: January 13, 2011Applicant: SYSMEX CORPORATIONInventors: Masafumi Ikeda, Hitoshi Uga, Satoshi Tanaka, Yoshiaki Miyamoto, Masatoshi Yanagida, Hirokazu Kurata, Masakazu Kadowaki
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Patent number: 7863222Abstract: As noted above, certain aspects of this disclosure relate to a library of nucleic acid vectors, as well as a method for making the same. In certain embodiments, the library of nucleic acid vectors comprises: a plurality of nucleic acid molecules of the following formula: S1—R—S2 wherein, in each nucleic acid of the plurality: S1 and S2 are each at least 15 nucleotides in length; S1 and S2 are complementary to each other along their entire length; either S1 or S2 is complementary along its entire length to a sequence in eukaryotic mRNA; and R is a six base recognition site for a restriction endonuclease; and wherein S1 and S2 vary in nucleotide sequence between different members of the plurality. A method for amplifying a circular nucleic acid is also provided.Type: GrantFiled: August 1, 2008Date of Patent: January 4, 2011Assignee: Rigel Pharmaceuticals, Inc.Inventors: Donald G. Payan, Mary Shen, Simon Yu, Todd M. Kinsella, Yasumichi Hitoshi
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Publication number: 20100331215Abstract: Methods, apparatus, systems, computer programs and computing devices related to biologically assembling and/or synthesizing peptides and/or proteins are disclosed.Type: ApplicationFiled: July 2, 2010Publication date: December 30, 2010Applicant: THE INVENTION SCIENCE FUND I, LLC.Inventors: Roderick A. Hyde, Edward K.Y. Jung, Lowell L. Wood, JR.
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Publication number: 20100330080Abstract: The invention relates to a platform technology for production of antigen binding polypeptides having specificity for a desired target antigen which is based on the conventional antibody repertoire of species in the family Camelidae, and to antigen binding polypeptides obtained using this technology platform. In particular, the invention provides an antigen binding polypeptide comprising a VH domain and a VL domain, wherein at least one hypervariable loop or complementarity determining region (CDR) in the VH domain or the VL domain is obtained from a VH or VL domain of a species in the family Camelidae.Type: ApplicationFiled: July 2, 2009Publication date: December 30, 2010Inventors: Torsten Dreier, Christophe Frederic Jerome Blanchetot, Johannes Joseph Wilhelmus De Haard
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Publication number: 20100330614Abstract: The invention relates to global transcription machinery engineering to produce altered cells having improved phenotypes.Type: ApplicationFiled: November 6, 2008Publication date: December 30, 2010Applicant: Massachusetts Institute of TechnologyInventors: Gregory Stephanopoulos, Daniel Klein-Marcuschamer, Hal S. Alper
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Publication number: 20100323904Abstract: A transcription chip comprising a substrate and, immobilized thereon, at least one polynucleotide including an element sequence to which a transcription factor can be bound.Type: ApplicationFiled: May 13, 2004Publication date: December 23, 2010Inventors: Hiroshi Kido, Mineyoshi Hiyoshi, Miwa Bando, Moritoshi Kinoshita, Yoji Fukuda, Hiroshi Mizuguchi
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Publication number: 20100323906Abstract: This invention provides a nanoplasmonic molecular ruler, which can perform label-free and real-time monitoring of nucleic acid (e.g., DNA) length changes and perform nucleic acid footprinting. In various embodiments the ruler comprises a nucleic acid attached to a nanoparticle, such that changes in the nucleic acid length are detectable using surface plasmon resonance. The nanoplamonic ruler provides a fast and convenient platform for mapping nucleic acid -protein interactions, for nuclease activity monitoring, and for other footprinting related methods.Type: ApplicationFiled: September 14, 2007Publication date: December 23, 2010Inventors: Fanqing Frank Chen, Gang L. Liu, Luke P. Lee
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Publication number: 20100317533Abstract: There is provided a panel of biomarkers of tumour metastasis comprising any two of carbonic anhydrase-9 (CAIX), vascular endothelial growth factor C (VEGF-C), ephrin A5 (EFNA5), eph receptor B2 (EPHB2), transforming growth factor beta 3 (TGF-?3), pyruvate dehydrogenase kinase isoenzyme-3 (PDK3), carbonic anhydrase-12 (CAXII), keratin 14 (KRT14), hypoxia inducible factor 1 alpha subunit (HIF-1?), or tenascin C (TNC). CAIX, VEGF-C, EFNA5, EPHB2, TGF-?3 or PDK3 may be indicators of moderate metastatic potential, while CAXII, KRT14, HIF-1?, or TNC may be indicators of high metastatic potential. There is also provided a method of determining risk of tumour metastasis using the aforementioned biomarkers is also provided. The biomarkers may be used in diagnosis, prognosis, treatment selection, or to test putative therapeutics. The biomarkers may be used to assess malignancies or cancers having hypoxic regions, such as breast cancer.Type: ApplicationFiled: June 7, 2010Publication date: December 16, 2010Applicant: BRITISH COLUMBIA CANCER AGENCY BRANCHInventors: Yuanmei LOU, Paul Christopher MCDONALD, Arusha OLOUMI, Shoukat DEDHAR
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Publication number: 20100317547Abstract: The invention relates to a complex comprising a phage particle, said phage particle comprising (i) a polypeptide; (ii) a nucleic acid encoding the polypeptide of (i); (iii) a connector compound attached to said polypeptide wherein said connector compound is attached to the polypeptide by at least three discrete covalent bonds. The invention also relates to libraries, and to methods for making complexes and to methods of screening using same.Type: ApplicationFiled: February 4, 2009Publication date: December 16, 2010Inventors: Winter Gregory, Heinis Christian
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Publication number: 20100311614Abstract: An immobilizing device for biological material comprises a rigid support (12) carrying a substrate layer (20, 20?) of polymer having biological immobilizing properties, e.g. for amino and nucleic acids. Substantially solid ultra-thin substrate layers (20?) having a thickness less than about 5 micron, preferably between about 0.1 and 0.5 micron, and microporous, ultra-thin substrate layers (20?) having a thickness less than about 5 micron, preferably less than 3 micron, 2 or 1 micron are shown, which may be segmented by isolating moats M. The substrate layer is on a microscope slide (302), round disc (122), bio-cassette, at the bottom of a well of a multiwell plate, and as a coating inside a tube. Fluorescence or luminescence intensity and geometric calibration spots (420) are shown. Reading is enhanced by the intensity calibration spots (420) to enable normalization of readings under uneven illumination conditions, as when reading by dark field, side illumination mode.Type: ApplicationFiled: June 15, 2010Publication date: December 9, 2010Applicant: AVANTRA BIOSCIENCES CORPORATIONInventors: Jean I. Montagu, Roger Dowd, David Root
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Publication number: 20100311607Abstract: The present invention relates, in general, to probes, methods, and kits used to determine the presence or absence of a microorganism in a sample. The probes, methods, and kits comprise at least one capture probe and/or at least one detector probe.Type: ApplicationFiled: December 21, 2009Publication date: December 9, 2010Applicant: BECTON, DICKINSON AND COMPANYInventors: Tobin J. Hellyer, James Nadeau, Jianrong Lou
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Publication number: 20100305001Abstract: Provided herein are compositions and methods for assaying the deleteriousness of putative loss-of-function mutations, especially in genes known to be or suspected of being tumor-suppressor genes. The invention includes syngeneic variance libraries and methods of construction and use of syngeneic variance libraries.Type: ApplicationFiled: August 28, 2008Publication date: December 2, 2010Applicant: The Johns Hopkins UniversityInventors: Scott E. Kern, Eike Gallmeier, Tomas Hucl
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Publication number: 20100304365Abstract: Disclosed is a gene mutation associated with peripheral neuropathy associated with sensorineural hearing loss and optic neuropathy. More specifically, disclosed are: a polynucleotide comprising a mutation associated with peripheral neuropathy associated with sensorineural hearing loss and optic neuropathy, or a complementary polynucleotide thereof; a polynucleotide which hybridizes with said polynucleotide; a polypeptide which is encoded by said polynucleotide; an antibody which binds to said polypeptide; and a microarray chip and a kit, which comprise said polynucleotide. Also disclosed are a method for diagnosing a syndrome of peripheral neuropathy associated with sensorineural hearing loss and optic neuropathy, a method for detecting the mutation, and a method for screening drugs for treating these diseases.Type: ApplicationFiled: December 28, 2007Publication date: December 2, 2010Applicant: SUNGKYUNKWAN UNVIERSITY FOUNDATION FOR CORPORATE COLLABORATIONInventors: Jong Won Kim, Hee Jin Kim
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Publication number: 20100303813Abstract: The present disclosure provides biomarkers that are predictive a subject's responsiveness or non-responsiveness to an anti-TNF therapy. The biomarkers, compositions, and methods described herein are useful in selecting appropriate treatment modalities (e.g., an anti-TNF therapy or a non-anti-TNF therapy) for a subject suffering from a disease such as an immune disorder.Type: ApplicationFiled: June 6, 2008Publication date: December 2, 2010Applicants: Biogen Idec MA Inc., The Feinstein Institute for Medical ResearchInventors: John P. Carulli, Peter K. Gregersen, Franak Batliwalla, Jadwiga Bienkowska, Chunyu Liu
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Publication number: 20100304995Abstract: Provided are methods, kits and arrays for carrying out relative measurement of an analyte of interest in a biological sample. As specifically exemplified, there is an array of stabilized, desiccated cDNA preparations, each at a defined location within the array, where those cDNAs were prepared from cells treated with a particular condition believed to modulate at least one gene of interest. Detection can be via Real Time Polymerase Chain Reaction using an appropriate reaction mixture and primers specific for a coding sequence of interest, and a greater relative amount of a RT PCR product from a control preparation reflects greater gene expression in response to the test condition whereas a lower amount of RT PCR product reflects an inhibitory effect on expression of the coding sequence of interest as a result of the application of the test condition.Type: ApplicationFiled: May 21, 2010Publication date: December 2, 2010Inventors: LI SHEN, SONG TIAN
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Publication number: 20100305003Abstract: The invention provides novel polynucleotides and polypeptides encoded by such polynucleotides and mutants or variants thereof that correspond to a novel human secreted stem cell growth factor-like polypeptides. Other aspects of the invention include vectors containing processes for producing novel human secreted stem cell growth factor-like polypeptides, and antibodies specific for such polypeptides.Type: ApplicationFiled: November 5, 2009Publication date: December 2, 2010Inventor: Y. Tom Tang
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Publication number: 20100304984Abstract: The invention provides materials and methods for detecting the expression of genes encoding cytochrome p450, nuclear X receptors, phase H transferases, and solute carrier family uptake pumps. The materials include sets of primers, PCR amplicons and arrays. The methods of the invention include hybridization assays. Kits and assays for the detection of the expression of the genes are also provided by the invention. In addition, the invention provides the use of the materials and methods of the invention in drug screening assays.Type: ApplicationFiled: November 8, 2007Publication date: December 2, 2010Applicant: NOAB BIODISCOVERIES INC.Inventors: Robert Shipman, Jodi A Morrison, Ines De Lannoy
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Publication number: 20100304996Abstract: The present invention provides methods for predicting the development of tolerance to a transplant, such as a kidney, using molecular markers that have different expression patterns in tolerant transplant recipients, as compared to non-tolerant or healthy, non-recipient controls.Type: ApplicationFiled: May 24, 2010Publication date: December 2, 2010Applicants: Regents of the University of California, University of Pennsylvania, Emory UniversityInventors: Vicki Seyfert, Adam Asare, Laurence A. Turka, Kenneth Newell
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Publication number: 20100304982Abstract: The invention provides particle compositions having applications in nucleic acid analysis. Nucleic acid polymer particles of the invention allow polynucleotides to be attached throughout their volumes for higher loading capacities than those achievable solely with surface attachment. In one aspect, nucleic acid polymer particles of the invention comprise polyacrylamide particles with uniform size distributions having low coefficients of variations, which result in reduced particle-to-particle variation in analytical assays. Such particle compositions are used in various amplification reactions to make amplicon libraries from nucleic acid fragment libraries.Type: ApplicationFiled: May 24, 2010Publication date: December 2, 2010Applicant: ION TORRENT SYSTEMS, INC.Inventors: Wolfgang Hinz, John Leamon, David Light, Jonathan M. Rothberg
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Publication number: 20100298156Abstract: The present invention concerns markers of resistance of HER2 expressing tumors to treatment with HER2 inhibitors, such as HER2 antibodies, including trastuzumab.Type: ApplicationFiled: June 4, 2008Publication date: November 25, 2010Inventors: Si Tuen Lee-Hoeflich, Howard Stern
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Publication number: 20100299782Abstract: The invention provides compositions and methods for manipulating the exchange of water and/or carbon dioxide (CO2) through plant stomata by controlling CO2 sensor genes. The invention provides compositions and methods for enhancing or optimizing biomass accumulation in a plant. The invention provides compositions and methods for for opening or closing a stomatal pore on a guard cell in the epidermis of a plant. The invention provides compositions and methods for increasing or decreasing oxygenation efficiency and/or carbon fixation in a guard cell in the epidermis of a plant by manipulating expression of a ribulose-1,5-bisphosphate carboxylase/oxygenase. The invention provides promoters for regulating expression of a nucleic acid in a plant guard cell.Type: ApplicationFiled: April 25, 2008Publication date: November 25, 2010Applicant: THE REGENTS OF THE UNIVERSITY OF CALIFORNIAInventors: Julian Schroeder, Maria Israelsson-Nordstrom, Josef M. Kuhn, Yingzhen Yang, Honghong Hu, Aurelien Boisson-Dernier
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Publication number: 20100298160Abstract: A gene or protein set includes at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95 possibly 100, 105, 110 genes or proteins or the entire set or antibodies (or hypervariable portion thereof) directed against the proteins encoded by these genes.Type: ApplicationFiled: September 5, 2008Publication date: November 25, 2010Applicant: Universite Libre de BruxellesInventors: Christos Sotiriou, Benjamin Haibe-Kains, Christine Desmedt
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Publication number: 20100291066Abstract: The present application concerns donor-specific antibody libraries derived from a patient donor who has suffered from, or is suffering from one or more diseases discussed herein. The present application also concerns the method of making and using the donor-specific antibodies. The present application further concerns the neutralizing antibodies obtained from the donor-specific antibody libraries and the methods of using these antibodies for the prevention/treatment of human disease.Type: ApplicationFiled: September 11, 2008Publication date: November 18, 2010Inventors: Lawrence Horowitz, Ramesh Bhatt, Arun K. Kashyap
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Publication number: 20100292103Abstract: Focused libraries of vectors or genetic packages that display, display and express, or comprise a member of a diverse family of antibody peptides, polypeptides or proteins and collectively display, display and express, or comprise at least a portion of the focused diversity of the family. The libraries have length and sequence diversities that mimic that found in native human antibodies.Type: ApplicationFiled: April 16, 2010Publication date: November 18, 2010Applicant: Dyax Corp.Inventor: Robert Charles Ladner
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Publication number: 20100292099Abstract: The present disclosure provides compositions and methods for modulating gene expression by using EGS to target miRNA. Another aspect of the present disclosure is the use of EGS to target mitochondrial RNA. MiRNA targets may include immature or mature forms of miRNA, such as miRNA overexpressed in diseases such as cancer.Type: ApplicationFiled: August 22, 2008Publication date: November 18, 2010Inventors: David H. Dreyfus, Lucy Y. Ghoda
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Publication number: 20100292083Abstract: The present invention relates to methods and techniques for providing improved amino acid sequences that can be used as single antigen-binding domains. In particular, the invention relates to methods and techniques for providing improved amino acid sequences that can be used as single antigen-binding domains that comprise or essentially consist of at least one immunoglobulin sequence. More in particular, the amino acid sequences provided herein may comprise or essentially consist of at least one variable domain sequence or a suitable fragment thereof, such as at least one light chain variable domain sequence (e.g. a VL-sequence) or a suitable fragment thereof, or at least one heavy chain variable domain sequence (e.g. a VH-sequence or VHH sequence) or a suitable fragment thereof.Type: ApplicationFiled: July 3, 2008Publication date: November 18, 2010Inventor: Joost Alexander Kolkman