Abstract: This invention relates generally to enzymes, polynucleotides encoding the enzymes, the use of such polynucleotides and polypeptides and more specifically to enzymes having isomerase activity, e.g., racemase activity, e.g., amino acid racemase activity, alanine racemase activity, and/or epimerase activity, and/or catalyze the re-arrangement of atoms within a molecule, catalyze the conversion of one isomer into another, catalyze the conversion of an optically active substrate into a raceme, which is optically inactive, catalyze the interconversion of substrate enantiomers, catalyze the stereochemical inversion around the asymmetric carbon atom in a substrate having only one center of asymmetry, catalyze the stereochemical inversion of the configuration around an asymmetric carbon atom in a substrate having more than one asymmetric center, and/or catalyze the racemization of amino acids.

Abstract: An electrical stimulation apparatus including a plurality of stimulation units that provide electrical stimulations to a target material disposed in a chamber that receives the target material and a culture medium, wherein each of the plurality of stimulation units comprises a target region on which the target material is disposed, and a first electrode and a second electrode disposed spaced apart from each other, having the target region therebetween, and at least two of the plurality of stimulation units provides different electrical stimulations to the target material.

Abstract: In a nucleic acid purification device, a washing container in which a washing solution are sealed by in a first channel and an elution container in which an eluate are sealed by in a second channel are bonded to each other to form a channel for moving a nucleic acid, the washing container includes an outer peripheral wall which is arranged by being spaced apart from the first channel and accommodates a connection portion of the first channel and the second channel, and the elution container includes a first flange which has a gap in a portion between the outer peripheral wall and an inner wall and is in contact with the inner wall and a second flange which has a gap in a portion between the outer peripheral wall and the inner wall and is in contact with the inner wall.

Abstract: An integrated “lab-on-a-chip” microfluidic device performs nucleic acid sample preparation and diagnostic analysis from test samples containing cells and/or particles. The device analyzes DNA or RNA targets, or both, from a common test sample. Dried and/or liquid reagents necessary for nucleic acid sample preparation and analysis are contained on the device, such that the device only requires addition of test sample. Clay mineral and alkaline buffer reagents are employed for overcoming the problems of nucleic acid degradation and contamination during sample preparation. The device may include a composite filter to separate plasma or serum from other blood constituents when the test sample is a blood product. The microfluidic device utilizes a plurality of microfluidic channels, inlets, valves, membranes, pumps, and other elements arranged in various configurations to manipulate the flow of the liquid sample, in particular, in order to prepare nucleic acids and perform further diagnostic analysis.

Abstract: Replicable libraries having discrete members in defined locations for screening for antigens to a pathogenic organism are provided. Also provided are methods for using such libraries as well as a specific antigen, CT788, which induces T-cell activation during a Chlamydia infection.

Abstract: This invention relates to linking, amplifying and sequencing of two ends of long linear DNAs. In particular, this invention provides methods for pairing and sequencing VH and VL genes that encode two parts of one immunoglobulin. The method of the present invention can be applied to rapid antibody discovery and engineering.

Abstract: Transposomes and oligonucleotide replacement methods to make DNA libraries that have distinct 5? and 3? tags, and to make directional libraries that are enriched for a desired strand.

Abstract: De novo synthesized large libraries of nucleic acids are provided herein with low error rates. Further, devices for the manufacturing of high-quality building blocks, such as oligonucleotides, are described herein. Longer nucleic acids can be synthesized in parallel using microfluidic assemblies. Further, methods herein allow for the fast construction of large libraries of long, high-quality genes. Devices for the manufacturing of large libraries of long and high-quality nucleic acids are further described herein.

Abstract: The invention relates to lipid formulated double-stranded ribonucleic acid (dsRNA) targeting a transthyretin (TTR) gene, and methods of using the dsRNA to inhibit expression of TTR.

Abstract: A composition and method for replacement and regeneration of hair cells of the inner ear is provided. The composition comprises an active agent in an amount effective to decrease Hes1 gene expression in a tissue of the inner ear. The active agent can be short interfering RNA (siRNA) molecules encapsulated in a biodegradable nanoparticle. The method involves administering a solution to the inner ear where the solution contains an active agent in an amount effective to decrease Hes1 gene expression.

Abstract: Provided herein are oligomeric compounds with conjugate groups targeting apoplipoprotein C-III (ApoCIII). In certain embodiments, the ApoCIII targeting oligomeric compounds are conjugated to N-Acetylgalactosamine Also disclosed herein are conjugated oligomeric compounds targeting ApoCIII for use in decreasing ApoCIII to treat, prevent, or ameliorate diseases, disorders or conditions related to ApoCIII. Certain diseases, disorders or conditions related to ApoCIII include inflammatory, cardiovascular and/or metabolic diseases, disorders or conditions. The conjugated oligomeric compounds disclosed herein can be used to treat such diseases, disorders or conditions in an individual in need thereof.

Abstract: Provided herein are oligomeric compounds with conjugate groups targeting apoplipoprotein (a) [apo(a)]. In certain embodiments, the apo(a) targeting oligomeric compounds are conjugated to N-Acetylgalactosamine. Also disclosed herein are conjugated oligomeric compounds targeting apo(a) for use in decreasing apo(a) to treat, prevent, or ameliorate diseases, disorders or conditions related to apo(a) and/or Lp(a). Certain diseases, disorders or conditions related to apo(a) and/or Lp(a) include inflammatory, cardiovascular and/or metabolic diseases, disorders or conditions. The conjugated oligomeric compounds disclosed herein can be used to treat such diseases, disorders or conditions in an individual in need thereof.

Abstract: The present invention provides in certain embodiments a method of treating autosomal dominant non-syndromic hearing loss (ADNSHL) in a patient in need thereof comprising: (a) identifying a mutation in an ADNSHL-causing gene, (b) preparing a ADNSHL therapeutic miRNA, and (c) administering to the patient a pharmaceutical composition comprising the ADNSHL therapeutic miRNA and a pharmaceutically acceptable carrier.

Abstract: The present disclosure provides compounds comprising modified oligonucleotides and anti-CD22 antibodies. Certain such modified oligonucleotides conjugated to anti-CD22 antibodies are useful for hybridizing to a complementary nucleic acid, including but not limited, to nucleic acids in a cell. In certain embodiments, hybridization results in modulation of the amount activity or expression of the target nucleic acid in a cell.

Abstract: The present invention relates to antisense oligonucleotides that modulate the expression of and/or function of Delta-like (1) homolog (DLK1), in particular, by targeting natural antisense polynucleotides of Delta-like (1) homolog (DLK1). The invention also relates to the identification of these antisense oligonucleotides and their use in treating diseases and disorders associated with the expression (DLK1).

Abstract: The present invention provides an external preparation composition of transcription factor decoy of good skin permeability, the composition comprising a transcription factor decoy dissolved in a fatty acid-based ionic liquid obtained from a fatty acid having 2 to 20 carbon atoms and an organic amine compound having 4 to 12 carbon atoms.

Abstract: The present invention relates to the expression of polypeptides using Yarrowia lipolytica, in particular the secretion of expressed polypeptides into either the extracellular space or the surface of the Y. lipolytica host cell wall. The invention also extends to the use of the polypeptides so expressed in biotechnological applications. The present invention provides an expression construct for the expression of polypeptides using at least a single Yarrowia lipolytica yeast cell, the expression construct having at least one expression cassette, the expression cassette including an acid extracellular protease secretion signal sequence and flanking zeta sequence recombination sites.

Abstract: This invention relates to methods for the transformation of Brachypodium sp. and transformed plants produced according to the method. Specifically, this invention relates to direct transformation of callus derived from immature embryos using Agrobacterium-mediated transformation, and plants regenerated from the transformed callus tissue. The methods comprise utilizing Brachypodium sp. immature embryos as the source of plant material for callus induction; induced calli can be infected by Agrobacterium hosting an appropriate binary vector. Transgenic plants are regenerated from transgenic calli grown under conditions favoring growth of transformed cells while substantially inhibiting growth of non-transformed cells. These methods provide for significantly increased plant transformation efficiency with minimal ratio of escapes.

Abstract: The present invention relates to a delivery platform that can be used to genetically modify a target in a plant or an alga. In one instance, polypeptides and/or polynucleotides can be delivered using silica delivery platforms, e.g., silica carriers or protocells. Such platforms can be employed to control gene activation and repression in the plant or alga.

Abstract: The present invention provides a transgenic alfalfa event KK179-2. The invention also provides cells, plant parts, seeds, plants, commodity products related to the event, and DNA molecules that are unique to the event and were created by the insertion of transgenic DNA into the genome of a alfalfa plant. The current invention also provides anti-sense-oriented RNA gene suppression agents in the form of a loop of anti-sense-oriented RNA that is produced in the cells of transgenic alfalfa. In addition, the invention also provides methods for detecting the presence of said alfalfa event nucleotide sequences in a sample, probes and primers for use in detecting nucleotide sequences that are diagnostic for the presence of said alfalfa event.

Abstract: Described herein is a transgenic plant that comprises a recombinant DNA construct that contains a nucleic acid sequence operably linked to a promoter, the nucleic acid sequence encoding an AFL1 polypeptide, a recombinant DNA construct for inhibiting expression of a PD15 polypeptide or a NAI2 polypeptide, or a loss-of-function pdi5 or nai2 mutation, wherein the transgenic plant exhibits increased growth under drought as compared to a control plant.

Abstract: This invention provides improved replication-competent adenoviral vectors. The improved vectors have both a hybrid regulatory unit that provides for high level transgene expression. The vectors can be use, e.g., for therapeutic or prophylactic purposes.

Abstract: Methods and compositions comprising single guide RNAs targeted to endogenous gene for genetic alteration of cells are provided.

Abstract: Methods and apparatuses for treating biomass are provided herein. In an embodiment, an exemplary method of treating biomass includes providing a biomass stream that includes a lipid component or a derivative thereof and a contaminant component that includes nitrogen, phosphorous, ammonia, or a combination thereof. The contaminant component is extracted from the biomass stream with a wash composition that includes water to produce a washed biomass stream that includes the lipid component and a waste water stream that includes the contaminant component. The waste water stream is contacted with a substrate that includes a bound microorganism to remove the contaminant component from the waste water stream.

Abstract: An object of the present invention is to provide an additive that can improve the production efficiency. The present invention is an additive for a bioethanol fermentation process comprising a polyoxyalkylene compound (A) having a Griffin's HLB value in the range of 0 to 6 and a polyoxyalkylene polyol (B). The compound (A) is preferably a mixture of a compound represented by a general formula (1) and a compound represented by a general formula (2). R1O-(AO)m-R2 (1). R3O-(AO)n-(EO)p-R4 (2). R1 and R3 represent alkyl or alkenyl, R2 and R4 represent a hydrogen atom or a monovalent organic group, AO represents oxyalkylene having a carbon number of 3 to 18, or a reaction residue of glycidol, an alkyl glycidyl ether or alkenyl glycidyl ether, EO represents oxyethylene, m and n are 1 to 100, and p is 3 to 10.

Abstract: A process for fermenting syngas is provided which is effective for decreasing an amount of time needed to inoculate a main reactor. The process includes propagating a culture of acetogenic bacteria to provide an incoulum for a main reactor and fermenting syngas in the main reactor.

Abstract: A system and method for managing an ethanologen for use in biorefinery is disclosed. The method for propagating ethanologen for use in the production of a fermentation product from biomass comprises the steps of providing a medium for propagation of ethanologen and supplying a first cell mass of ethanologen to the medium. A first cell mass of ethanologen is propagated into a larger second cell mass of ethanologen.

Abstract: This invention provides microbial organisms, particularly yeasts such as Yarrowia lipolytica, that have one or more disrupted genes. The gene disruption(s) may yield improved production of fatty acyl-CoA derivatives.

Abstract: A glucose production method is characterized in that a cellulose raw material is decomposed using a mixture of a cellulolytic enzyme, and saliva or an activating auxiliary agent derived from biological saliva. The method achieves excellent glucose yield.

Abstract: Biomass (e.g., plant biomass, animal biomass, and municipal waste biomass) is processed to produce useful products, such as fuels. For example, systems can use feedstock materials, such as cellulosic and/or lignocellulosic materials and/or starchy or sugary materials, to produce ethanol and/or butanol, e.g., by fermentation.

Abstract: The present invention relates to a method for producing a protein of interest containing one or more disulfide bonds in its native state. The method comprises that a prokaryotic host cell is genetically engineered to express the protein of interest and a sulfhydryl oxidase in the cytoplasm of the host cell. The protein of interest is formed in a soluble form and contains disulfide bonds due to the presence of the sulfhydryl oxidase in the cytoplasm of said host cell. The present invention relates also to a prokaryotic host cell and a vector system for producing a protein of interest containing natively folded disulfide bonds.

Abstract: An apparatus for dispersing microbes in a biological sample such as a liquid suspension sample and measuring turbidity of the liquid suspension is disclosed. The apparatus is configured for dispersing the microbes in a liquid suspension without destroying the integrity of the microbes and measure the turbidity of the sample suspension at the same time or in the same sample set up without having to move the microbe sample from one equipment to another.

Abstract: A device and method for concentrating microorganisms in large volumes of turbid water. When particulate builds up at the inlet filter header and pressure increases, filtrate that has collected within the filtrate reservoir serves as backflush fluid. The hollow fiber filter cartridge is backflushed as the pump reverses and filtrate flows from the filtrate reservoir, back through the hollow fiber filter cartridge, and out the inlet filter header, thereby dislodging the accumulated particulate. Elution solution is pumped though the device to remove microorganisms that may have adhered to the filter fibers and tubing. The retentate is then recovered by forward flushing the filter with eluting solution so that the retentate is sent to the off-line retentate sample container. There, the retentate sample is isolated and prevented from re-entering the hollow fiber filter cartridge. The inlet filter header therefore serves as an in-line pre-filter.

Abstract: Methods detecting covalent lysine modifications in DNA polymerases are provided. These methods are particularly useful in determining the extent and location of a lysine modification in a DNA polymerase.

Abstract: In a nucleic acid purification device, a washing container and an elution container are bonded to each other to form a channel for moving a nucleic acid, the washing container includes an outer peripheral wall which accommodates a connection portion of the first channel and a second channel, the elution container includes a plurality of flanges in the periphery of the second channel in contact with an inner wall of the outer peripheral wall, the plurality of flanges are arranged in a portion which is to be inserted into the inside of the outer peripheral wall of the elution container, and one space which is partitioned by two flanges adjacent to each other among the plurality of flanges and the outer peripheral wall communicates with another space adjacent to the one space in a state of being divided by one of the two flanges adjacent to each other.

Abstract: A method of amplifying a telomere of genomic DNA using an adaptor sequence, and a composition and a kit for amplifying the telomere of genomic DNA.

Abstract: This invention provides novel azido linkers for deoxynucleotide analogues having a detectable marker attached thereto.

Abstract: Some aspects of this disclosure provide strategies, methods, and reagents for determining nuclease target site preferences and specificity of site-specific endonucleases. Some methods provided herein utilize a novel “one-cut” strategy for screening a library of concatemers comprising repeat units of candidate nuclease target sites and constant insert regions to identify library members that can been cut by a nuclease of interest via sequencing of an intact target site adjacent and identical to a cut target site.

Abstract: The invention relates to methods for pairwise sequencing of a double-stranded polynucleotide template, which methods result in the sequential determination of nucleotide sequences in two distinct and separate regions of the polynucleotide template. Using the methods of the invention it is possible to obtain two linked or paired reads of sequence information from each double-stranded template on a clustered array, rather than just a single sequencing read from one strand of the template.

Abstract: The present disclosure provides methods for determining phased nucleic acid sequence for a single chromosome of interest and/or a single chromosomal fragment of interest. The present disclosure also provides methods for determining phased nucleic acid sequence for a plurality of single chromosomes of interest and/or a plurality of single chromosomal fragments of interest. The plurality of single chromosomes of interest may be of one chromosome type or of two or more chromosome types. The present disclosure also provides a method for isolating a plurality of chromosomal fragments of a specified size range, where the chromosomal fragments are from one or more specified regions of the genome. The plurality of chromosomal fragments may be separated into single chromosomal fragments and sequenced to provide phased nucleic acid sequence for the single chromosomal fragments.

Abstract: The present inventions relates to methods and assays to predict the response of an individual to an SSRI treatment and to a method to improve medical treatment of a disorder, which is responsive to treatment with a selective serotonin reuptake inhibitor (SSRI).

Abstract: The present invention relates to a method for diagnosing myotonic dystrophy type 1 or a method for identifying myotonic dystrophy type 1 patients by using a computer processor. According to the method of the present invention, it is possible to take suitable measures related to symptoms, which will occur later, by classifying a genetic carrier and first to third risk groups according to the repetition number of the CTF sequence of 3?-noncoding region of the DMPK gene. Particularly, the method of the present invention numerically provides a genetic carrier or the approximate prevalence of a disease with respect to an unborn baby, thereby allowing the risk of disorders to be accurately understood.

Abstract: The invention provides highly sensitive, specific and efficient quantitative real-time PCR compositions, methods and assay kits to detect at least one IFN subtype and/or IFN subtype allotypic variants. Primer/probe sets complementary to the coding sequence of an IFN subtype of interest avoid spurious detection of degraded mRNA and enhances the correlation between the IFN subtype that is measured by the assays of the invention and the protein that is actually expressed. The invention also provides methods for designing primers and methods of using the compositions and assay kits. The compositions, kits, and methods of the invention may be used, for example, to monitor vaccine efficacy, autoimmune disease, chronic infections, or tumor therapy.

Abstract: Provided herein are compositions and methods for the assessment of mineralocorticoid receptor activation or repression, and methods of customizing antihypertensive therapies based thereon. In particular, assays are provided for the detection of targets of mineralocorticoid receptor activation.

Abstract: Described herein are methods and compositions related to the discovery of associations in TNFSF15 15 and DcR3 genetic loci across in Caucasian, Puerto Rican, and Korean Crohn's Disease, as demonstrated via trans-ethnic fine mapping. The present invention provides methods of quantifying risk and diagnosing susceptibility to Crohn's disease in a subject by determining the presence of one or more risk variants are at the TNFSF15 (or TL1A) and/or DcR3 genetic loci.

Abstract: This invention provides methods and materials for measuring telomere abundance from chromosomes in a sample having telomeres within a pre-determined length range, e.g., short telomeres up to a certain length. The methods can involve a first step of performing a time-limited extension reaction calibrated to produce extension products from a double-stranded chromosomal DNA template of no more than a defined length, and a second step of amplifying, from the extension products, sequences bounded by a sub-telomeric sequence and the anchor sequence, to produce a length-limited telomere sequence product. The abundance of telomeric sequences in this product can be measured, and the measures can be correlated to a variety of indices.

Abstract: Disclosed are methods for non-invasive fetal genetic analysis involving enrichment of trophoblast cells in a maternal cervical sample, followed by isolation and genetic analysis of the isolated trophoblasts.

Abstract: Provided herein are methods for the detection of genetic mutations associated with cancer, particularly in the KIT gene.

Abstract: Disclosed herein are methods of identifying a cancer patient that will be responsive to treatment with a fibroblast growth factor receptor (FGFR) inhibitor and methods of treating cancer patients. The methods involve evaluating a biological sample from the patient for the presence of one or more FGFR mutants from a FGFR mutant gene panel. Kits and primers for identifying the presence of one or more FGFR mutant genes in a biological sample are also disclosed herein.

Abstract: Provided herein is technology relating to detecting neoplasia and particularly, but not exclusively, to methods, compositions, and related uses for detecting neoplasms such as cholangiocarinoma.