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Nucleotides or polynucleotides, or derivatives thereof

Subclass of:

506 - Combinatorial chemistry technology: method, library, apparatus

506013000 - LIBRARY, PER SE (E.G., ARRAY, MIXTURE, IN SILICO, ETC.)

506015000 - Library containing only organic compounds

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Class / Patent application numberDescriptionNumber of patent applications / Date published
506017000 RNA or DNA which encodes proteins (e.g., gene library, etc.) 125
Entries
DocumentTitleDate
20130045894Method for Amplification of Target Nucleic Acids Using a Multi-Primer Approach - The present invention is a method for amplification of target nucleic acids wherein a first and second primer set is used to amplify a target nucleic acid in a single amplification reaction. The primers of the first primer set generate a first amplification product that serves as a template for amplification by the primers of the second primer set due to the incorporation of a first and second tag sequence added to the target nucleic acid from the forward and reverse primers of the first primer set to which the primers of the second primer set can hybridize to its complement. Additional sequences are thereby added to the resulting target nucleic acid amplicons because of further amplification from the first amplification products by the primers of the second primer set.02-21-2013
20120184463siRNA Targeting Connective Tissue Growth Factor (CTGF) - 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 CTGF.07-19-2012
20110195868METHODS AND COMPOSITIONS FOR GENETICALLY DETECTING IMPROVED MILK PRODUCTION TRAITS IN CATTLE - An isolated nucleic acid molecule comprising a polymorphic site selected from the group consisting of positions 164, 269, 284, 407 and 989 of SEQ ID NO: 1, an array or a kit comprising the same. Also provided are a method for detecting single nucleotide polymorphism (SNP) in bovine proteinase inhibitor (PI) gene, a method for haplotyping a bovine cell, a method for progeny testing of cattle based on said haplotyping, a method for selectively breeding of cattle based on haplotyping a parent animal. The present invention further provides a method for testing a dairy cattle for its milk production trait, comprising haplotyping its cells, wherein a cattle having haplotypes 1, 3, 4 or 5 indicates that the cattle has desirable milk production trait. Haplotype 1 indicates that the cattle has the most desirable milk production trait.08-11-2011
20130210674WHOLE GENOME EXPRESSION ANALYSIS SYSTEM - A method for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species. The method can comprise distributing a liquid sample into an array of reaction chambers of a substrate. The array can comprise a primer set and a probe for each polynucleotide target along the entire standard genome. The liquid sample can comprise substantially all genetic material of the member. Each of the reaction chambers can comprise the primer set and the probe for at least one of the polynucleotide targets and a polymerase. The method can further comprise amplifying the liquid sample in the array, detecting a signal emitted by at least one of the probes, and identifying the genetic expression profile in response to the signal.08-15-2013
20130085084Modified Molecular Arrays - A composition including (a) a solid support having a surface; (b) a first plurality of nucleic acids immobilized on the surface, wherein the nucleic acids in the first plurality each include the P7 primer sequence (5′-CAAGCAGAAGACGGCATACGA-3′); and (c) a second plurality of nucleic acids immobilized on the surface, wherein the nucleic acids in the second plurality each include the P5 primer sequence (5′-AATGATACGGCGACCACCGA-3′).04-04-2013
20130085083SUBSTANTIALLY NON-SELF COMPLEMENTARY PRIMERS - The present invention regards a variety of methods and compositions for whole genome amplification and whole transcriptome amplification. In a particular aspect of the present invention, there is a method of amplifying a genome comprising a library generation step followed by a library amplification step. In specific embodiments, the library generating step utilizes specific primer mixtures and a DNA polymerase, wherein the specific primer mixtures are designed to eliminate ability to self-hybridize and/or hybridize to other primers within a mixture but efficiently and frequently prime nucleic acid templates.04-04-2013
20100075869siRNA targeting TATA box binding protein (TBP)-associated factor (TAF1) - 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 TAF103-25-2010
20120245056COMPOSITIONS AND METHODS FOR THE SAME ASSEMBLY OF POLYNUCLEOTIDES - The present invention provides compositions and methods for rapid assembly of one or more assembled polynucleotides from a plurality of component polynucleotides. The methods of the invention utilize circular nucleic acid vectors that comprise a DNA segment D flanked by an annealable linker sequence, annealable linker sequence pairs LA and LB, or annealable linker sequence/primer binding segment pairs LA and PB or PA and LB. Restriction endonuclease digestion of a plurality of vectors containing the DNA segments to be assembled generates a plurality of DNA fragments comprising the elements PA-D-LB, LA-D-LB, and LA-D-PB or D-LB, LA-D-LB, and LA-D. The sequences of annealable linker sequences LA and LB provide complementary termini to the DNA fragments, which are utilized in host cell mediated homologous recombination or together with promer binding segments PA and PB in a polymerase cycling assembly reaction for the ordered assembly of the various DNA segments into one or more assembled polynucleotides.09-27-2012
20130079248FLUID CONTROLLING APPARATUS AND FILTER AND BIOCHIP INCLUDING THE FLUID CONTROLLING APPARATUS - A fluid controlling apparatus including an inlet through which a fluid is introduced, a channel portion connected to the inlet, an outlet that is connected to the channel portion and through which the fluid is discharged, and at least one fluid resisting portion disposed between the inlet and the outlet, as well as a filter and a biochip including the fluid controlling apparatus.03-28-2013
20130035260GENES INVOLVED IN INFLAMMATORY BOWEL DISEASES AND USE THEREOF - The invention concerns genes involved in inflammatory and/or immune diseases and some cancers, in particular intestinal cryptogenic inflammatory diseases, and proteins coded by said genes. The invention also concerns methods for diagnosing inflammatory diseases.02-07-2013
20130035259Methods and/or Systems Producing and Providing Sets of Oligonucleotide Conjugates for Assays and Detections - The present disclosure is directed to methods and/or systems producing and providing uses sets of oligonucleotide conjugates for assays and detections and related systems and/or kits. Certain methods are directed to a method for detecting one or more biological targets of a sample in a detection assay, comprising: providing a molecular probe, comprising a binding moiety and an oligonucleotide sequence, to a sample comprising one or more biological targets; binding the one or more biological targets with the binding moiety; providing a detectable component to the sample, wherein the detectable component comprises a signal generating moiety conjugated to an oligonucleotide sequence complementary to the oligonucleotide sequence of the molecular probe; hydridizing the oligonucleotide sequence of the target-bound molecular probe to the detectable component; and detecting a signal generated from the hydridized detectable component. Various other embodiments, applications etc. are disclosed herein.02-07-2013
20130040860MICROARRAY SYSTEM WITH IMPROVED SEQUENCE SPECIFICITY - The invention provides a novel array method for nucleic acid sequence detection with improved specificity which allows for detection of genetic variation, from simple SNPs (where the variation occurs at a fixed position and is of limited allelic number) to more complex sequence variation patterns (such as with multigene families or multiple genetic strains of an organism where the sequence variation between the individual members is neither fixed nor consistent). The array is comprised of short, synthetic oligonucleotide probes attached to a solid surface which are hybridized to single-stranded targets. Single stranded targets can be produced using a method that employs primers modified on the 5′ end to prohibit degradation by a 5′-exonuclease that is introduced to degrade the unprotected strand. The invention further provides for printing buffers/solutions for the immobilization of oligonucleotide probes to an array surface. The invention also provides hybridization and wash buffers and conditions to maximize hybridization specificity and signal intensity, and reduce hybridization times.02-14-2013
20130040859SPECTRALLY-RESOLVED CHEMILUMINESCENT PROBES FOR SENSITIVE MULTIPLEX MOLECULAR QUANTIFICATION - Hybrid luminescent probes emit light of distinct wavelength ranges and intensities upon energy transfer from an in-common, acridinium ester chemiluminophore to a coupled luminophore. The probes include: (1) a target binding region with a base sequence that is substantially complementary to a portion of the target nucleic acid sequence; (2) an acridinium ester (AE) moiety attached to a first region flanking the target binding region; (3) a luminophore coupled to the AE moiety to allow energy transfer from an acridone moiety, produced by a chemical triggering of the AE moiety, to the luminophore; and (4) a quencher moiety attached to a second region flanking the target binding region, such that the first and second flanking regions are on the opposite sides of the target binding region. The probes are particularly useful in homogeneous assays for sensitive, multiplex quantification of nucleic acid target sequences without prior enzymatic amplification.02-14-2013
20130040858RECURRENT GENE FUSIONS IN PROSTATE CANCER - Recurrent gene fusions of androgen regulated genes and ETS family member genes in prostate cancer are described. Compositions and methods having utility in prostate cancer diagnosis, research, and therapy are also provided.02-14-2013
20120264650Multiplexed Microarray Assembly and Method for Fabricating a Multiplexed Microarray - Multiplexed microarrays, multiplexed microarray cassettes, and methods for fabricating multiplexed microarrays are disclosed. In some embodiments, the multiplexed microarrays include a substrate, a chamber layer, and at least one channel layer. The topmost channel layer forms a port layer and may be compressible. The multiplexed microarrays may also include a compressible or non-compressible cover or sealing film. The multiplexed microarray cassette includes a base and may also include a cover. The base of the multiplexed microarray cassette includes a plurality of tracks to receive corresponding multiplexed microarrays.10-18-2012
20100144550Qualitative Differential Screening - The invention concerns a method for identifying and/or cloning nucleic acid regions representing qualitative differences associated with alternative splicing events and/or with insertions, deletions located in RNA transcribed genome regions, between two physiological situations, comprising either hybridization of RNA derived from the test situation with cDNA's derived from the reference situation and/or reciprocally, or double-strand hybridization of cDNA derived from the test situation with cDNA's derived from the reference situation; and identifying and/or cloning nucleic acids representing qualitative differences. The invention also concerns compositions or banks of nucleic acids representing qualitative differences between two physiological situations, obtainable by the above method, and their use as probe, for identifying genes or molecules of interest, or still for example in methods of pharmacogenomics, and profiling of molecules relative to their therapeutic and/or toxic effects. The invention further concerns the use of dysregulation of splicing RNA as markers for predicting molecule toxicity and/or efficacy, and as markers in pharmacogenomics.06-10-2010
20080274914Screening Method for Somatic Cell Nuclear Reprogramming Substance - The present invention provides a screening method for somatic cell nuclear reprogramming substances, which comprises (a) a step for bringing into contact with each other a somatic cell comprising a gene wherein a marker gene is present at a position permitting expression control by the expression control region of an ECAT gene, and a test substance, and (b) a step following the aforementioned step (a), for determining the presence or absence of the emergence of cells expressing the marker gene, and selecting a test substance allowing the emergence of the cells as a somatic cell nuclear reprogramming substance candidate, and the like.11-06-2008
20100323922siRNA targeting TATA box binding protein (TBP)-associated factor (TAF1) - 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 TAF112-23-2010
20100041569METHODS OF USING AN ARRAY OF POOLED PROBES IN GENETIC ANALYSIS - The invention provides arrays of polynucleotide probes having at least one pooled position. A typical array comprises a support having at least three discrete regions. A first region bears a pool of polynucleotide probes comprising first and second probes. A second region bears the first probe without the second probe and a third region bears the second probe without the first probe. A target nucleic acid having segments complementary to both the first and second probes shows stronger normalized binding to the first region than to the aggregate of binding to the second and third regions due to cooperative binding of pooled probes in the first region. The invention provide methods of using such arrays for e.g., linkage analysis, sequence analysis, and expression monitoring.02-18-2010
20120165229OPTIMIZED PROBES AND PRIMERS AND METHODS OF USING SAME FOR THE DETECTION, SCREENING, ISOLATION AND SEQUENCING OF MRSA, MSSA, STAPHYLOCOCCUS MARKERS, AND THE ANTIBIOTIC RESISTANCE GENE MEC A - Described herein are primers and probes useful for the detection, screening, isolation and sequencing of MRSA, MSSA, Staphylococci markers, and the antibiotic resistance gene mecA.06-28-2012
20100069260COMPOSITIONS AND METHODS FOR THE IDENTIFICATION OF INHIBITORS OF PROTEIN SYNTHESIS - Compositions and methods for identifying inhibitors of RNA-target molecule interactions are provided as well as identifying inhibitors that block the role of tRNA in protein synthesis. The methods involve forming a mixture comprising a tRNA fragment molecule containing a modified nucleotide, a target molecule capable of binding to the tRNA fragment, and a test compound. The mixture is incubated under conditions that allow binding of the tRNA and the target molecule in the absence of the test compound. Assays can then be performed that detect whether or not the test compound inhibits the binding of the tRNA molecule and the target molecule. High throughput assays are also provided.03-18-2010
20130045893APPARATUSES FOR DETERMINING WHETHER A SUBSTANCE IS CARRIED IN A FLUID - Apparatuses for determining whether a substance is carried in a fluid are disclosed. One such apparatus includes a body having: a plurality of spaced-apart capture surfaces configured to contact the fluid and capture the substance from the fluid; and a plurality of fluid guiding surfaces spaced apart by a predetermined distance from respective at least portions of respective ones of the plurality of capture surfaces. Another such apparatus includes: a fluid conduit to direct flow of the fluid; and at least one element removably positioned in the fluid conduit and having at least one capture surface configured to contact the fluid and capture the substance from the fluid.02-21-2013
20130053280NUCLEIC ACID ANALYSIS DEVICE, METHOD FOR PRODUCING SAME, AND NUCLEIC ACID ANALYZER - Disclosed is a technique for binding microparticles to patterned bonding pads of a metal (e.g., gold) formed on a support. The microparticles each carry a nucleic acid synthetase or DNA probe immobilized thereon for capturing a nucleic acid sample fragment. The technique involves forming, on a support surface, a film having a thickness equivalent to that of the bonding pads; controlling the size of microparticles with respect to the size of bonding pads; and thereby immobilizing microparticles each bearing a single nucleic acid sample fragment to the bonding pads in a one-to-one manner in a grid form. This allows high-density regular alignment and immobilization of many types of nucleic acid fragment samples on a support and enables high-throughput analysis of nucleic acid samples. Typically, immobilization of microparticles at 1-micrometer intervals easily provides a high density of 1002-28-2013
20130053279BIOCHIP AND FABRICATING METHOD THEREOF - A biochip includes a substrate, a photoresist pattern layer, a blocking layer, a bonding layer, at least one linker molecule, and a probe molecule. The photoresist pattern layer is formed on a surface of the substrate. The blocking layer is formed on the surface of the substrate at a region uncovered by the photoresist pattern layer. The bonding layer is covalently attached to the photoresist pattern layer. The at least one linker molecule is covalently bonded to the binding layer. The probe molecule is covalently bonded to the at least one linker molecule for specifically reacting with a to-be-detected molecule.02-28-2013
20130090262SELECTIVE ENRICHMENT OF CpG ISLANDS - The present invention provides compositions and methods for selectively enriching genomic CpG island (CGI)- and other epigenetically informative CG-rich polynucleotide targets. The method involves co-incubation of denatured or partially denatured polynucleotide fragments containing the CGI- or CG-targeted region(s) of interest with an oligonucleotide capture pool collectively designed to selectively target CGIs. The oligonucleotide capture pool includes a plurality of different oligonucleotides, each oligonucleotide coupled to a capture tag, whereby the oligonucleotide includes a CpG target sequence restricted to 4 to 10 bases. Upon binding, capture oligonucleotides bound to the target fragments are enriched by separating the bound fragments from the unbound fragments. The enriched fragments may be subjected to further analyses, including bisulfite sequencing to generate a methylation profile at the single nucleotide level.04-11-2013
20090093377Method of disrupting heme transport in nematodes and of modelling and evaluating eukaryotic heme transport - A method for treating helminthic infections in a mammal or plant which entails administering one or more compounds which are metal-ligand chelate compounds containing a metal and a tetrapyrrole compound or a porphyrin compound, to mammal or plant in need thereof.04-09-2009
20110059867FUNCTIONALIZED POLYDIACETYLENE SENSORS - A microarray includes a solid substrate having a surface, the surface having a plurality of binding spots and a plurality of reaction moieties bound to the binding spots. A reaction moiety includes a plurality of polyacetylene monomers, the polyacetylene monomers having a first coupling region and a second coupling region, the first coupling region having a first functional group operable to bind to the binding spot and the second coupling region comprising a second functional group operable to bind to an accessory molecule; and an accessory molecule having a binding region and an analyte reaction region, the analyte reaction region operable to selectively bind to the target analyte, and the binding region operable to bind to the second coupling region of the polyacetylene monomer. Upon binding a target analyte with the reaction moiety, a color change from the polyacetylene monomer occurs and the reaction moiety produces fluorescence.03-10-2011
20130059760siRNA Targeting Fructose-1, 6-bisphosphatase 1 (FBP1) - 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 FBP1.03-07-2013
20130059759REVERSE TRANSCRIPTION PRIMERS AND METHODS OF DESIGN - The present invention provides novel algorithms for designing oligonucleotides that do not substantially hybridize to a small group of unwanted transcripts, while hybridizing to most other transcripts. Such oligonucleotides are particularly useful as primers for reverse transcription. The invention also provides compositions containing oligonucleotides that do not substantially hybridize to a small group of unwanted transcripts, while hybridizing to most other transcripts.03-07-2013
20110015097SUPPORT CARRYING AN IMMOBILIZED SELECTIVE BINDING SUBSTANCE - A support carrying an immobilized selective binding substance, that the support surface has a polymer containing the structural unit represented by the following General Formula (1) in an amount of 10% or more with respect all monomer units, and a selective binding substance is immobilized on the support surface by binding to the carboxyl group formed thereon via a covalent bond:01-20-2011
20110015096MULTIPLEX BARCODED PAIRED-END DITAG (mbPED) LIBRARY CONSTRUCTION FOR ULTRA HIGH THROUGHPUT SEQUENCING - Multiplex barcoded Paired-End Ditag (mbPED) library construction for ultra high throughput sequencing is disclosed. The mbPED library comprises multiple types of barcoded Paired-End Ditag (bPED) nucleic acid fragment constructs, each of which comprises a unique barcoded adaptor, a first tag, and a second tag linked to the first tag via the barcoded adaptor. The two tags are the 5′- and 3′-ends of a nucleic acid molecule from which they originate. The barcoded adaptor comprises a barcode, a first polynucleotide sequence comprising a first restriction enzyme (RE) recognition site, and a second polynucleotide sequence comprising a second RE recognition site and covalently linked to the first polynucleotide sequence via the barcode. The two REs lead to cleavage of a nucleic acid at a defined distance from their recognition sites. The length of the adaptor is set so that the bPED nucleic acid fragment fits one-step sequencing.01-20-2011
20110015095ARACHNOCAMPA LUCIFERASES - Nucleotide and amino acid sequences of luciferase peptides that are encoded by genes within the genome of 01-20-2011
20090280997Microarray system - This invention embodies a method that can be used to increase the porosity of the gel substrate during the fabrication of microchips. This increase in gel porosity will allow larger molecules such as non-fragmented RNAs and DNA fragments greater then 100 base pairs in length, and proteins to be immobilized and introduced within the gel microchips.11-12-2009
20090011955Method for Localization of Nucleic Acid Associated Molecules and Modifications - The present invention relates to a method for the localization of at least one molecule associated with, or site of interest in, a sample nucleic acid, comprising the steps—Bringing at least one reporter complex, comprising at least one binding part showing specific binding to the molecule or the site of interest and at least one reporter nucleic acid, into contact with the sample nucleic acid,—Fragmenting the sample nucleic acid,—Enzymatically ligating the reporter complex nucleic acid(s) to the sample nucleic acid, and—Detecting the hybrid ligation product. The invention also relates to libraries made with the method as well as microarrays of such libraries.01-08-2009
20100087334siRNA targeting superoxide dismutase 1 (SOD1) - 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 SOD1.04-08-2010
20120238475Methods of Amplifying and Sequencing Nucleic Acids - An apparatus and method for performing rapid DNA sequencing, such as genomic sequencing, is provided herein. The method includes the steps of preparing a sample DNA for genomic sequencing, amplifying the prepared DNA in a representative manner, and performing multiple sequencing reaction on the amplified DNA with only one primer hybridization step.09-20-2012
20110105364COMPOSITIONS AND METHODS FOR TARGETED NUCLEIC ACID SEQUENCE SELECTION AND AMPLIFICATION - The present invention provides novel methods, compositions, and kits for the production of amplification-ready, sequence-specific, target region-specific, and strand-specific regions of interest directly from samples containing complex DNA. The methods, composition, and kits provided herein are useful for selective target generation, genome partitioning, or user-selected enrichment of desired regions of interest. The invention described herein will enable multiplexing for genome-wide analysis with increased efficiency and is amenable to automation.05-05-2011
20090149346Strategies for gene expression analysis - The invention provides methods for screening compound or chemical libraries by analyzing expressed RNA samples from biological samples treated with members of a compound library in a high throughput format.06-11-2009
20100267585Chemical ligation dependent probe amplification (CLPA) - The present invention provides compositions, apparatuses and methods for detecting one or more nucleic acid targets present in a sample. Methods of the invention include utilizing two or more oligonucleotide probes that reversibly bind a target nucleic acid in close proximity to each other and possess complementary reactive ligation moieties. When such probes have bound to the target in the proper orientation, they are able to undergo a spontaneous chemical ligation reaction that yields a ligated oligonucleotide product. In one aspect, the ligation product is of variable length that correlates with a particular target. Following chemical ligation, the probes may be amplified and detected by capillary electrophoresis or microarray analysis.10-21-2010
20090048124Methods of amplifying and sequencing nucleic acids - An apparatus and method for performing rapid DNA sequencing, such as genomic sequencing, is provided herein. The method includes the steps of preparing a sample DNA for genomic sequencing, amplifying the prepared DNA in a representative manner, and performing multiple sequencing reaction on the amplified DNA with only one primer hybridization step.02-19-2009
20090239768METHOD FOR PREPARING COMPOUNDS BY NUCLEIC ACID DIRECTED SYNTHESIS - The present invention provides compositions, compounds and methods for in vitro DNA display technology, allowing display of a variety of molecules, in particular molecules obtained by water incompatible mechanisms. Advantages of such methods are that combinatorial libraries can be constructed comprising molecules which are obtained through water incompatible reactions.09-24-2009
20110136694DENSITY MODIFICATION IN ARRAYS OF SURFACE-ATTACHED NUCLEIC ACID MOLECULES - Substrates having nucleic acid polymers attached at varying surface densities and methods for creating substrates having nucleic acid polymers attached at varying surface densities are provided. Methods according to embodiments of the invention are adapted to the rapid synthesis of arrays of DNA polymers on a substrate surface. In embodiments of the invention an array of DNA molecules on a substrate comprises a plurality of DNA polymers attached to a trifunctional linker such that at least two DNA polymers are attached to one trifunctional linker that is attached to the surface of the substrate. By coupling trifunctional linkers to trifunctional linkers that are attached to a substrate surface, the density of DNA polymers on a substrate surface is increased.06-09-2011
20110281769siRNA targeting beta secretase (BACE) - 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 BACE.11-17-2011
20110281768DIAGNOSTIC SEQUENCING WITH SMALL NUCLEIC ACID CIRCLES - Methods, substrates, and systems for diagnostic sequencing are provided. Small circles of nucleic acids from about 10 bases to about 200 bases can be sequenced, for example using template dependent sequencing by synthesis. The use of small circles of nucleic acids allows for repeated sequencing of the same portions of the nucleic acid, providing for higher accuracy sequence determinations.11-17-2011
20110281767COMPOSITIONS AND METHODS FOR MOLECULAR BIOLOGY - The present invention provides materials and methods for the utilization of the specific interaction of replication termination sequences with their binding proteins in molecular biology applications.11-17-2011
20110281766Multiplex microarray of serially deposited biomolecules on a microarray - Disclosed herein is a multiplex microarray having serially attached non-functionalized biomolecules attached to a polymer coating covering each electrode of an array of electrodes for assays and a method of making the multiplex microarray. The method comprises serially blocking the electrodes of the microarray with a blocking protein, electropolymerizing pyrrole or a functionalized pyrrole on the electrodes where the biomolecule is not present during polymerization, exposing the microarray to a biomolecular solution containing a non-functionalized biomolecule for attachment to the polymer coating, and then repeating the steps to form the multiplex microarray.11-17-2011
20110281765Plant polymorphic markers and uses thereof - The present invention is in the field of plant genetics. More specifically, the invention relates to nucleic acid markers associated with 11-17-2011
20110077172ASSEMBLY AND DEPOSITION OF MATERIALS USING A SUPERHYDROPHOBIC SURFACE STRUCTURE - Fluidics-induced localized deposition and assembly of materials using a superhydrophobic surface structure is described. A method of localized deposition of a material includes contacting a superhydrophobic substrate comprising raised surface structures with a non-wetting fluid comprising a material to be locally deposited or a precursor thereto, said surface and said fluid selected such that the fluid wets only an upper portion of the raised surface structure; and allowing the material to deposit at the tips of the surface structure.03-31-2011
20110294701Nucleic acid amplification using non-random primers - The present invention provides methods for selectively amplifying a target population of nucleic acid molecules (e.g., all mRNA molecules expressed in a cell type except for the most highly expressed mRNA species). The present invention also provides populations of oligonucleotides including the nucleic acid sequences set forth in SEQ ID NOS:1-933. These oligonucleotides can be used, for example, to prime the synthesis of cDNA molecules complementary to mRNA molecules isolated from mammalian blood without priming the synthesis of cDNA molecules complementary to globin mRNA, or ribosomal RNA molecules.12-01-2011
20080300147Detection and Treatment of Fibrotic Disorders - The present invention provides a method for detecting a fibrotic disorder in a subject by: (a) providing a biological sample obtained from the subject (such as endometrium, peritoneal fluid, and/or smooth muscle cells); (b) analyzing the expression of at least one gene that is differentially expressed in the fibrotic disorder of interest; and (c) correlating the expression of the gene(s) with the presence or absence of the fibrotic disorder in the subject. The present invention also provides a method and compositions for modulating the expression of genes that are differentially expressed in fibrotic tissues, compared to normal tissues. Restoration of gene expression to levels associated with normal tissue is expected to ameliorate at least some of the symptoms of the fibrotic disorder. This method includes the step of contacting the tissue with an agent that modulates expression of one or more differentially expressed genes in the tissue. The present invention also includes arrays, such as microfluidic cards, for detecting differential gene expression in samples of fibrotic tissue.12-04-2008
20100016176siRNA targeting histamine receptor H1 - 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.01-21-2010
20090318308HIGHLY DIVERSIFIED ANTIBODY LIBRARIES - The present invention provides an in vitro method for obtaining a library of polynucleotides encoding antibodies, derivatives thereof or fragments thereof, comprising the step of performing random mutagenesis of a polynucleotide encoding the variable region of a heavy chain and/or the variable region of a light chain of a light chain, wherein random mutagenesis is performed on a library of polynucleotides comprising a sequence encoding the variable region of a heavy chain and/or the variable region of a light chain; and wherein the random mutagenesis process creates randomly distributed mutations along at least 70% of the sequence encoding the variable region.12-24-2009
20100267584Methods for monitoring multiple gene expression - The present invention relates to methods for monitoring differential expression of a plurality of genes in a first 10-21-2010
20100113306siRNA Targeting connective tissue growth factor (CTGF) - 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 CTGF.05-06-2010
20110201524PRESERVATION OF INFORMATION RELATED TO GENOMIC DNA METHYLATION - The present invention relates to compositions, methods and systems for analyzing the methylation state of nucleic acids. Some embodiments relate to a compositions, methods and systems for analyzing the methylation state of DNA with a gene array.08-18-2011
20110201523Particle Arrays and Methods of Making and Using - 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.08-18-2011
20100279895OLIGONUCLEOTIDE ANALOGUES - The present invention relates to novel bicyclic and tricyclic nucleoside and nucleotide analogues as well as to oligonucleotides comprising such elements. The nucleotide analogues, LNAs (Locked Nucleoside Analogues), are able to provide valuable improvements to oligonucleotides with respect to affinity and specificity towards complementary RNA and DNA oligomers. The novel type of LNA modified oligonucleotides, as well as the LNAs as such, are useful in a wide range of diagnostic applications as well as therapeutic applications. Among these can be mentioned antisense applications, PCR applications, strand displacement oligomers, as substrates for nucleic acid polymerases, as nucleotide based drugs, etc. The present invention also relates to such applications.11-04-2010
20100120633Biopolymeric Arrays Having Replicate Elements - A method for designing an array is provided. In certain embodiments, this method includes grouping probes into a plurality of ranked groups of probes; and designing an array comprising the ranked groups of probes, wherein the array contains more replicates of probes in a higher ranked group as compared to probes of a lower ranked group of probes.05-13-2010
20100099578siRNA Targeting Fructose-1, 6-bisphosphatase 1 (FBP1) - 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 FBP1.04-22-2010
20090258795Gene expression markers for prediction of patient response to chemotherapy - A method of predicting clinical outcome in a subject diagnosed with cancer and treated with chemotherapy comprising determining evidence of the expression of one or more predictive RNA transcripts or their expression products in a biological sample comprising cancer cells obtained from the subject.10-15-2009
20090186779DIAMOND-BASED ARRAY ELECTRODE - An array comprising a probe covalently attached to a diamond substrate is fabricated, for example, by treating the diamond substrate with an aryl diazonium compound and covalently attaching the probe to the aryl group. Some embodiments are useful in DNA-based sensing applications.07-23-2009
20090170723ABLATION BASED LASER MACHINING OF BIOMOLECULE PATTERNS ON SUBSTRATES - A method for patterning a one or more biomolecules on a substrate that includes coating the substrate with a coating of the one or more biomolecules, applying a laser to the coating, and ablating a portion of the one or more biomolecules with the laser in a predetermined pattern.07-02-2009
20090143246Patterning with compositions comprising lipid - Better patterning methods, including for better methods for forming biomolecular arrays, including a method comprising: providing a tip and a substrate surface, disposing a patterning composition at the end of the tip, depositing at least some of the patterning composition from the tip to the substrate surface to form a deposit disposed on the substrate surface, wherein the patterning composition comprises at least one lipid, optionally at least one solvent, and at least one patterning species different from the lipid and the optional solvent. The lipid can be a phospholipid such as DOPC. The patterning species can be an oligonucleotide or a protein. Microarrays and nanoarrays can be prepared including nanoscale resolution of deposits. The lipid can activate patterning or increase the rate of patterning. Simplified tip preparation can be achieved. Nanoscopic, SPM, and AFM tips can be used.06-04-2009
20090280998Microarray having a base cleavable linker - There is disclosed a microarray having base cleavable linkers and a process of making the microarray. The microarray has a solid surface with known locations, each having reactive hydroxyl groups. The density of the known locations is greater than approximately 100 locations per square centimeter. Optionally, oligomers are synthesized in situ onto the cleavable linkers and subsequently cleaved using a cleaving base. Optionally, the oligomers are cleaved and recovered as a pool of oligomers.11-12-2009
20090286696Double-Stranded Olidonucleotides and Uses Therefor - The present invention relates generally to the field of screening or diagnostic applications in which a target is required to be displayed for binding to another molecule, or interaction or reaction with another molecule. In particular, the present invention relates to the use of DNA/protein interactions to immobilize or present one or more biomolecules for screening purposes. The present invention more particularly relates to double-stranded oligonucleotides, wherein said oligonucleotide comprises a first strand and a second strand, wherein: (a) said first strand comprises the sequence: 5′-N11-19-2009
20100248991SOLID SUPPORT FOR HIGH-THROUGHPUT NUCLEIC ACID ANALYSIS - The present invention provides a solid support which is preferably a bead comprising at least two sequence specific amplification primers wherein at least one primer is bound to the support with an inducible cleavable linker. The present invention also provides various method for preparing a solid support comprising at least two sequence specific primers, further characterized in that at least one of the primers is cleavable.09-30-2010
20100248990siRNA targeting ribonucleotide reductase M2 polypeptide (RRM2 or RNR-R2) - 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 RRM2.09-30-2010
20100137163Microfluidic Devices and Methods of Use in The Formation and Control of Nanoreactors - The present invention provides novel microfluidic devices and methods that are useful for performing high-throughput screening assays and combinatorial chemistry. Such methods can include labeling a library of compounds by emulsifying aqueous solutions of the compounds and aqueous solutions of unique liquid labels on a microfluidic device, which includes a plurality of electrically addressable, channel bearing fluidic modules integrally arranged on a microfabricated substrate such that a continuous channel is provided for flow of immiscible fluids, whereby each compound is labeled with a unique liquid label, pooling the labeled emulsions, coalescing the labeled emulsions with emulsions containing a specific cell or enzyme, thereby forming a nanoreactor, screening the nanoreactors for a desirable reaction between the contents of the nanoreactor, and decoding the liquid label, thereby identifying a single compound from a library of compounds.06-03-2010
20080274915Solid Substrate Comprising Array of Dendrons and Methods for Using the Same - The present invention provides solid supports comprising a surface bound array of dendrons and methods for using the same.11-06-2008
20090298712ARRAY OF MICROCAPSULES FOR CONTROLLED LOADING OF MACROMOLECULES, NANOPARTICLES AND OTHER NANOSCALE ITEMS AND A METHOD OF FABRICATING IT - The invention provides a microcapsule array comprising a plurality of microcapsules immobilised on a surface, optionally in microwells in said surface. Each of the microcapsules comprises an outer layer or shell defining a microcapsule interior, said outer layer having a permeability towards a nanoscale species which is dependent on an environmental condition to which said array is exposed.12-03-2009
20090170724Labelled nucleotides - Nucleosides and nucleotides are disclosed that are linked to detectable labels via a cleavable linker group.07-02-2009
20080293593siRNA targeting casitas B cell lymphoma-B (CBL-B) - 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 CBL-B.11-27-2008
20080305967Genetic Markers Associated with Endometriosis and Use Thereof - The present invention relates to novel genetic markers associated with endometriosis and risk of developing endometriosis, and methods and materials for determining whether a human subject has endometriosis or is at risk of developing endometriosis.12-11-2008
20080227659Incrementally Truncated Nucleic Acids and Methods of Making Same - A series of methods that utilize the incremental truncation of nucleic acids are described to create a plurality of modified nucleic acids and hybrid polypeptides. A plurality of substantially all possible single base-pair deletions of a given nucleic acid sequence is created. A method of making shuffled incremental truncated nucleic acids, which is independent of nucleic acid sequence homology, is also described. These methods can be used in protein engineering, protein folding, protein evolution, and the chemical synthesis of novel hybrid proteins and polypeptides.09-18-2008
20080200347Array and Hybridization Method - The present invention provides a hybridization method suited for using a signal probe. An array of the present invention comprises: a substrate; a nucleic acid probe that is fixed to the substrate and is hybridized with a sample to have a signal change; and at least one cavity that is filled with a specific liquid containing the sample and causing the hybridization of the nucleic acid probe with the sample. The array in this arrangement effectively enhances the reproducibility and the efficiency of hybridization with the signal probe.08-21-2008
20080269073DIRECT WRITE NANOLITHOGRAPHIC DEPOSITION OF NUCLEIC ACIDS FROM NANOSCOPIC TIPS - The use of direct-write nanolithography to generate anchored, nanoscale patterns of nucleic acid on different substrates is described, including electrically conductive and insulating substrates. Modification of nucleic acid, including oligonucleotides, with reactive groups such as thiol groups provides for patterning with use of appropriate scanning probe microscopic tips under appropriate conditions. The reactive groups provide for chemisorption or covalent bonding to the substrate surface. The resulting nucleic acid features, which exhibit good stability, can be hybridized with complementary nucleic acids and probed accordingly with use of, for example, nanoparticles functionalized with nucleic acids. Patterning can be controlled by selection of tip treatment, relative humidity, and nucleic acid structure.10-30-2008
20080269072Rational Probe Optimization for Detection of MicroRNAs - A method for the rational optimization of probes for the detection of miRNAs from different species is provided.10-30-2008
20090264317Functionalized nanostructure, methods of manufacture thereof and articles comprising the same - Disclosed is a method comprising disposing a functionalized patternable material on a substrate, wherein the functionalized patternable material comprises a first click chemical moiety; patterning the functionalized patternable material; and reacting the first click chemical moiety with a complementary reactant to form an functionalized patterned surface, the complementary reactant comprising a second click chemical moiety that reacts with the first click chemical moiety; the complementary reactant comprising an functional group.10-22-2009
20090186778Method for analysis of multiple regions of DNA in single cells of uncultured microorganisms - Described herein are methods for single cell sorting and DNA analysis which permit metabolic mapping of taxonomically diverse microbial cells. Methods described herein encompass procedures for single-cell separation of individual uncultured cells, such as aquatic microbial cells, by fluorescence-activated cell sorting (FACS), subsequent single cell whole genome amplification (WGA), and downstream analyses of multiple regions of DNA.07-23-2009
20110224098Nanopore Based Device for Cutting Long DNA Molecules into Fragments - Apparatus, system, and method are provided for cutting a linear charged polymer inside a nanopore. A first voltage is applied to create an electric field in a first direction. A second voltage is applied to create an electric field in a second direction, and the first direction is opposite to the second direction. When the electric field in the first direction and the electric field in the second direction are applied to a linear charged polymer inside a nanopore, the linear charged polymer is cut at a location with predetermined accuracy.09-15-2011
20090137426MICROARRAY, SUBSTRATE FOR MICROARRAY AND METHODS OF FABRICATING THE SAME - A microarray, a substrate for a microarray and more productive methods of fabricating the microarray and the substrate are provided. The microarray includes a substrate divided into a first region and a second region; a plurality of linkers represented by formula 1 or 2:05-28-2009
20120196773Methods For Monitoring Multiple Gene Expression - The present invention relates to methods for monitoring differential expression of a plurality of genes in a first filamentous fungal cell relative to expression of the same genes in one or more second filamentous fungal cells using microarrays containing 08-02-2012
20120196772COMPOUND SYNTHESIS METHOD, MICROARRAY, ACID-TRANSFER COMPOSITION, AND BIOCHIP COMPOSITION - A compound synthesis method includes bonding a first compound to a substrate to form a first film. A second film is formed on the first film using an acid-transfer composition including (A) a polymer that includes a structural unit shown by a following formula (1) and a structural unit shown by a following formula (2), (B) a photoacid generator shown by a following formula (3), and (C) a sensitizer shown by a following formula (4). The second film is exposed to remove the protecting group from the first compound under an exposed are of the second film. An acid generated in the exposed area of the second film is transferred to the first film. The second film after being exposed is removed. A second compound is bonded to the first compound from which the protecting group has been removed.08-02-2012
20100004140METHOD OF PROGNOSIS - Provided are methods, kits and arrays for use in determining susceptibility to keloid formation. These determine susceptibility based on comparison of gene expression in a patient of interest with expression in a control sample. If expression of at least one gene, selected from the group of genes set out in Table 1, is increased in a sample representative of gene expression in the patient compared to expression of the same gene (or genes) in the control sample this is indicative of a susceptibility to keloid formation.01-07-2010
20090325818siRNA targeting interleukin-1 receptor-associated kinase 4 (IRAK4) - 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 IRAK4.12-31-2009
20090325817Polymer co-location in surface-attached biopolymers and arrays of biopolymers - Embodiments of the present invention provide substrates having controllably co-located polymers of different sequences. Methods are provided that allow the fabrication of arrays of polymers on a substrate having controllably co-located polymers in regions of the array. For example, polymers of nucleic acids and peptides having different sequences and or compositions can be co-located within a region of a substrate. Also provided are arrays of DNA polymers wherein polymers having two different sequences are co-located within a region of an array. The co-located DNA polymers can comprise complementary DNA that is able to hybridize and form double stranded DNA. Arrays having regions comprising double stranded DNA are provided.12-31-2009
20100004142siRNA targeting myeloid cell Leukemia sequence 1 - Efficient sequence specific gene silencing of myeloid cell leukemia sequence 1 is possible through the use of siRNA technology. By selecting particular siRNAs directed to myeloid cell leukemia sequence 1 by rationale design, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes.01-07-2010
20100004141siRNA targeting polo-like Kinase-1 (PLK-1) - 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 PLK-1.01-07-2010
20110224099BEAD BOUND COMBINATORIAL OLIGONUCLEOSIDE PHOSPHOROTHIOATE AND PHOSPHORODITHIOATE APTAMER LIBRARIES - The present invention includes composition and methods for making and using a combinatorial library having two or more beads, wherein attached to each bead is a unique nucleic acid aptamer that have disposed thereon a unique sequence. The library aptamers may be attached covalently to the one or more beads, which may be polystyrene beads. The aptamers may include phosphorothioate, phosphorodithioate and/or methylphosphonate linkages and may be single or double stranded DNA, RNA or even PNAs.09-15-2011
20130217599NOVEL ARTIFICIAL TRANSLATION/SYNTHESIS SYSTEM - A new artificial translation-synthesis system of adding tRNAs binding special amino acids to the in vitro translation system and synthesizing peptides with special amino acids incorporated thereto according to a dual genetic code table and an artificial codon box division.08-22-2013
20090082222PREPARATION OF SENSORS ON OLIGO- OR POLY (ETHYLENE GLYCOL) FILMS ON SILICON SURFACES - A sensor that includes a) a silicon (Si) substrate having a surface; and b) a monolayer of oligoethylene glycol (OEG) bonded to the surface via silicon-carbon bonds. Regions of the OEG monolayer distal to the surface are functionalized with a ligand serving as a recognition element for a bioanalyte. The ligand is covalently bonded in these regions as a cycloadduct of a 1,3-dipolar cycloaddition reaction. A method of making a silicon surface that recognizes a biological specimen includes 1) hydrosilylating with a mixture that includes an oligoethylene glycol (OEG) substituted with an alkene at one end of the OEG and capped at the opposing end of the OEG and an oligoethylene glycol (OEG) substituted with an alkene at one end of the OEG and an alkyne having a protecting group at the opposing end of the OEG and 2) removing the protecting group from the alkyne; and 3) reacting the alkyne with a reagent in a 1,3-dipolar cycloaddition. The reagent in the 1,3-dipolar cycloaddition includes a portion capable of being recognized by a biological specimen.03-26-2009
20110143962METHOD OF EVALUATING ORAL CANCER RISK IN HUMAN - A method of providing a risk evaluation and diagnosis of human oral cancer, by examining at the presence in human saliva sample of a combination of particulate nucleic acids from bacteria, virus, as well as human, and/or the presence of particulate biochemical volatile organic compounds, which are indicative of an increased risk of oral cancer.06-16-2011
20100292101METHOD AND APPARATUS FOR THE ANALYSIS AND IDENTIFICATION OF MOLECULES - An apparatus and method for performing analysis and identification of molecules have been presented. In one embodiment, a portable molecule analyzer includes a sample input/output connection to receive a sample, a nanopore-based sequencing chip to perform analysis on the sample substantially in real-time, and an output interface to output result of the analysis.11-18-2010
20080261832Arrays of nucleic acid probes for detecting cystic fibrosis - The invention provides arrays of immobilized probes, and methods employing the arrays, for detecting mutations in the CFTR gene.10-23-2008
20080318807Iterated Branching Reaction Pathways Via Nucleic Acid-Mediated Chemistry - The present invention provides methods and compositions for performing multi-step nucleic acid mediated synthesis of a highly diverse collection of molecules, for example, small molecules and polymers. In the method, in at least two steps, multiple reaction intermediates and/or products are produced in the same step by different chemical reactions.12-25-2008
20110059868PROCESS FOR AMPLIFYING NUCLEIC ACIDS - The present invention relates to a process for synthesizing or amplifying efficiently a nucleic acid comprising a target nucleic acid sequence. In the process according to the present invention, a primer comprising in its 3′-end portion a sequence (Ac′) which hybridizes a sequence (A) in the 3′-end portion of the target nucleic acid sequence, and in the 5′-side of said sequence (Ac′) a sequence (B′) which hybridizes the complementary sequence (Bc) of a sequence (B) positioned in the 5′-side of said sequence (A) on the target nucleic acid sequence, wherein {X−(Y−Y′)}/X is in the range of −1.00 to 1.00, in which X denotes the number of bases in said sequence (Ac′), Y denotes the number of bases in the region flanked by said sequences (A) and (B) in the target nucleic acid sequence, and Y′ denotes the number of bases in an intervening sequence between said sequences (Ac′) and (B′) (Y′ may be zero).03-10-2011
20110059866Multiplex detection of nucleic acids - Methods of detecting nucleic acids, including methods of detecting two or more nucleic acids in multiplex branched-chain DNA assays, are provided. Nucleic acids captured on a solid support are detected, for example, through cooperative hybridization events that result in specific association of a label with the nucleic acids. Compositions, kits, and systems related to the methods are also described.03-10-2011
20110059865Modified Molecular Arrays - The invention relates to the preparation of a hydrogel surface useful in the formation and manipulation of arrays of molecules, particularly polynucleotides and to the chemical modification of these and other arrays. In particular, the invention relates to a method of preparing a hydrogel immobilised to a solid support comprising polymerising on the support a mixture of a first comonomer which is acrylamide, methacrylamide, hydroxyethyl methacrylate or N-vinyl pyrrolidinone and a second comonomer which is a functionalised acrylamide or acrylate.03-10-2011
20100240553PRIMER SET AND PROBE FOR DETECTION OF HUMAN PAPILLOMAVIRUS - The invention is directed to the detection of multiple types of HPV with high specificity and high sensitivity. The invention provides primer sets, probes, and a kit containing the primer set and the probe, for type-specific HPV detection.09-23-2010
20100240552METHOD FOR EVALUATION OF DRUG SENSITIVITY BY ANALYSIS OF POMC GENE - The present invention provides a method for predicting the difference in drug sensitivity among individuals by using a genetic polymorphism of the POMC gene. Specifically, the present invention provides a method for evaluating drug sensitivity, comprising associating a genetic polymorphism of POMC gene with an individual drug sensitivity.09-23-2010
20130217598MICROPROCESSOR-CONTROLLED MICROFLUIDIC PLATFORM FOR PATHOGEN, TOXIN, BIOMARKER, AND CHEMICAL DETECTION WITH REMOVABLE UPDATABLE SENSOR ARRAY FOR FOOD AND WATER SAFETY, MEDICAL, AND LABORATORY APPLICATIONS - The invention provides a platform technology with rich ability to flexibly perform, create, deploy, maintain, and update a wide range of panels, assay, array, and/or sequence of tests for a wide range of substances and pathogens. The invention provides a unifying framework for widely-ranging miniature sensor implementation, fluidic/gas interfacing, electrical interfaces and optical interfaces, and further by collocating, allowing the integration a large number highly-selective sensors and chemical sensors—together as needed with appropriately selected supplemental sensors (for example temperature, pH, selective ions, etc.), into a common readily-manufacturable framework. The diverse sensor arrays give rise to statistical enhancing through novel statistical processing approaches. The invention is deployable and useable in a wide range of situations previously unavailable, and addresses many otherwise problematic aspects of field testing for food safety, water safety, epidemic outbreaks, routine diagnosis, and disease monitoring.08-22-2013
20090075839Novel streptococcus pneumoniae open reading frames encoding polypeptide antigents and uses thereof - The present invention relates to newly identified open reading frames comprised within the genomic nucleotide sequence of 03-19-2009
20100210477Light Transmitted Assay Beads - A micro bead having a digitally coded structure that is partially transmissive and opaque to light. The pattern of transmitted light is determined by to decode the bead. The coded bead may be structured a series of alternating light transmissive and opaque sections, with relative positions, widths and spacing resembling a 1D or 2D bar code image. To decode the image, the alternating transmissive and opaque sections of the body are scanned in analogous fashion to bar code scanning. The coded bead may be coated or immobilized with a capture or probe to effect a desired bioassay. The coded bead may include a paramagnetic material. A bioanalysis system conducts high throughput bioanalysis using the coded bead, including a reaction detection zone and a decoding zone.08-19-2010
20110111984SEQUENCER - A sequencer that measures a nucleic acid sequence in a nucleic acid strand includes: a base material having a surface made of silicon; and a fibrous protrusion that is made of silicon dioxide and is directly joined to the surface of the base material made of silicon, wherein a plurality of the nucleic acid strands are fixed onto the fibrous protrusion.05-12-2011
20100099577METHOD OF DETECTING PATHOGENIC LEGIONELLA STRAINS - The invention relates to a method of detecting pathogenic 04-22-2010
20100197522Microfluidic Chaotic Mixing Systems And Methods - Microfluidic nucleic acid hybridization systems are described that include a first reaction chamber to hold an analyte solution comprising nucleic acids, and a first mixing channel in fluid communication with the chamber. The mixing channel includes a textured surface to mix the analyte solution. The systems may also include pump coupled to the mixing channel to circulate the analyte solution through the reaction chamber and the mixing channel, and an input port in fluid communication with the mixing channel and the reaction chamber to supply the analyte solution to the microfluidic system. The input port can be closed to create a closed circulation path for the analyte solution through the reaction chamber and the mixing channel.08-05-2010
20110111983siRNA targeting spleen tyrosine kinase - Efficient sequence specific gene silencing is possible through the use of siRNA technology. By selecting particular siRNAs by rationale design, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes.05-12-2011
20100298168Capture compounds, collections thereof and methods for analyzing the proteome and complex compositions - Capture compounds and collections thereof and methods using the compounds for the analysis of biomolecules are provided. In particular, collections, compounds and methods are provided for analyzing complex protein mixtures, such as the proteome. The compounds are multifunctional reagents that provide for the separation and isolation of complex protein mixtures. Automated systems for performing the methods also are provided.11-25-2010
20130137602ARBITRARY ASSEMBLY OF NANO-OBJECTS INTO DESIGNED 1D AND 2D ARRAYS - The present invention is directed to nanoscale fabrication of nano-materials with application in electronics, energy conversion, bio-sensing and others. Specifically, the invention is directed to arbitrary, that is periodic and non-periodic, assembly of nano-objects on I D and 2D arrays. The present invention utilizes self-organization properties of nanoscale bio-encoded building blocks, programmability of biomolecular interactions, and simple processing techniques for providing arbitrary by-design fabrication capability. Specifically, the present invention utilizes double stranded DNA attached to a surface and intercalating PNA-DNA hybrids attached to nano-objects to bind the nano-objects to the dsDNA in a site specific manner. The present invention allows for an integration of a large number of nano-components in unified well-defined systems. Accordingly, the present invention is applicable for fabrication of I D and 2D structures of various by-design placements of nano-objects of multiple types, including metal, semiconducting and organic nano-objects.05-30-2013
20130143770CELLULAR ARRAYS AND METHODS OF DETECTING AND USING GENETIC DISORDER MARKERS - A method is disclosed for rapid molecular profiling of tissue or other cellular specimens by placing a donor specimen in an assigned location in a recipient array, providing copies of the array, and performing a different biological analysis of each copy. The results of the different biological analyses are compared to determine if there are correlations between the results of the different biological analyses at each assigned location. In some embodiments, the specimens may be tissue specimens from different tumors, which are subjected to multiple parallel molecular (including genetic and immunological) analyses. The results of the parallel analyses are then used to detect common molecular characteristic of the genetic disorder type, which can subsequently be used in the diagnosis or treatment of the disease. The biological characteristics of the tissue can be correlated with clinical or other information, to detect characteristics associated with the tissue.06-06-2013
20100323921MOLECULAR PROGNOSTIC SIGNATURE FOR PREDICTING BREAST CANCER METASTASIS, AND USES THEREOF - The present invention is based on the discovery of a unique 14-gene molecular prognostic signature that is useful for predicting breast cancer metastasis. In particular, the present invention relates to methods and reagents for detecting and profiling the expression levels of these genes, and methods of using the expression level information in predicting risk of breast cancer metastasis.12-23-2010
20100216668PROBE ARRAY SUBSTRATE AND METHOD FOR PRODUCING THE SAME, AND PROBE ARRAY AND METHOD FOR PRODUCING THE SAME - A probe array substrate suitable for forming a probe array that has high packing density, that can hold sufficient amounts of probe molecules, and that has little variation in the amounts of probe molecules. A plurality of arrayed probe-holding portions are defined by recesses, and isolating grooves are formed between the adjacent probe-holding portions to prevent probe solutions introduced into the probe-holding portions from spreading to adjacent probe-holding portions. Inner surfaces of the probe-holding portions are made hydrophilic, whereas inner surfaces of the isolating grooves are made hydrophobic. Liquid-introducing protrusions are formed in the probe-holding portions.08-26-2010
20110009294Methods for Genotyping Selected Polymorphism - Methods for genotyping polymorphisms using a locus specific primer that is complementary to a region near a selected polymorphism are described. Methods for synthesizing pools of locus specific primers that incorporate some degenerate positions are also disclosed. A plurality of different sequence capture probes are synthesized simultaneously using degenerate oligonucleotide synthesis. The sequence of the locus specific regions of the capture probes are related in that they have some bases that are identical in each sequence in the plurality of sequences and positions that vary from one locus specific region to another. The sequences are selected based on proximity to a polymorphism of interest and because they conform to a similar sequence pattern.01-13-2011
20100179072METHOD AND KIT FOR DYNAMIC GENE EXPRESSION MONITORING - This disclosure relates to methods and kits, systems for screening, diagnosing and prognosing a disease, disorder, or physiological state based upon temporal measurements and analysis of gene expression in a subject.07-15-2010
20130150263HUMAN T2R NUCLEIC ACID SEQUENCES - Newly identified mammalian taste-cell-specific G Protein-Coupled Receptors and the genes encoding said receptors are described. Specifically, T2R taste G Protein-Coupled Receptors that are believed to be involved in bitter taste sensation, and the genes encoding the same, are described, along with methods for isolating such genes and for isolating and expressing such receptors. Methods for representing taste perception of a particular tastant in a mammal are also described, as are methods for generating a novel molecules or combinations of molecules that elicit a predetermined taste perception in a mammal, and methods for simulating one or more tastes.06-13-2013
20110130307Microanalysis Chip Adhesive Sheet, Microanalysis Chip, And Manufacturing Method Thereof - Disclosed is a microanalysis chip adhesive sheet with an adhesive surface, which can be inexpensively but easily bonded to a substrate at a relatively low temperature, with which fabrication of analysis chips is simplified, and which has the capability of fixing a selective bonding substance to the sheet surface. The microanalysis chip is characterized in that a microanalysis chip adhesive sheet, which comprises a plastic sheet provided with an adhesive layer formed from an adhesive that contains a polymer in which monomer structural units that contain carboxyl radicals or acid anhydride radicals constitute 5-25% by weight of the [total] monomer structural units in the polymer, and a substrate, which has protrusions and recesses on the surface thereof, are bonded together so that the surface of the substrate having the projections and concavities and the adhesive layer of the aforementioned microanalysis chip adhesive sheet are on the inside. Gaps at the concave parts of the substrate between the substrate and the adhesive layer of the aforementioned microanalysis chip adhesive sheet form a flow path, a part of which is the aforementioned adhesive layer, and a selective bonding substance is fixed to the adhesive layer surface.06-02-2011
20100152062Biomarkers for Inflammatory Bowel Disease and Irritable Bowel Syndrome - The present invention provides compositions and their use in diagnosing and/or distinguishing inflammatory bowel disease and irritable bowel syndrome.06-17-2010
20110245109PROBE, PROBE SET, PROBE CARRIER, AND TESTING METHOD - A probe, a set of probes, and a probe carrier on which the probe or the set of probes is immobilized, are provided for classification of fungus species. The probe or the set of probes is capable of collectively detecting fungus of the same species and distinguishingly detecting those fungus from fungus of other species. The probe is an oligonucleotide probe for detecting a pathogenic fungus DNA and includes at least one of base sequences of SEQ ID NOS. 1 to 3 and mutated sequences thereof.10-06-2011
20090088345NECESSARY AND SUFFICIENT REAGENT SETS FOR CHEMOGENOMIC ANALYSIS - The present invention discloses methods of data analysis directed to diagnostic development, and in particular the development of signatures for classifying chemogenomic data. The invention provides methods for identifying and functionally characterizing a “necessary” set of information rich variables. The invention also discloses methods for identifying a plurality of “sufficient” classifiers. The necessary set of variables may be incorporated into a single diagnostic device to provide simultaneous confirmation of a classification measurement with a plurality of independent classifiers. In the field of biological diagnostics, the invention may be used to provide a plurality of short lists of genes, referred to as “signatures” that are “sufficient” to carry out specific classification tasks such as predicting the activity and side effects of a compound in vivo.04-02-2009
20120245055Method for Assembly of Analyte Filter Arrays Using Biomolecules - Analyte filter arrays and methods for making an analyte filter array are provided. The arrays are formed using a dispersion of filter particles having selected moieties attached to the surface of the particles and a microarray having complementary moieties formed in an array on a substrate, such that each filter particle is attached to a selected region of the microarray. The moiety on the substrate may be RNA or DNA or other molecule. The substrate may be a surface of a detector array, a membrane that may be placed in registration with the detector array or a stamp used to transfer the filter array to a detector array.09-27-2012
20090312196METHOD OF SYNTHESIZING POLYNUCLEOTIDE VARIANTS - The present disclosure relates to methods for generating libraries of polynucleotide variants comprising defined nucleotide differences relative to a reference polynucleotide.12-17-2009
20100004143PROBE-ARRAY SUBSTRATE, PROBE ARRAY, AND METHOD OF PRODUCING THE SAME - A probe-array substrate includes a plurality of probe holding units each having a projection that exhibits a hydrophilicity and a hydrophobic region disposed so as to surround each of the probe holding units. The probe-array substrate can further include an inspection region for use in checking whether mixture of probe solutions is present among the plurality of probe holding units. The inspection region is disposed between the neighboring probe holding units across the hydrophobic region.01-07-2010
20110177975DETECTION OF NUCLEIC ACID SEQUENCE DIFFERENCES USING THE LIGASE DETECTION REACTION WITH ADDRESSABLE ARRAYS - The present invention describes a method for identifying one or more of a plurality of sequences differing by one or more single base changes, insertions, deletions, or translocations in a plurality of target nucleotide sequences. The method includes a ligation phase, a capture phase, and a detection phase. The ligation phase utilizes a ligation detection reaction between one oligonucleotide probe, which has a target sequence-specific portion and an addressable array-specific portion, and a second oligonucleotide probe, having a target sequence-specific portion and a detectable label. After the ligation phase, the capture phase is carried out by hybridizing the ligated oligonucleotide probes to a solid support with an array of immobilized capture oligonucleotides at least some of which are complementary to the addressable array-specific portion. Following completion of the capture phase, a detection phase is carried out to detect the labels of ligated oligonucleotide probes hybridized to the solid support.07-21-2011
20090215647Plant polymorphic markers and uses thereof - The present invention is in the field of plant genetics. More specifically, the invention relates to nucleic acid markers associated with 08-27-2009
20100062951siRNA targeting TIE-2 - 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.03-11-2010
20100069261siRNA targeting proto-oncogene MET - 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 proto-oncogene MET.03-18-2010
20110077171TARGET-DETECTING DEVICE AND METHOD FOR PRODUCING THE SAME - A target-detecting device including a substrate and a plurality of probes, one ends of which being immobilized on the substrate, wherein the probes each include, in parts thereof, a label which functions when distanced from the substrate and are capable of forming double strands together with target nucleic acids, and wherein the probes are arranged at such positions that, when the probes form double strands together with the target nucleic acids, steric hindrance occurs between one double strand and another double strand adjacent to the one double strand so as to distance the label from the substrate.03-31-2011
20110077173siRNA targeting TIE-2 - 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.03-31-2011
20110077170HPIV-2 VARIANTS AND THEIR MEDICAL APPLICATIONS - A variant phylogenetic group of HPIV-2, more particularly a novel variant phylogenetic sub-group of HPIV-2, and a means for diagnosing HPIV-2 which take into account this novel group and this novel sub-group.03-31-2011
20110077169Reagents, Methods, and Libraries for Bead-Based Sequencing - The present invention provides methods for determining a nucleic acid sequence by performing successive cycles of duplex extension along a single stranded template. The cycles comprise steps of extension, ligation, and, preferably, cleavage. In certain embodiments the methods make use of extension probes containing phosphorothiolate linkages and employ agents appropriate to cleave such linkages. In certain embodiments the methods make use of extension probes containing an abasic residue or a damaged base and employ agents appropriate to cleave linkages between a nucleoside and an abasic residue and/or agents appropriate to remove a damaged base from a nucleic acid. The invention provides methods of determining information about a sequence using at least two distinguishably labeled probe families. In certain embodiments the methods acquire less than 2 bits of information from each of a plurality of nucleotides in the template in each cycle. In certain embodiments the sequencing reactions are performed on templates attached to beads, which are immobilized in or on a semi-solid support. The invention further provides sets of labeled extension probes containing phosphorothiolate linkages or trigger residues that are suitable for use in the method. In addition, the invention includes performing multiple sequencing reactions on a single template by removing initializing oligonucleotides and extended strands and performing subsequent reactions using different initializing oligonucleotides. The invention further provides efficient methods for preparing templates, particularly for performing sequencing multiple different templates in parallel. The invention also provides methods for performing ligation and cleavage. The invention also provides new libraries of nucleic acid fragments containing paired tags, and methods of preparing microparticles having multiple different templates (e.g., containing paired tags) attached thereto and of sequencing the templates individually. The invention also provides automated sequencing systems, flow cells, image processing methods, and computer-readable media that store computer-executable instructions (e.g., to perform the image-processing methods) and/or sequence information. In certain embodiments the sequence information is stored in a database.03-31-2011
20120071357METHODS AND SYSTEMS FOR UNIFORM ENRICHMENT OF GENOMIC REGIONS - The present invention provides methods and compositions for the enrichment of target nucleic acids in a microarray system. In particular, the present invention provides methods and compositions for uniform enrichment of target nucleic acid molecules in a microarray format. The present invention also provides for intentionally non-uniform enrichment among target nucleic acid molecules.03-22-2012
20110039731Enhanced Sequencing by Hybridization Using Pools of Probes - The invention provides methods for sequencing by hybridization (SBH) using pools of probes that allow greater efficiency in conducting SBH by reducing the number of separate measurements of hybridization signals required to identify each particular nucleotide in a target nucleic acid sequence. The invention also provides pools and set of pools of probes, as well as method of generating pools of probes.02-17-2011
20110039733PROBE, PROBE SET, PROBE CARRIER, AND TESTING METHOD - A probe, a set of probes, and a probe carrier on which the probe or the set of probes is immobilized, are provided for classification of fungus species. The probe or the set of probes is capable of collectively detecting fungus of the same species and distinguishingly detecting those fungus from fungus of other species. The probe is an oligonucleotide probe for detecting a pathogenic fungus DNA and includes at least one of base sequences of SEQ ID NOS. 1 to 2 and mutated sequences thereof.02-17-2011
20090018032METHOD OF TREATING SURFACE OF SUBSTRATE USED IN BIOLOGICAL REACTION SYSTEM - Provided is a method of treating a surface of a substrate used in a biochemical reaction system, the method including forming a polymer film on the surface by vapor deposition of a compound of formula (1) below and a compound of formula (2) below:01-15-2009
20100331213MICROPARTICLES WITH ENHANCED COVALENT BINDING CAPACITY AND THEIR USES - A polyelectrolyte having multiple exposed functional groups, each such group being capable of covalently bonding to a molecule, is immobilized on a surface for the purpose of bonding to a biomolecule. The biomolecule can be, for example, a nucleic acid, e.g., an amine functionalized oligonucleotide. The polyelectrolyte can include, e.g., BSA (Bovine Serum Albumin) which is bound to a functionalized surface using a covalent immobilization strategy, e.g., reaction with the surface of a tosyl-activated microparticle. Following such reaction, exposed reactive functional groups on the protein, such as amine, carboxyl, thiol, hydroxyl groups can further be utilized to covalently couple the oligonucleotide of interest using suitable chemistry.12-30-2010
20080248970Compositions and Methods for the Detection of Candida Species - Compositions and methods for detecting and/or differentiating among 10-09-2008
20080248969Methods and probes for identifying a nucleotide sequence - The present invention provides a method for identifying a set of target nucleotide sequences capable of identifying a member of a group of related nucleotide sequences, the method comprising the step of dividing the nucleotide sequence of each member of the group into a plurality of subsequences, wherein at least two of the subsequences overlap. The method is useful in generating probe sets capable of assigning alleles at HLA or KIR loci.10-09-2008
20120202711NOVEL IMINECALIXARENE DERIVATIVES AND AMINOCALIXARENE DERIVATIVES, METHOD OF PREPARATION THEREOF, AND SELF-ASSEMBLED MONOLAYER PREPARED BY THE METHOD, FIXING METHOD OF OLIGO-DNA BY USING THE SELF-ASSEMBLED MONOLAYER, AND OLIGO-DNA CHIP PREPARED BY THE METHOD - The present invention relates to novel iminecalixarene derivatives, method of preparation thereof, and self-assembled monolayer prepared by the method, fixing method of oligo-DNA by using the self-assembled monolayer, and oligo-DNA chip prepared by the method. Also, the present invention relates to novel aminocalixarene derivatives, method of preparation thereof, and self-assembled monolayer prepared by the method, fixing method of oligo-DNA wherein the oligo-DNA is voluntarily fixed by molecular recognition on said self-assembled monolayer in a liquid phase, and oligo-DNA chip prepared by the method.08-09-2012
20120202712Compositions, Methods and Related Uses for Cleaving Modified DNA - Compositions, methods and related uses are provided relating to cleaving modified DNA. For example, a set of DNA fragments obtainable by enzymatic cleavage of a large DNA is described where at least 50% are similarly sized and have a centrally positioned modified nucleotide. In addition, an enzyme preparation is provided that includes one or more enzymes that recognize a modified nucleotide in a DNA and cleave the DNA at a site that is at a non-random distance from the modified nucleotide. The one or more enzymes are further characterized by an N-terminal conserved domain with greater than 90% amino acid sequence homology to WXD(X)08-09-2012
20090221443Nanofabrication processes and devices for the controlled assembly of functionalized nanostructures - The invention relates to processes and devices for the controlled fabrication of nanostructures from starting components that have high fidelity recognition properties and multiple binding groups. In one embodiment, the invention relates to the formation of nanostructures using controlled sequential addition of nanocomponents at regular intervials via sequential formation of binding pairs or other chemical binding reactions.09-03-2009
20090163381Methods, Kits and Compositions Pertaining to Combination Oligomers and Libraries for Their Preparation - This invention pertains to the field of combination oligomers, including the block synthesis of combination oligomers in the absence of a template, as well as related methods, kits, libraries and other compositions.06-25-2009
20110257039REVERSE TRANSCRIPTION PRIMERS AND METHODS OF DESIGN - The present invention provides novel algorithms for designing oligonucleotides that do not substantially hybridize to a small group of unwanted transcripts, while hybridizing to most other transcripts. Such oligonucleotides are particularly useful as primers for reverse transcription. The invention also provides compositions containing oligonucleotides that do not substantially hybridize to a small group of unwanted transcripts, while hybridizing to most other transcripts.10-20-2011
20090029875Novel Silane Compounds and Use of Same for Functionalizing Solid Supports and Immobilizing Biological Molecules on These Supports - The invention relates to novel silane compounds corresponding to the formula (I) below:01-29-2009
20110021380BIO-MICROARRAY AND A SUBSTRATE FOR USE THEREWITH - For the purpose of improving the accuracy of a variety analyses using a bio-microarray, it is a main object of the invention to provide a bio-microarray capable of producing relatively high signal intensity from a fluorescent molecule and capable of having improved quantification performance and to provide a substrate for bio-microarray.01-27-2011
20110021381Method for immobilizing self-organizing material or fine particle on substrate, and substrate manufactured by using such method - A method for immobilizing a self-organizing material or fine particles on a substrate, and a substrate whereupon the self-organizing material or the fine particles are immobilized. More specifically, the method for immobilizing the fine particles including a nucleic acid (for instance, DNA or RNA) or a metal oxide on the substrate, and the substrate whereupon the nucleic acid (for example, DNA or RNA) or the metal oxide is immobilized.01-27-2011
20110021382siRNA targeting amyloid beta (A4) precursor protein (APP) - 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 APP.01-27-2011
20110021379METHOD OF DESIGNING PRIMERS FOR USE IN METHOD OF DETECTING TARGET NUCLEIC ACID AND ASSAY KIT - Kits for use in a method of detecting an amplification product by hybridizing it with a probe, the amplification product is amplified from a target nucleic acid with the primers, including placing F3, F2 and F1 regions in this order from a 5′ terminal side and B3c, B2c and B1c regions in this order from a 3′ terminal side, and additionally an FP region in the region from the F2 to F1 regions and/or a BPc region in the region from the B2c to B1c regions in the target nucleic acid, determining the respective regions in such a manner that the FP and F2 regions and/or the BPc and B2c regions have an unoverlapping region of at least 10 bases or more and overlapping regions of 10 bases or less, and designing the primers according to the regions.01-27-2011
20110021378NUCLEIC ACIDS OF PICHIA PASTORIS AND USE THEREOF FOR RECOMBINANT PRODUCTION OF PROTEINS - The present invention provides the genome sequence of 01-27-2011
20110053802CATEGORIZATION OF MICROBIAL COMMUNITIES - The present disclosure provides embodiments of a method for characterizing microbial populations. Exemplified by methods for characterizing microbiota in vaginal samples, the methods provided herein are widely applicable to the characterization of microbial communities. Also provided are probiotic regimens and methods for selecting appropriate probiotic regimens based on the normal vaginal microbiota of a subject. Reagents and kits for detecting normal vaginal microbiota and diagnosing pathogenic microorganisms in the vagina are also provided.03-03-2011
20110053801Method for the Random Diversification of a Genetic Sequence While Preserving the Identity of Some Inner Segments of said Genetic Sequence - The invention relates to a very general method for the random diversification of a nucleotide sequence S by PCR while preserving the identity of some domains of said sequence S; the invention also relates to a bank of nucleotide sequence thus diversified, and to diversified proteins obtained by the expressions of the nucleotide sequences in an appropriate host.03-03-2011
20110028347SUPPORT CARRYING AN IMMOBILIZED SELECTIVE BINDING SUBSTANCE - A support carrying an immobilized selective binding substance, that the support surface has a polymer containing the structural unit represented by the following General Formula (1) in an amount of 10% or more with respect all monomer units, and a selective binding substance is immobilized on the support surface by binding to the carboxyl group formed thereon via a covalent bond:02-03-2011
20110257040NANOSCALE APERTURES HAVING ISLANDS OF FUNCTIONALITY - Methods, compositions and arrays for non-random loading of single analyte molecules into array structures are provided. Arrays of confined regions are produced wherein each confined region comprises a single island within the confined region. The island can be selectively functionalized with a coupling agent to couple a single molecule of interest within the confined region.10-20-2011
20110136693ELECTRICALLY ACTIVE COMBINATORIAL CHEMICAL (EACC) CHIP FOR BIOCHEMICAL ANALYTE DETECTION - Apparatus and methods are disclosed for electrically active combinatorial-chemical (EACC) chips for biochemical analyte detection. An apparatus includes a substrate that has an array of regions defining multiple cells, wherein each of the cells includes a reaction cavity that contains multiple functional binding groups. A method of detecting an analyte providing the reaction cavity between a source and a drain or a pair of electrodes, applying a voltage and monitoring a parameter indicative of an analyte characteristic. A process of fabricating an EACC include bonding an analyte to the multiple functional binding groups of each reaction cavity, and forming an analyte sensing structure including the substrate.06-09-2011
20120309650METHODS AND COMPOSITIONS FOR NUCLEIC ACID SAMPLE PREPARATION - Provided are methods and compositions for the production of linear single-stranded nucleic acids, which can be used as templates in high-throughput sequencing systems. Also provided are methods and compositions for the production of closed single-stranded nucleic acid loops, which can be used as templates in high-throughput sequencing systems.12-06-2012
20120309652Restricted Access Media and Methods for Making Restricted Access Media - The present invention is directed to restricted access media (RAM), methods for preparing restricted access media, and kits for preparing restricted access media that contain protected ligand binding agents or protected enzymes. Certain RAM provided contain a plurality of protected regions of the support that contain ligand binding agents that are protected by blocking agents. Certain RAM provided contain a plurality of protected regions of the support that contain unbound ligand binding agents or enzymes that are retained in the protected regions by a capping agent. Methods of making the RAM of the invention and associated kits are also provided12-06-2012
20120309651NUCLEIC ACID DETECTION AND QUANTIFICATION BY POST-HYBRIDIZATION LABELING AND UNIVERSAL ENCODING - The present invention provides, among other things, methods and compositions for encoding a substrate for detecting and quantifying target nucleic acids.12-06-2012
20100190659Compositions and Methods for Diagnosing and Assessing Inflammatory Myopathies - The present invention is directed to assay methods for inflammatory myopathies and microarray plates that can be used in carrying out these assays.07-29-2010
20110190167Electromagnetically responsive element with self resonant bodies - An electromagnetically responsive element includes an arrangement of self-resonant bodies, such as atoms or quantum dots that form an effective dielectric constant, typically at or near a resonance.08-04-2011
20100029509NOVEL METHODS - The present invention relates to novel methods for producing a biosensor for detecting a specific compound, for identifying a gene encoding a regulatory protein responsive to a specific compound and for identifying a gene encoding a regulatory protein responsive to a specific compound.02-04-2010
20100029508NANOCHANNEL ARRAYS AND THEIR PREPARATION AND USE FOR HIGH THROUGHPUT MACROMOLECULAR ANALYSIS - Nanochannel arrays that enable high-throughput macromolecular analysis are disclosed. Also disclosed are methods of preparing nanochannel arrays and nanofluidic chips. Methods of analyzing macromolecules, such as entire strands of genomic DNA, are also disclosed, as well as systems for carrying out these methods.02-04-2010
20110218122METHOD OF PROGNOSING AND DIAGNOSING HEREDITARY SPASTIC PARAPLEGIA, MUTANT NUCLEIC ACID MOLECULES AND POLYPEPTIDES - A method for diagnosing the presence of hereditary spastic paraplegia (HSP) or predicting the risk of developing HSP in a human subject, comprising detecting the presence or absence of a defect in a gene encoding a polypeptide comprising the sequence of FIG. 09-08-2011
20110218121GENE ASSOCIATED WITH LIVER CANCER, AND METHOD FOR DETERMINATION OF THE RISK OF ACQUIRING LIVER CANCER - Provided are a method for detecting early-stage liver cancer and determining a risk of liver cancer by using blood collected from a patient with imposing a less burden on the patient; and a gene marker, a probe, a primer, and a reagent kit that can be used in the detection. A marker for diagnosis of acquiring liver cancer includes a polynucleotide that can detect all of the following methylated genes and a gene region: (1) human SALL3c gene, (2) human ECEL1 gene, and (3) SEQ ID NO: 6 (NT_037622.5, 1393863-1395863).09-08-2011
20110039734siRNA targeting connective tissue growth factor (CTGF) - 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 CTGF.02-17-2011
20080305966Capture Probe Design for Efficient Hybridisation - Methods for selecting and designing optimal nucleic acid-based probe for improving the sensitivity of detection of a nucleic acid-based target are disclosed herein. The capture probes generated from these methods show a significant improvement in the sensitivity of detection. Improved probes as well as microarrays and kits comprising these probes are disclosed herewith.12-11-2008
20090247425COMPOSITIONS AND METHODS FOR REUSING ARRAYS - The present disclosure relates generally to compositions and methods for the reuse of arrays, including microarrays. Specifically, the present disclosure discloses polynucleotide targets comprising nucleotide analogs that are not present within the probe polynucleotides immobilized on the array. The nucleotide-analog containing targets can be chemically modified to reduce their thermal stability and thus easier to remove from the array. In preferred embodiments, the disclosure relates to DNA probes hybridized to single-stranded deoxyribouridine-containing targets, the targets subsequently being chemically modified using a uracil DNA glycosylase and/or nuclease. Accordingly, the disclosure allows for the glycosylase treated, deoxyuridine-containing targets to be removed from the array by exposure to less stringent denaturing conditions than otherwise would have been required. Using less stringent denaturing conditions permits reuse of the array by reducing damage to the probe polynucleotides immobilized on the array during target removal.10-01-2009
20080305965Classification, Diagnosis and Prognosis of Acute Myeloid Leukemia by Gene Expression Profiling - The present invention relates to method of genetic analysis for the classification, diagnosis and prognosis of acute myeloid leukemia (AML). The invention provides a method for producing a classification scheme for AML comprising the steps of a) providing a plurality of reference samples, said reference samples comprising cell samples from a plurality of reference subjects affected by AML; b) providing reference profiles by establishing a gene expression profile for each of said reference samples individually; c) clustering said individual reference profiles according to similarity; and d) assigning an AML class to each cluster. The invention further relates to a method for classifying the AML of an AML affected subject, to a method for diagnosing AML in a subject, and to a method of determining the prognosis for an AML affected subject.12-11-2008
20110306520Methods, Kits and Compositions Pertaining to the Suppression of the Detectable Probe Binding to Randomly Distributed Repeat Sequences Genomic Nucleic Acid - This invention is directed to methods, kits, non-nucleotide probes as well as other compositions pertaining to the suppression of binding of detectable nucleic acid probes to undesired nucleotide sequences of genomic nucleic acid in assays designed to determine target genomic nucleic acid.12-15-2011
20090105092VIRAL DATABASE METHODS - Disclosed are methods for designing oligonucleotides that can detect/identify any unknown or known virus of a particular taxon. Also provided are methods to establish, implement and validate bioinformatics tools and databases to support microarray design. The invention also provides specialized arrays for detection and speciation of select viral agents and viruses as well as a set of oligonucleotides that can detect/identify any unknown or known virus of a particular taxon.04-23-2009
20090298711VASOPRESSIN PATHWAY POLYMORPHISMS AS INDICATORS OF SUBJECT OUTCOME IN CRITICALLY ILL SUBJECTS - The invention provides methods, nucleic acids, compositions and kits for predicting a subject's response to treatment with one or more vasopressin receptor agonists to identify subjects having a greater benefit from treatment with vasopressin receptor agonist(s). The method generally comprises determining a vasopressin 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 genotype to identify potential subjects having an inflammatory condition who are more likely to benefit from treatment with a vasopressin receptor agonist and subsequent to treatment recover from the inflammatory condition. The invention also provides for methods of treating such subjects with vasopressin receptor agonists based on the subject's genotype.12-03-2009
20090069196Prediction of Breast Cancer Response to Chemotherapy - Method for the prediction of the response to epirubicin/cyclophosphamide-based chemotherapy of a breast cancer in a patient, from a tumour sample of said patient, comprising steps of determining the expression level of a group of marker genes consisting of (i) a first marker gene selected from the group consisting of MLPH, SPDEF, and AKR7A3; and (ii) a pair of second marker genes selected from the group of pairs consisting of (H2BFS and UBE2S), (BGN and ZBTB16), (ZBTB16 and EMP1), (LGALS8 and UBE2S) and (OLFML2B and ZBTB16); and (iii) a third marker gene selected from the group consisting of CYBA, ACP5, a gene specifically binding to Affymetrix probe set ID 210915 x at, LCK, GSTM3; classifying said sample as belonging to one of several breast cancer response classes from the expression levels determined; predicting the response of said breast cancer in said patient to chemotherapy from previously known characteristic properties of tumours of said one of several breast cancer response classes.03-12-2009
20120040867Microarrays of Binary Nucleic Acid Probes for Detecting Nucleic Acid Analytes - Some embodiments of the invention are directed to a microarray of binary nucleic acid probes for the detection of one or a plurality of nucleic acid analytes in a complex sample in a single high throughput assay with extraordinary specificity under physiologic conditions. Any binary nucleic acid probes that generate a detectable signal when bound to analyte are suitable for use in the microarrays, including binary deoxyribozyme or ribozyme probes; nonenzymatic binary probes for fluorescent detection, nonenzymatic binary dye-binding probes, and binary split enzyme peroxidase probes for visual detection of nucleic acids. The invention is also directed to new non nonenzymatic binary probes that bind to reporter oligonucleotides.02-16-2012
20100285995Identification and Characterization of Pregnancy-Associated Genetic Signatures and Use Thereof for Diagnosis and Treatment of Breast Cancer - Compositions and methods for the diagnosis and treatment of breast cancer are provided.11-11-2010
20110319297siRNA targeting gremlin - 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 CKSF1B1.12-29-2011
20120004140FLOW CELLS FOR BIOCHEMICAL ANALYSIS - Assay flow cells used as part of an overall system for biological assays include, in various configurations, a carrier in which an assay substrate may be provided, where a substantial portion of the assay substrate can be used for biochemical analysis, since the carrier component of the flow cell is designed to provide functionalities that in prior art systems were performed by the assay substrate itself The flow cells may be used in automated systems, are flat for imaging and various configurations of the components of the flow cells minimize evaporation, yet allow for precise control of fluid intake and evacuation.01-05-2012
20120004139FLOW CELLS FOR BIOCHEMICAL ANALYSIS - Assay flow cells used as part of an overall system for biological assays include, in various configurations, a carrier in which an assay substrate may be provided, where a substantial portion of the assay substrate can be used for biochemical analysis, since the carrier component of the flow cell is designed to provide functionalities that in prior art systems were performed by the assay substrate itself The flow cells may be used in automated systems, are flat for imaging and various configurations of the components of the flow cells minimize evaporation, yet allow for precise control of fluid intake and evacuation.01-05-2012
20120252700DETECTION OF NUCLEIC ACID SEQUENCE DIFFERENCES USING THE LIGASE DETECTION REACTION WITH ADDRESSABLE ARRAYS - The present invention describes a method for identifying one or more of a plurality of sequences differing by one or more single base changes, insertions, deletions, or translocations in a plurality of target nucleotide sequences. The method includes a ligation phase, a capture phase, and a detection phase. The ligation phase utilizes a ligation detection reaction between one oligonucleotide probe, which has a target sequence-specific portion and an addressable array-specific portion, and a second oligonucleotide probe, having a target sequence-specific portion and a detectable label. After the ligation phase, the capture phase is carried out by hybridizing the ligated oligonucleotide probes to a solid support with an array of immobilized capture oligonucleotides at least some of which are complementary to the addressable array-specific portion. Following completion of the capture phase, a detection phase is carried out to detect the labels of ligated oligonucleotide probes hybridized to the solid support.10-04-2012
20120010108Use of Acid Scavengers for the Synthesis of Standard Lenght and Long-Mer Nucleic Acid Arrays - Protective groups which may be cleaved with an activatable deprotecting reagents are employed to achieve a highly sensitive, high resolution, combinatorial synthesis of pattern arrays of diverse polymers. In preferred embodiments of the instant invention, the activatable deprotecting reagent is a photoacid generator and the protective groups are DMT for nucleic acids and tBOC for amino acids. This invention has a wide variety of applications and is particularly useful for the solid phase combinatorial synthesis of polymers.01-12-2012
20120010107SELECTION BY COMPARTMENTALISED SCREENING - The invention describes a method for the identification of compounds which bind to a target component of a biochemical system or modulate the activity of the target, by compartmentalizing the compounds into microcapsules together with the target, such that only a subset of the repertoire is represented in multiple copies in any one microcapsules; and identifying the compound which binds to or modulates the activity of the target. The invention enables the screening of large repertoires of molecules which can serve as leads for drug development.01-12-2012
20120010106siRNA targeting myeloid differentiation primary response gene (88) (MYD88) - 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 MYD88.01-12-2012
20110039732cDNA Synthesis Using Non-Random Primers - The present invention provides methods for selectively amplifying a target population of nucleic acid molecules in a population of RNA template molecules (e.g., all mRNA molecules expressed in a cell type except for the most highly expressed mRNA species). The present invention also provides a first population of oligonucleotides including the nucleic acid sequences set forth in SEQ ID NOS:1-749 and a second population of oligonucleotides including the nucleic acid sequences set forth in SEQ ID NOS:750-1498. The first population of oligonucleotides can be used, for example, to prime the synthesis of first strand cDNA molecules complementary to mRNA molecules isolated from mammalian cells without priming the synthesis of cDNA molecules complementary to ribosomal RNA molecules. The second population of oligonucleotides can be used, for example, to prime the second strand synthesis of primer extension products (first strand cDNA) complementary to mRNA molecules isolated from mammalian cells without priming the second strand synthesis of primer extension products synthesized from ribosomal RNA molecules.02-17-2011
20120015850siRNA targeting Superoxide - 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 SOD1.01-19-2012
20110166042Methods for Producing Inducible and/or Repressible Expression Active Linear RNA Interference Cassettes and Inducible and/or Repressible Expression Active Linear Gene Cassettes and Their Uses - The present invention relates to a (first) method for producing inducible and/or repressible expression active linear RNA interference constructs comprising a PCR amplification of a source polynucleotide comprising the inhibitory RNA coding sequence of interest or comprising a PCR amplification of a DNA source comprising a promoter using a reverse primer comprising the inhibitory RNA coding sequence of interest. The present invention furthermore relates to a (second) method for producing inducible and/or repressible expression active linear gene constructs comprising a PCR amplification of a source expression polynucleotide comprising a promoter sequence and the DNA sequence of interest or comprising a PCR amplification using the DNA sequence as a template. The present invention furthermore relates to libraries, arrays, cells and cell lines and kits utilizing the inducible and/or repressible expression active linear RNA interference constructs or the inducible and/or repressible expression active linear gene constructs.07-07-2011
20110166041Diagnosis/Therapeutic Strategy For Gynecological Cancer by Utilizing Micro-RNA as Biomarker - Disclosed are: a method for using a particular microRNA as a biomarker for gynecological cancer; a method for the determination of gynecological cancer; a kit for the determination of gynecological cancer, and the like. The present invention is characterized in that at least one microRNA selected from the group of microRNAs consisting of miR-592, miR-629*, miR-517a, miR-205, miR-184, miR-509-5p, miR-135a*, miR-137, miR-602, miR-186*, miR-181a-2*, miR-193b*, miR-377*, miR-449b, miR-449a, miR-369-3p, miR-323-3p, miR-329, miR-299-5p, miR-34b, miR-411, miR-34c-5p, miR-376b, miR-885-5p, miR-337-3p, miR-337-5p, miR-127-3p, miR-138, miR-203, miR-488, miR-489, miR-643, miR-888, miR-424, miR-432, miR-433, miR-450a, miR-503, miR-542-3p, miR-542-5p and miR-584 is used as a biomarker for gynecological cancer.07-07-2011
20120015849Method of Creating a Library of Bacterial Clones with Varying Levels of Gene Expression - The present invention relates to a method of creating DNA libraries that include an artificial promoter library and/or a modified ribosome binding site library and transforming bacterial host cells with the library to obtain a population of bacterial clones having a range of expression levels for a chromosomal gene of interest.01-19-2012
20100099579NON-FOULING POLYMERIC SURFACE MODIFICATION AND SIGNAL AMPLIFICATION METHOD FOR BIOMOLECULAR DETECTION - An article such as a biosensor having a nonfouling surface thereon is described. The article comprises: (a) a substrate having a surface portion; (b) a linking layer on the surface portion; (c) a polymer layer comprising brush molecules formed on the linking layer; and (d) optionally but preferably, a first member of a specific binding pair (e.g., a protein, peptide, antibody, nucleic acid, etc.) coupled to the brush molecules. The polymer layer is preferably formed by the process of surface-initiated polymerization (SIP) of monomeric units thereon. Preferably, each of the monomeric units comprises a monomer (for example, a vinyl monomer) core group having at least one protein-resistant head group coupled thereto, to thereby form the brush molecule on the surface portion. Methods of using the articles are also described.04-22-2010
20120065105Chimeric Oligonucleotides for Ligation-Enhanced Nucleic Acid Detection, Methods and Compositions Therefor - Ligation-enhanced nucleic acid detection assay embodiments for detection of RNA or DNA are described. The assay embodiments rely on ligation of chimeric oligonucleotide probes to generate a template for amplification and detection. The assay embodiments are substantially independent of the fidelity of a polymerase for copying compromised nucleic acid. Very little background amplification is observed and as few as 1000 copies of target nucleic acid can be detected. Method embodiments are particularly adept for detection of RNA from compromised samples such as formalin-fixed and paraffin-embedded samples. Heavily degraded and cross-linked nucleic acids of compromised samples, in which classic quantitative real time PCR assays typically fail to adequately amplify signal, can be reliably detected and quantified.03-15-2012
20120157348Detection of nucleic acids from whole - Methods of detecting one or more nucleic acids from whole blood or plasma are provided. The nucleic acids are captured on a solid support and detected. Compositions, kits, and systems related to the methods are also described.06-21-2012
20120071355Microarray system - A microarray system is disclosed. The microarray system includes a microarray formed on a planar substrate and an incubation chamber formed around the microarray. The incubation chamber has a plurality of interior surfaces including a bottom surface on which the microarray is formed and a top surface that faces the bottom surface and is generally parallel to the bottom surface. At least one of a plurality of interior surfaces is a hydrophilic surface.03-22-2012
20120077712MICROARRAY SYSTEM WITH IMPROVED SEQUENCE SPECIFICITY - The invention provides a novel array method for nucleic acid sequence detection with improved specificity which allows for detection of genetic variation, from simple SNPs (where the variation occurs at a fixed position and is of limited allelic number) to more complex sequence variation patterns (such as with multigene families or multiple genetic strains of an organism where the sequence variation between the individual members is neither fixed nor consistent). The array is comprised of short, synthetic oligonucleotide probes attached to a solid surface which are hybridized to single-stranded targets. Single stranded targets can be produced using a method that employs primers modified on the 5′ end to prohibit degradation by a 5′-exonuclease that is introduced to degrade the unprotected strand. The invention further provides for printing buffers/solutions for the immobilization of oligonucleotide probes to an array surface. The invention also provides hybridization and wash buffers and conditions to maximize hybridization specificity and signal intensity, and reduce hybridization times.03-29-2012
20120157347METHOD FOR HLA TYPING - A method for the identification of DNA sequence elements in complex and highly variable sequences is described. The method considist of identifying a short sequence element of several DNA bases (2-6 bases) at a given position in the genome simultaneously on all parental alleles. The method allows differentiating mini-haplotypes on different alleles in one analysis. The method consists of carrying out an enzymatic primer extension reaction with a combination of extension primers (pool of primers) and analyzing the products by mass spectrometry. The pool of primers is assembled in such a way that the primer extension product allows unambiguous identification of both the primer of the pool that was extended and the base that was added. The method of great utility for DNA sequences harbouring many SNP's close to each other with many possible haplotypes. Such sequences are known in the Major Histocompatibility Complex (MHC). This method is particularly well suited for DNA-based HLA typing and in combination with a suitable selection of sites tested, it is superior in ease of operation to conventional HLA typing methods. We have identified sets of these assays for HLA-A, HLA-B, and HLA-DRB 1 that allow unambiguous four-digit HLA of each of these genes with between 11 and 28 queried markers.06-21-2012
20110065607CENTROID MARKERS FOR IMAGE ANALYSIS OF HIGH DENISTY CLUSTERS IN COMPLEX POLYNUCLEOTIDE SEQUENCING - Improved compositions, methods, apparatus, and kits for high-throughput nucleic acid amplification, detection and sequencing are disclosed. A nucleic acid cluster having an identifiable center is produced by generating on a solid support an immobilized nucleic acid complement from a template, one of which comprises a detectable label; and amplifying the complement and the template to obtain a nucleic acid cluster on the support, the cluster having a substantially central location marked by the detectable label and a surrounding region comprising immobilized copies. Also disclosed are nucleotide sequence determination in nucleic acid clusters so produced, center position annotation in the clusters, assignment of sequence information to overlapping clusters, and related compositions and methods.03-17-2011
20110105365PRO-EPIL EXPRESSION LEVEL IN A BIOLOGICAL SAMPLE AS TESTICULAR CANCER BIOMARKER, PARTICULARLY IN COMBINATION WITH THE HCBETA AND AFP BIOMARKERS - The present invention is directed to the use of the expression level of the pro-EPIL gene as a biomarker for the diagnosing of testicular cancer, particularly a testicular germ cell tumor. The invention also relates to an in vitro method for detecting and/or classifying a testicular cancer in a subject comprising a step of determining the expression level of the gene encoding the pro-EPIL peptide in a biological, particularly in combination with the determination of the beta subunit HCGβ and the human alpha-fetoprotein AFP. The invention is also directed to a kit or solid support comprising nucleic acids or antibodies capable of determining the presence or the expression level of these three biological markers.05-05-2011
20110105363siRNA targeting TNFa - 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 TNFα.05-05-2011
20120270750Microarray Synthesis and Assembly of Gene-Length Polynucleotides - There is disclosed a process for in vitro synthesis and assembly of long, gene-length polynucleotides based upon assembly of multiple shorter oligonucleotides synthesized in situ on a microarray platform. Specifically, there is disclosed a process for in situ synthesis of oligonucleotide fragments on a solid phase microarray platform and subsequent, “on device” assembly of larger polynucleotides composed of a plurality of shorter oligonucleotide fragments.10-25-2012
20120165228EVOLVING NEW MOLECULAR FUNCTION - Nature evolves biological molecules such as proteins through iterated rounds of diversification, selection, and amplification. The present invention provides methods, compositions, and systems for synthesizing, selecting, amplifying, and evolving non-natural molecules based on nucleic acid templates. The sequence of a nucleic acid template is used to direct the synthesis of non-natural molecules such as unnatural polymers and small molecules. Using this method combinatorial libraries of these molecules can be prepared and screened. Upon selection of a molecule, its encoding nucleic acid template may be amplified and/or evolved to yield the same molecule or related molecules for re-screening. The inventive methods and compositions of the present invention allow for the amplification and evolution of non-natural molecules in a manner analogous to the amplification of natural biopolymer such as polynucleotides and protein.06-28-2012
20110183869OXIDE LAYERS ON SILICON SUBSTRATES FOR EFFECTIVE CONFOCAL LASER MICROSCOPY - Methods of performing confocal laser microscopy on a polymer array disposed on a silicon wafer substrate, the method comprising the steps of providing a silicon wafer substrate having a top side and a bottom side, coating the top side of the silicon wafer with an oxide coating to provide an oxide coated wafer, covalently coupling a plurality of probes to the top side of the coated wafer to provide a fixed polymer array, hybridizing the fixed polymer array with a plurality of labeled ligands, and assaying for one or more hybridized ligands using confocal laser fluorescence microscopy to detect hybridization are provided.07-28-2011
20120129729Method for Determining the Methylation Pattern of a Polynucleic Acid - Particular aspects relate to a method for determining the methylation pattern of a polynucleic acid, comprising: a) preparing a solution comprising a mixture of fragments of the polynucleic acid; b) coupling the fragments with a substance being detectable with a detection method; c) contacting a solution comprising the fragments of b) with a DNA microarray having a plurality of different immobilized oligonucleotides, each comprising at least one methylation site, at respectively assigned different locations thereon, the contacting under conditions affording hybridization of fragments with correlated immobilized oligonucleotides under defined stringency, and wherein the immobilized oligonucleotides have a length of less than 200 bases; d) optionally performing a washing step; and e) detecting, using the physical detection method, such immobilized nucleic acids to which solution fragments are hybridized and/or to which solution fragments are not hybridized.05-24-2012
20120129728Methods and Apparatus for Measuring Analytes Using Large Scale FET Arrays - Methods and apparatus relating to very large scale FET arrays for analyte measurements. ChemFET (e.g., ISFET) arrays may be fabricated using conventional CMOS processing techniques based on improved FET pixel and array designs that increase measurement sensitivity and accuracy, and at the same time facilitate significantly small pixel sizes and dense arrays. Improved array control techniques provide for rapid data acquisition from large and dense arrays. Such arrays may be employed to detect a presence and/or concentration changes of various analyte types in a wide variety of chemical and/or biological processes. In one example, chemFET arrays facilitate DNA sequencing techniques based on monitoring changes in hydrogen ion concentration (pH), changes in other analyte concentration, and/or binding events associated with chemical processes relating to DNA synthesis.05-24-2012
20100331214siRNA Targeting Survivin - Efficient sequence specific gene silencing is possible through the use of siRNA technology. By selecting particular siRNAs by rationale design, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes. Through these methodologies, one can select siRNA that target genes, including surviving.12-30-2010
20120135892siRNA targeting spleen tyrosine kinase - Efficient sequence specific gene silencing is possible through the use of siRNA technology. By selecting particular siRNAs by rationale design, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes.05-31-2012
20120135890BIOMOLECULE ARRAY AND METHOD OF FABRICATING BIOMOLECULE ARRAY CHIP USING THE SAME - Disclosed are a biomolecule array and a method of fabricating a biomolecule array chip using the same. The present disclosure provides a simple method of fabricating a biomolecule array chip by coupling a pillar array with a well array The pillar array is provided with pillars protruded from a surface of a substrate, having a predetermined size and being arranged at a predetermined interval and is configured to apply biomolecules to a top surface of a pillar and the well array is configured so that each pillar formed in the pillar array is inserted into each well of the well array corresponding one-to-one after the biomolecule solutions are injected into each well.05-31-2012
20120135889METHODS AND COMPOSITIONS FOR IMPROVED FERTILIZATION AND EMBRYONIC SURVIVAL - Single nucleotide polymorphic site at position 11646 of the bovine FGF2 gene is associated with improved fertilization rate and/or improved embryo survival rate, as well as improved milk production. Also disclosed are nucleic acid molecules, kits, methods of genotyping and marker assisted bovine breeding methods.05-31-2012
20120135891METHODS AND DEVICES FOR EARLY DETECTION OF CANCER CELLS AND TYPES THROUGH MICROMECHANICAL INTERACTIONS - Methods and devices for detecting a cancer cell and cancer cell types in a sample of a subject are provided.05-31-2012
20100173802DETECTION OF NUCLEIC ACID SEQUENCE DIFFERENCES USING THE LIGASE DETECTION REACTION WITH ADDRESSABLE ARRAYS - The present invention describes a method for identifying one or more of a plurality of sequences differing by one or more single base changes, insertions, deletions, or translocations in a plurality of target nucleotide sequences. The method includes a ligation phase, a capture phase, and a detection phase. The ligation phase utilizes a ligation detection reaction between one oligonucleotide probe, which has a target sequence-specific portion and an addressable array-specific portion, and a second oligonucleotide probe, having a target sequence-specific portion and a detectable label. After the ligation phase, the capture phase is carried out by hybridizing the ligated oligonucleotide probes to a solid support with an array of immobilized capture oligonucleotides at least some of which are complementary to the addressable array-specific portion. Following completion of the capture phase, a detection phase is carried out to detect the labels of ligated oligonucleotide probes hybridized to the solid support.07-08-2010
20120172257PROBE, PROBE SET, PROBE CARRIER, AND TESTING METHOD - A probe, a set of probes, and a probe carrier on which the probe or the set of probes is immobilized, are provided for classification of fungus species. The probe or the set of probes is capable of collectively detecting fungus of the same species and distinguishingly detecting those fungus from fungus of other species. The probe is an oligonucleotide probe for detecting a pathogenic fungus DNA and includes at least one of base sequences of SEQ ID NOS. 1 to 2 and mutated sequences thereof.07-05-2012
20100048425siRNA targeting tumor protein 53 (P53) - 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.02-25-2010
20100048424NANOPARTICLE ARRAY AND METHOD FOR FABRICATING THE SAME - Nanoparticle arrays formed from nanoparticle-bound oligonucleotides bound to single-stranded DNA templates and methods for making the nanoparticle arrays.02-25-2010
20100048423SIMULTANEOUS DETECTION, DIFFERENTIATION AND TYPING SYSTEM OF NEWCASTLE DISEASE AND AVIAN INFLUENZA VIRUSES - A simultaneous detection, differentiation and typing system of Newcastle disease and avian influenza viruses is provided. The present invention provides a system, including an oligonucleotide microarray, avian virus specific probes is disposed on the oligonucleotide microarray and the avian viruses include Newcastle disease and avian influenza viruses, and avian virus nucleic acid products, hybridized with the avian virus specific probes on the oligonucleotide microarray. The present invention describes a fast, simultaneous and inexpensive approach to the detection of Newcastle disease virus (NDV) and avian influenza virus (AIV) and possesses good sensitivity and specificity among divergent viruses. The hybridization results on microarrays were clearly identified with the naked eyes, with no further imaging equipment needed. The present invention provides potential for rapid surveillance and differential diagnosis of these two important zoonoses in both wild and domestic birds.02-25-2010
20100048422Methods of Producing Modified Assembly Lines and Related Compositions - The present invention provides a method producing a modified assembly line, such as those that produce non-ribosomal peptides and polyketides. The modified assembly lines of the invention can be used to produce novel compounds with therapeutic activities. The invention also provides organisms containing modified assembly lines and libraries of modified assembly lines.02-25-2010
20090111712DETECTION AND QUANTIFICATION OF BIOMOLECULES USING MASS SPECTROMETRY - The present invention is directed in part to a method for detecting a target nucleic acid using detector oligonucleotides detectable by mass spectrometry. This method takes advantage of the 5′ to 3′ nuclease activity of a nucleic acid polymerase to cleave annealed oligonucleotide probes from hybridized duplexes and releases labels for detection by mass spectrometry. This process is easily incorporated into a polymerase chain reaction (PCR) amplification assay. The method also includes embodiments directed to quantitative analysis of target nucleic acids.04-30-2009
20100267586siRNA targeting KRAS - Efficient sequence specific gene silencing is possible through the use of siRNA technology. By selecting particular siRNAs directed to silencing KRAS, one can maximize the generation of an effective gene silencing reagent, as well as methods for silencing genes.10-21-2010
20100285994GOLD NANOPARTICLE COMPOSITION, DNA CHIP, NEAR INFRARED ABSORBENT, DRUG CARRIER FOR DRUG DELIVERY SYSTEM (DDS), COLORING AGENT, BIOSENSOR, COSMETIC, COMPOSITION FOR IN VIVO DIAGNOSIS AND COMPOSITION FOR THERAPEUTIC USE - A gold nanoparticle composition is provided that includes a spherical gold nanoparticle and an organic ligand molecule. The organic ligand molecule bonds to the gold nanoparticle. Thus, the gold nanoparticle composition has at least one absorption peak wavelength (plasmon absorption wavelength) within the region of 600-1000 nm. Consequently, the gold nanoparticle composition self-heats when irradiated with electromagnetic waves having a wavelength of 600-1000 nm.11-11-2010
20100292102System and Method For Preventing Synthesis of Dangerous Biological Sequences - A system and method for prohibiting synthesis of dangerous biological sequences are provided. The system includes a synthesizer for synthesizing biological sequences, a computer system in communication with the synthesizer, and a database including at least one prohibited biological sequence for which synthesis is prohibited. The system receives a requested biological sequence for which synthesis is desired, and compares the requested biological sequence to the database. The system prohibits synthesis of the requested biological sequence by the synthesizer if the requested biological sequence matches at least one prohibited biological sequence in the database, and allows synthesis of the requested biological sequence by the synthesizer if no match is found in the database. The computer system could form part of the synthesizer, and the requested biological sequence could be input by a user using a control panel of the synthesizer. A centralized security server is also provided for central monitoring and control of synthesis by one or more remote synthesizers, and a security chip is provided for securing individual synthesizers.11-18-2010
20120220496siRNA Targeting Catenin, Beta-1 (CTNNB1) - 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 CTNNB1.08-30-2012
20120220497Methods and Microfluidic Devices for the Manipulation of Droplets in High Fidelity Polynucleotide Assembly - Methods and devices are provided for manipulating droplets on a support using surface tension properties, moving the droplets along a predetermined path and merging two droplets together enabling a number of chemical reactions. Disclosed are methods for controlling the droplets volumes. Disclosed are methods and devices for synthesizing at least one oligonucleotide having a predefined sequence. Disclosed are methods and devices for synthesizing and/or assembling at least one polynucleotide product having a predefined sequence from a plurality of different oligonucleotides having a predefined sequence. In exemplary embodiments, the methods involve synthesis and/or amplification of different oligonucleotides immobilized on a solid support, release of synthesized/amplified oligonucleotides in solution to form droplets, recognition and removal of error-containing oligonucleotides, moving or combining two droplets to allow hybridization and/or ligation between two different oligonucleotides, and further chain extension reaction following hybridization and/or ligation to hierarchically generate desired length of polynucleotide products.08-30-2012
20120220495ARRAYS OF MICROPARTICLES AND METHODS OF PREPARATION THEREOF - This invention provides high unit density arrays of microparticles and methods of assembling such arrays. The microparticles in the arrays may be functionalized with chemical or biological entities specific to a given target analyte. The high unit density arrays of this invention are formed on chips which may be combined to form multichip arrays according to the methods described herein. The chips and/or multichip arrays of this invention are useful for chemical and biological assays.08-30-2012
20120220494COMPOSITIONS AND METHODS FOR MOLECULAR LABELING - The invention provides barcode libraries and methods of making and using them including obtaining a plurality of nucleic acid constructs in which each construct comprises a unique N-mer and a functional N-mer and segregating the constructs into a fluid compartments such that each compartment contains one or more copies of a unique construct. The invention further provides methods for digital PCR and for use of barcode libraries in digital PCR.08-30-2012
20110124526USE OF ACID SCAVENGERS FOR THE SYNTHESIS OF STANDARD LENGTH AND LONG-MER POLYER ARRAYS - Protective groups which may be cleaved with an activatable deprotecting reagents are employed to achieve a highly sensitive, high resolution, combinatorial synthesis of pattern arrays of diverse polymers. In preferred embodiments of the instant invention, the activatable deprotecting reagent is a photoacid generator and the protective groups are DMT for nucleic acids and tBOC for amino acids. This invention has a wide variety of applications and is particularly useful for the solid phase combinatorial synthesis of polymers.05-26-2011
20110124525METHOD FOR PREDICTING RISK OF METASTASIS - The invention encompasses methods and compositions for predicting the risk of metastasis. In particular, the invention encompasses a method for correlating the the level of expression of one or more nucleic acid sequences with a risk of metastasis.05-26-2011
20110124524Fluid Processing Device for Oligonucleotide Synthesis and Analysis - The present teachings provide a fluid processing device adapted to produce different oligomers in a plurality of respective reaction sites. The fluid processing device can comprise a first manifold for delivering reactants to the plurality of reaction sites, and a second manifold for removing waste from, and optionally delivering wash fluid to, the plurality of reaction sites. Surface tension control valves can be disposed in fluid communication with the first manifold and can selectively allow reactants and/or fluids into the reaction sites. A method of making oligonucleotides is also provided.05-26-2011
20120231974Self-Assembling High Density Ordered Patterned Biomolecule Array and Method for Making and Using the Same - A method for fabricating a universal substrate for attaching biomolecules, including sequencing features and the resulting substrate. A method of direct detection of analytes utilizes a Complementary Metal Oxide Semiconductor (CMOS) sensor with the substrate.09-13-2012
20120264651EVALUATING PROTEINS - The disclosure features methods that include: providing a substrate that includes (i) a nucleic acid (e.g., DNA or RNA) encoding a hybrid amino acid sequence including a test amino acid sequence and an affinity tag, and (ii) a binding agent that recognizes the affinity tag; contacting the substrate with a translation effector to thereby translate the hybrid amino acid sequence; maintaining the substrate under conditions permissive for the hybrid amino acid sequence to bind the binding agent; and removing the nucleic acid from the substrate. In one embodiment, the substrate includes a plurality of positionally-distinguishable addresses, for example, each includes a different nucleic acid. The addresses can be located a regularly or irregularly spaced locations.10-18-2012
20110003715METHODS FOR DETECTION AND QUANTIFICATION OF ANALYTES IN COMPLEX MIXTURES - The invention provides a diverse population of uniquely labeled probes, containing about thirty or more target specific nucleic acid probes each attached to a unique label bound to a nucleic acid. Also provided is a method of producing a population of uniquely labeled nucleic acid probes. The method consists of (a) synthesizing a population of target specific nucleic acid probes each having a different specifier; (b) synthesizing a corresponding population of anti-genedigits each having a unique label, the population having a diversity sufficient to uniquely hybridize to genedigits within the specifiers, and (c) hybridizing the populations of target nucleic acid probes to the anti-genedigits, to produce a population in which each of the target specific probes is uniquely labeled. Also provided is a method of detecting a nucleic acid analyte. The method consists of (a) contacting a mixture of nucleic acid analytes under conditions sufficient for hybridization with a plurality of target specific nucleic acid probes each having a different specifier; (b) contacting the mixture under conditions sufficient for hybridization with a corresponding plurality of anti-genedigits each having a unique label, the plurality of anti-genedigits having a diversity sufficient to uniquely hybridize to genedigits within the specifiers, and (c) uniquely detecting a hybridized complex between one or more analytes in the mixture, a target specific probe, and an anti-genedigit.01-06-2011
20110003714siRNA Targeting Beta Secretase (BACE) - 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 BACE.01-06-2011
20110003713siRNA targeting apolipoprotein B (APOB) - 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, composition, and kits generated through rational design of siRNAs are disclosed including those directed to nucleotide sequences for APOB.01-06-2011
20110003712Methods, Kits and Compositions for the Identification of Nucleic Acids Electrostatically Bound to Matrices - This invention pertains to methods, kits and compositions suitable for the detection, identification and/or quantitation of nucleic acids which are electrostatically immobilized to matrices using non-nucleotide probes which sequence specifically hybridize to one or more target sequences of the nucleic acid but do not otherwise substantially interact with the matrix. Once the nucleic acid is immobilized, the detectable non-nucleotide probe/target sequence complex, formed before or after the immobilization of the nucleic acid, can be detected, identified or quantitated under a wide range of assay conditions as a means to detect, identify or quantitate the target sequence in the sample. Because it is reversibly bound, the non-nucleotide probe/target sequence can optionally be removed from the matrix for detecting, identifying or quantitating the target sequence in the sample. Because the non-nucleotide probe/target sequence is protected against degradation, it is another advantage of this invention that the sample can be treated with enzymes which degrade sample components, either before or after the nucleic acid is bound to the matrix, in order to “clean up” the sample (e.g. a complex biological sample such as a cell lysate) and thereby improve the detection, identification or quantitation of the target sequence in the sample. The methods, kits and compositions of this invention are therefore particularly well suited for the analysis, and particularly single point mutation analysis, in a particle assay, in an array assay, in a nuclease digestion/protection assay and/or in a line assay format. When utilized in combination with non-nucleotide “Beacon” probes, the invention is particularly well suited for use in a self-indicating assay format.01-06-2011
20100204062CALIBRATION METHODS FOR MULTIPLEXED SENSOR ARRAYS - The present invention relates to the calibration of devices using a secondary binding agent or reference material. In one embodiment, the present invention provides a method of calibrating a nanosensor by providing a nanosensor comprising an analyte binder attached to a reference binder, extracting a calibration curve from binding a reference material to the reference binder, and calibrating the nanosensor by using the calibration curve to correct for device variation.08-12-2010
20120322691POOLED ADAPTER STRATEGY FOR REDUCING BIAS IN SMALL RNA CHARACTERIZATION - Modified nucleic acid adapters are provided that collectively provide a mixture of nucleotides at the 3′ end of 5′ adapters and at the 5′ end of 3′ adapters such that at least one adapter in each set has any given nucleotide at position 1, i.e., the nucleotide position available for ligation to a small RNA, and has any given nucleotide at position 2 adjacent to position 1 for use in overcoming bias during nucleic acid manipulation, such as small RNA characterization and/or profiling by, e.g., deep sequencing, along with methods for use of the modified adapters in small RNA characterization. The modified adapters have at least two mixed nucleotides at the adapter terminus to be ligated to a nucleic acid such as a small RNA.12-20-2012
20120270751siRNA Targeting Diacylglycerol O-Acyltransferase Homolog 2 (DGAT2) - 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 DGAT2.10-25-2012
20110230372GENE EXPRESSION CLASSIFIERS FOR RELAPSE FREE SURVIVAL AND MINIMAL RESIDUAL DISEASE IMPROVE RISK CLASSIFICATION AND OUTCOME PREDICTION IN PEDIATRIC B-PRECURSOR ACUTE LYMPHOBLASTIC LEUKEMIA - The present invention relates to the identification of genetic markers patients with leukemia, especially including acute lymphoblastic leukemia (ALL) at high risk for relapse, especially high risk B-precursor acute lymphoblastic leukemia (B-ALL) and associated methods and their relationship to therapeutic outcome. The present invention also relates to diagnostic, prognostic and related methods using these genetic markers, as well as kits which provide microchips and/or immunoreagents for performing analysis on leukemia patients.09-22-2011
20100234245PRIMERS AND PROBES FOR THE DETECTION OF STREPTOCOCCUS PNEUMONIAE - Methods of detecting 09-16-2010
20120277121KIT FOR DETECTION OF MICROORGANISM - A kit for use in a method for detecting live cells, injured cells and dead cells of a microorganism in a test sample by a nucleic acid amplification method is disclosed. The kit includes a cross-linker capable of cross-linking DNA by irradiation with light having a wavelength of 350 nm to 700 nm, medium, and a primer (s) for amplifying a DNA target region in the microorganism by a nucleic acid amplification method. The nucleic acid amplification method may be a PCR, LAMP, SDA, LCR or DNA microarray method. A cross-linker may be included in the kit such as ethidium monoazide, ethidium diazide, psoralen, 4,5′,8-trimethyl psoralen, or 8-methoxy psoralen.11-01-2012
20120329678Method for Making Mate-Pair Libraries - The present disclosure provides methods for generating mate-pair libraries using a recombinase/recombination site system. The method allows for increased insert size, improved efficiency and simplicity of the steps involved, and improved data generation. Mate-pair libraries are helpful in providing positional information for the assembly of sequence data from short read sequencing platforms. The disclosure also embodies the mate-pair libraries as generated from these methods.12-27-2012
20100167953METHODS AND APPARATUSES FOR COMPARATIVE GENOMIC MICROARRAY ANALYSIS - Control nucleic acids and their method of use to simultaneously test for numerous genetic alterations that involve an unbalanced arrangement of chromosomes. One implementation increases reliability and accuracy by adding additional nucleic acid to test and/or reference samples. Clones representing segments insensitive to chromosomal rearrangements are placed in non-adjacent target areas of a microarray to avoid interfering hybridization reactions.07-01-2010
20100167951DNA CHIP FOR DETECTION OF STAPHYLOCOCCUS AUREUS - The present invention relates to nucleic acid probes specific to 07-01-2010
20100167952SUPPRESSION OF SECONDARY CAPTURE IN MICROARRAY ASSAYS - The present invention provides for compositions, methods and systems for targeted sequence enrichment. In particular, the present invention provides for enriching for targeted nucleic acid sequences during hybridizations in microarray assays by suppressing secondary capture of non-target nucleic acid sequences.07-01-2010
20120329677ARRAYS OF NUCLEIC ACID PROBES FOR DETECTING CYSTIC FIBROSIS - The invention provides arrays of immobilized probes, and methods employing the arrays, for detecting mutations in the CFTR gene.12-27-2012
20110306521SEPARATION OF PYROPHOSPHATE RELEASE AND PYROPHOSPHATE DETECTION - The present technology relates to methods and systems for detection of pyrophosphate. As such, disclosed herein are methods and systems that permit improved pyrophosphate detection. Also disclosed herein are methods and systems which utilize improved pyrophosphate detection for nucleotide sequencing.12-15-2011
20130017977Microarray Synthesis and Assembly of Gene-Length Polynucleotides - There is disclosed a process for in vitro synthesis and assembly of long, gene-length polynucleotides based upon assembly of multiple shorter oligonucleotides synthesized in situ on a microarray platform. Specifically, there is disclosed a process for in situ synthesis of oligonucleotide fragments on a solid phase microarray platform and subsequent, “on device” assembly of larger polynucleotides composed of a plurality of shorter oligonucleotide fragments.01-17-2013
20110160093DETECTION AND QUANTIFICATION OF BIOMOLECULES USING MASS SPECTROMETRY - The present invention is directed in part to a method for detecting a target nucleic acid using detector oligonucleotides detectable by mass spectrometry. This method takes advantage of the 5′ to 3′ nuclease activity of a nucleic acid polymerase to cleave annealed oligonucleotide probes from hybridized duplexes and releases labels for detection by mass spectrometry. This process is easily incorporated into a polymerase chain reaction (PCR) amplification assay. The method also includes embodiments directed to quantitative analysis of target nucleic acids.06-30-2011
20110160092Methods for Selecting a Collection of Single Nucleotide Polymorphisms - The invention relates to the selection of a collection of relevant single nucleotide polymorphisms across a genome to design a nucleic acid probe array. As such, the invention relates to diverse fields impacted by the nature of genetics, including biology, medicine, and medical diagnostics.06-30-2011
20110160091Methods and Nucleic Acids for Analyses of Cell Proliferative Disorders - The invention provides methods, nucleic acids and kits for determining the prognosis of a subject having cell proliferative disorder, preferably cancer. The invention discloses genomic sequences the methylation patterns of which have utility for the improved detection of said disorder, thereby enabling the improved diagnosis and treatment of patients.06-30-2011
20110160090Nanocrystal-Based Lateral Flow Microarrays and Low-Voltage Signal Detection Systems - The invention provides semiconductor nanocrystal-based lateral flow microarrays (SN-LFM), assays using SN-LFM, signal amplification strategies, optical detection devices for collecting data from SN-LFM assays, and integrated sample-to-answer SN-LFM assay/detection devices.06-30-2011
20110160089DNA Biochip and methods of use - The subject invention concerns materials and methods for detecting nucleic acid sequences. One aspect of the invention concerns a silicon-based “biochip” comprising nucleic acid immobilized thereon. In one embodiment, the silicon comprises microcavities. The nucleic acid to be assayed for the presence of one or more target nucleic acid sequences is immobilized on the silicon. A nucleic acid, such as an oligonucleotide probe, having a sequence substantially complementary to the target nucleic acid sequence can be used to detect the immobilized nucleic acid on the silicon. If the nucleic acid used for detection hybridizes with a target nucleic acid sequence, the hybridized sequences can be detected directly or indirectly. In an exemplified embodiment, the oligonucleotide probe can be labeled with a detectable label, for example, a fluorescent molecule. The subject invention also concerns methods for detecting a target nucleic acid using a silicon-based biochip of the invention.06-30-2011
20110160088Solid Substrates With Surface Bound Molecules and Methods For Producing and Using the Same - The present invention provides solid substrates comprising a small number of molecules, for example, ten or less molecules on the convex surface, e.g., on the apex, and methods for producing and using the same.06-30-2011
20130023446siRNA Targeting Beta Secretase (BACE) - 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 BACE.01-24-2013
20130023445DIMERIC DIAGNOSTIC ARRAYS - The invention provides dimeric diagnostic arrays and methods for their use.01-24-2013
20090221444Method for Identifying, Marking and Treating Epithelial Lung Tumour Cells and Means for Carrying Out Said Method - The bronchial carcinoma is the most common tumour found in humans world-wide and is in most cases beyond remedy. The invention relates to a method for identifying, marking and treating epithelial lung tumour cells, specifically of an adenocarcinoma, with the aid of novel treatment targets, and to means for carrying out said method. At the basis of the invention is the discovery that the expression of genes that code for CAM and ECM molecules is modified in c-raf and/or c-myc induced adenocarcinomas of the lung. Cell-adhesion proteins and extra-cellular matrix proteins constitute the treatment targets. According to the invention, a biological or biotechnological system is brought into contact with a dissolved substance that has an affinity to at least one of the following genes: ADAM19, Mmp12, Col18a1, Col15a1, CD44, Bsg, Itgb2, Itgax, Lamc2, Lamb3, Alcam, Cldn2, Cldn3, Cldn7, Krt1-18, Krt2-8, tacstd1, tacstd2, S100a1, S100a11, their variants, parts of said genes, their mRNA or their gene products, cleavage products derived from said genes, polypeptides or peptides, said substance being bound to a suitable marker.09-03-2009
20110312587LOC FOR DETECTION OF HYBRIDIZATION OF NUCLEIC ACID SEQUENCES WITH PRIMER-LINKED STEM-AND-LOOP PROBES - A LOC device having a supporting substrate, a primer-linked, stem-and-loop probe incorporating a nucleic acid sequence that matches a target nucleic acid sequence, and a primer for elongating against the target nucleic acid sequence to form a complementary sequence such that during use the probe nucleic acid sequence matching the target nucleic acid sequence anneals to the complementary sequence to change a fluorescence emission from the probe in response to an excitation light, and, CMOS circuitry on the supporting substrate, the CMOS circuitry having operative control of the excitation light.12-22-2011
20110312586MICROFLUIDIC DEVICE FOR CHEMICALLY AND THERMALLY LYSING CELLS - A microfluidic device for lysing cells in a fluid, the microfluidic device having a supporting substrate, an inlet for receiving fluid containing cells, a lysis section in fluid communication with the inlet, the lysis section having at least one heater for heating the fluid, a reservoir containing a lysis reagent, and, CMOS circuitry between the supporting substrate and the lysis section, the CMOS circuitry being configured for selectively lysing the cells using thermal lysis in the lysis section, chemically lysing the cells using the lysis reagent, or both chemically and thermally lysing the cells using the lysis section and the lysis reagent.12-22-2011
20110312600GENETIC ANALYSIS LOC WITH THERMAL BEND ACTUATED PRESSURE PULSE VALVE - A lab-on-a-chip device (LOC) for genetic analysis having a supporting substrate, an array of probes for hybridization with target nucleic acid sequences to form probe-target hybrids, a channel for directing a flow of liquid containing the target nucleic acid sequences, the channel having an inlet, an outlet and a meniscus anchor between the inlet and the outlet such that the flow from the inlet towards the outlet stops at the meniscus anchor where the liquid forms a meniscus, and, an actuator valve with a movable member for contacting the liquid, and a thermal expansion actuator for displacing the movable member to generate a pulse in the liquid to dislodge the meniscus such that the liquid flow towards the outlet resumes.12-22-2011
20110312599MICROFLUIDIC DEVICE WITH A PCR SECTION WITH SINGLE ACTIVATION, OUTLET VALVE - A microfluidic device for amplifying nucleic acid sequences, the microfluidic device having a polymerase chain reaction (PCR) section for thermally cycling the nucleic acid sequences and a PCR mix of reagents through a denaturation temperature, an annealing temperature and a primer extension temperature, and, a PCR outlet valve to retain the nucleic acid sequences and a PCR mix of reagents in the PCR section during the thermal cycling, wherein, the PCR outlet valve is configured to open in response to an activation signal such that amplicon can flow from the PCR section and once open, the PCR outlet valve is unable to close.12-22-2011
20110312598MICROFLUIDIC DEVICE WITH REAGENT MIXING PROPORTIONS DETERMINED BY OUTLET VALVE NUMBERS - A microfluidic device for testing a fluid, the microfluidic device having an inlet for receiving the fluid, a reservoir containing a reagent, a flow-path extending from the inlet, a valve assembly for establishing a fluid connection between the flow-path and the reservoir, the valve assembly having a plurality of outlet valves and a plurality of channels from the reservoir to the flow-path, wherein during use, a number of the outlet valves open such that the reagent flows through the valve assembly to the flow-path to combine with the fluid from the inlet to produce a combined flow having a proportion of the reagent, the proportion of the reagent in the combined flow being determined by the number of the outlet valves opened.12-22-2011
20110312597GENETIC ANALYSIS LOC WITH HYBRIDIZATION ARRAY WITH POSITIVE CONTROL CHAMBERS INCORPORATING PROBES WITH NO QUENCHERS - A microfluidic device having a supporting substrate, an inlet for receiving a biological sample containing a target nucleic acid sequence, probes that each have a nucleic acid sequence for hybridization with the target nucleic acid sequence to form a probe-target hybrid, a fluorophore and a quencher configured such that the fluorophore emits a fluorescence signal in response to an excitation light and the quencher quenches the fluorescence signal when the probe is not hybridized, but fails to quench the fluorescence signal from the probe-target hybrid, and, a control probe with a fluorophore but no quencher, wherein, the control probe always emits the fluorescence signal in response to the excitation light.12-22-2011
20110312596MICROFLUIDIC DEVICE WITH SURFACE TENSION VALVE AT REAGENT RESERVOIR OUTLET - A microfluidic device for processing a fluid sample, the microfluidic device having a reservoir for containing a reagent, and, a surface tension valve having an aperture configured to pin a meniscus of the reagent such that the meniscus retains the reagent in the reagent reservoir until contact with the fluid sample removes the meniscus such that the reagent flows out of the reagent reservoir.12-22-2011
20110312595MICROFLUIDIC DEVICE WITH MIXING SECTION - A microfluidic device having a sample inlet for receiving a sample of biological material having nucleic acid sequences, a polymerase chain reaction (PCR) section for amplifying the nucleic acid sequences, a reagent reservoir containing a reagent, and, a mixing section for mixing the nucleic acid sequences with the reagent, wherein during use, the sample flows from the sample inlet to the PCR section via the mixing section.12-22-2011
20110312594GENETIC ANALYSIS LOC WITH HYBRIDIZATION PROBES INCLUDING POSITIVE AND NEGATIVE CONTROL PROBES - A lab-on-a-chip (LOC) device for genetic analysis of nucleic acid sequences extracted from biological material, the LOC device having probes for hybridization with target nucleic acid sequences within the nucleic acid sequences to form probe-target hybrids, the probe-target hybrids each having a reporting fluorophore for emitting a fluorescence signal in response to an excitation light, a positive control probe configured to always emit a fluorescence signal, and, a negative control probe configured to never emit a fluorescence signal, wherein during use, detecting a fluorescence signal from the negative control probe indicates a malfunction, and, not detecting a fluorescence signal from the positive control probe indicates a malfunction.12-22-2011
20110312593MICROFLUIDIC DEVICE WITH INCUBATOR HAVING TWO-DIMENSIONAL CONTROL OF INPUT HEAT FLUX - A microfluidic device having an inlet for receiving a fluid, an incubation section having a microchannel configured to have a plurality of mutually parallel, adjacent channel sections, and a plurality of elongate heaters positioned end to end along each of the channel sections, wherein, each of the heaters are independently operable for two-dimensional control of heat flux density to the incubation section.12-22-2011
20110312592MICROFLUIDIC DEVICE WITH INCUBATION CHAMBER BETWEEN SUPPORTING SUBSTRATE AND HEATER - A microfluidic device having a supporting substrate, a sample inlet for receiving a fluid sample, an incubation section having an incubation chamber, and at least one heater for maintaining the fluid sample at an incubation temperature for a period, wherein, the incubation chamber is between the at least one heater element and the supporting substrate.12-22-2011
20110312591LOC WITH LOW-VOLUME HYBRIDIZATION CHAMBER AND REAGENT RESERVOIR FOR GENETIC ANALYSIS - A microfluidic device having a supporting substrate, an inlet for receiving a biological sample containing a target nucleic acid sequence, a reagent reservoir containing a reagent for addition to the biological sample, and, a hybridization chamber containing probes having a nucleic acid sequence for hybridization with the target nucleic acid sequence to form probe-target hybrids, wherein, microsystems tech the reagent reservoir has a volume less than 1,000,000,000 cubic microns and the hybridization chamber has a volume less than 900,000 cubic microns.12-22-2011
20110312590MICROFLUIDIC DEVICE WITH ELONGATE INCUBATION CHAMBER - A microfluidic device having a sample inlet for receiving a fluid sample, an incubation section having an elongate incubation chamber with a longitudinal extent much greater than the lateral dimensions, and at least one heater for maintaining the fluid sample at an incubation temperature for an incubation period, wherein, the at least one heater is also elongated with a lateral extent parallel to that of the elongate incubation chamber.12-22-2011
20110312589GENETIC TEST MODULE WITH LOW OLIGONUCLEOTIDE PROBE MASS AND REAGENT VOLUMES - A test module for performing a genetic diagnostic assay, the test module having an outer casing dimensioned for hand-held portability, the outer casing having a receptacle for a biological sample containing target nucleic acid sequences, an array of chambers containing probes for hybridization with the target nucleic acid sequences to form probe-target hybrids, a flow-path extending from the inlet to the probes, and, a reagent reservoir containing a reagent for addition to the sample in the flow-path upstream of the probes, wherein, each of the chambers contains less than 270 picograms of probe and the reagent reservoir has a volume less than 1000,000,000 cubic microns.12-22-2011
20110312588LOC DEVICE WITH ON-CHIP SEMICONDUCTOR CONTROLLED INCUBATION SECTION - A lab-on-a-chip (LOC) device having a supporting substrate, a sample inlet for receiving a fluid sample, an incubation section in fluid communication with the sample inlet, the incubation section having at least one heater, and, CMOS circuitry between the supporting substrate and the incubation section, wherein, the CMOS circuitry is connected to the at least one heater for maintaining the fluid sample at an incubation temperature for an incubation period.12-22-2011
20110312585MICROFLUIDIC DEVICE WITH PARALLEL DNA AND RNA AMPLIFICATION SECTION - A microfluidic device for amplifying DNA and RNA, the microfluidic device having an inlet for receiving a sample containing genetic material including DNA and RNA, a plurality of reagent reservoirs containing reagents for addition to the sample, a first nucleic acid amplification section for amplifying at least some of the genetic material, and, a second nucleic acid amplification section for amplifying at least some of the genetic material in parallel with the first nucleic acid amplification section.12-22-2011
20110312584SINGLE-USE TEST MODULE WITH DRIVER FOR EXCITATION OF ELECTROCHEMILUMINESCENT LUMINOPHORES - A test module for detecting target nucleic acid sequences in a fluid, the test module having an outer casing with a receptacle for receiving a fluid containing the target nucleic acid sequences, an array of electrochemiluminescent (ECL) probes for hybridization with the target nucleic acid sequences to form probe-target hybrids, and, electrodes positioned for receiving an electrical pulse, the probe-target hybrids being configured to emit photons when excited by current between the electrodes, and, control circuitry for providing the electrodes with the electrical pulse, wherein during use, addition of the fluid to the probes prevents subsequent addition of other fluid to the probes.12-22-2011
20110312583TEST MODULE WITH PARALLEL NUCLEIC ACID AMPLIFICATION SECTIONS - A test module for amplifying nucleic acid sequences, the test module having an outer casing with receptacle for receiving a sample containing genetic material, a plurality of reagent reservoirs containing reagents for addition to the sample, a first nucleic acid amplification section for amplifying nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section for amplifying nucleic acid sequences in the genetic material in parallel with the first nucleic acid amplification section.12-22-2011
20110312582TEST MODULE WITH NUCLEIC ACID AMPLIFICATION SECTION - A test module for amplifying nucleic acid sequences, the test module having an outer casing with receptacle for receiving a sample containing genetic material, a plurality of reagent reservoirs containing reagents for addition to the sample, and, a nucleic acid amplification section for amplifying nucleic acid sequences in the genetic material.12-22-2011
20110312581MICROFLUIDIC DEVICE WITH NUCLEIC ACID AMPLIFICATION CHAMBER HEATER BONDED TO CHAMBER INTERIOR - A microfluidic device having a sample inlet for receiving a sample of biological material having nucleic acid sequences, and, a nucleic acid amplification section for amplifying the nucleic acid sequences, the nucleic acid amplification section having an amplification chamber and a heater element, wherein, the heater element is bonded to an interior surface of the amplification chamber.12-22-2011
20110312580LOC DEVICE WITH NUCLEIC ACID AMPLIFICATION SECTION AND THERMAL INSULATION TRENCH - A lab-on-a-chip (LOC) device for amplifying nucleic acid sequences in a sample, the LOC device having a supporting substrate, a plurality of functional sections for processing the sample, one of the functional sections being a nucleic acid amplification section for amplifying nucleic acid sequences in the sample, wherein, the nucleic acid amplification section is supported on the supporting substrate and the supporting substrate defines a trench for thermally insulating the nucleic acid amplification section from one or more of the other functional sections.12-22-2011
20080227658Cdna Microarrays With Random Spacers - The present invention discloses an improved cDNA microarray, which employs spacers of random sequence and a length of the spacers of at least 50 to 80 nucleotides. The inventive cDNA microarray may be employed for example in fields like the determination of gene expression, DNA sequencing, fingerprinting or mapping. In addition, a method for the preparation of the cDNA microarray, the use of spacer molecules with random sequence and a kit are specified.09-18-2008
20110263459DIRECT SELECTION OF STRUCTURALLY DEFINED APTAMERS - The present invention provides aptamer libraries with pre-defined secondary structures that can be used for oversampled screening for affinity binding. In one embodiment, a multiplex approach is employed to divide the library into degenerate subsets that are immobilized on multiple locations of a solid support such as a microarray chip10-27-2011
20080220986Method for retaining even coverage of short insert libraries - The invention relates to a method of preparing a library of template polynucleotides with uniform sequence representation and to use of a library of templates prepared using this method for solid-phase nucleic acid amplification. In particular, the invention relates to a method of preparing a library of template polynucleotides which have common sequences at their 5′ ends and at their 3′ ends, which contains even representation of all the fragments present in a starting sample of nucleic acid before fragmentation. The invention is especially applicable to the preparation of short insert libraries, where the sample fragments are less than 150 base pairs in length.09-11-2008
20120252699COUPLED RECOGNITION/DETECTION SYSTEM FOR IN VIVO AND IN VITRO USE - The present invention relates to novel fluorophores and their use in combination with novel nucleic acid molecules, called aptamers, that bind specifically to the fluorophore and thereby enhance the fluorescence signal of the fluorophore upon exposure to radiation of suitable wavelength. Molecular complexes formed between the novel fluorophores, novel nucleic acid molecules, and their target molecules are described, and the use of multivalent aptamer constructs as fluorescent sensors for target molecules of interest are also described.10-04-2012
20090088344Method Selecting Highly Specific Probes For HPV Genotype Analysis and the Probes Thereof - A method for selecting a highly specific probe among a predetermined range of nucleotide sequences comprises: 04-02-2009
20130137604METHODS OF EVALUATING GENETIC ELEMENTS - The invention relates to compositions for evaluating a genetic element and methods of use.05-30-2013
20130137603NEWLY IDENTIFIED COLON CANCER MARKER AND DIAGNOSTIC KIT USING THE SAME - Provided are a newly identified colon cancer marker and a diagnostic kit using the same. More particularly, the present invention relates to an identified colon cancer specific marker, a composition and a kit including agents determining presence of the marker, and a method of diagnosing colon cancer using the same. The diagnostic marker according to the present invention capable of detecting metastasis and prognosis of colon cancer may provide useful information for the treatment and management of colon cancer and be used for the development of colon cancer-specific anticancer agents.05-30-2013
20110269646SENSING DEVICE AND MANUFACTURING METHOD THEREOF - The present invention relates to a sensing device with a surface having at least one individual sensing region, wherein each sensing region includes a plurality of binding elements anchored on the surface for binding different specific analytes of interest, at least one of the analyte of interest and its matching binding element having a label for detecting said binding. The present invention further relates to a method of manufacturing such a sensing device.11-03-2011
20130096032Plant polymorphic markers and uses thereof - The present invention is in the field of plant genetics. More specifically, the invention relates to nucleic acid markers associated with 04-18-2013
20130096031MICROFLUIDIC CHIP - A microfluidic chip includes a base layer, a fluid layer, and a gas regulating layer. The base layer includes a microarray detecting zone. The microarray detecting zone includes a substrate, a photoresist pattern layer, a blocking layer, a bonding layer, at least one linker molecule, and a probe molecule. The bonding layer is covalently attached to the photoresist pattern layer. The at least one linker molecule is covalently bonded to the binding layer. The probe molecule is covalently bonded to the at least one linker molecule for specifically reacting with an under-test molecule. The fluid layer is disposed over the base layer, and includes plural flow channels for introducing or collecting detecting reagents. The gas regulating layer is disposed over the fluid layer for controlling open/close statuses of the flow channels, thereby controlling a flowing condition of a fluid in the fluid layer.04-18-2013
20130116154METHOD AND SUBSTANCES FOR ISOLATION AND DETECTION OF SMALL POLYNUCLEOTIDES - A capture probe suitable for use with methods for isolating, labeling or detecting small polynucleotides. A method for isolating a small polynucleotide of interest from a sample comprising hybridizing the small polynucleotide to the capture probe and lengthening the small polynucleotide by primer extension or ligation. A method for detecting a small polynucleotide of interest following isolation by amplification of the primer extension products and/or hybridization and subsequent cleavage of dual labeled detector probes.05-09-2013
20130116153MICROARRAY FABRICATION SYSTEM AND METHOD - A microarray is designed capture one or more molecules of interest at each of a plurality of sites on a substrate. The sites comprise base pads, such as polymer base pads, that promote the attachment of the molecules at the sites. The microarray may be made by one or more patterning techniques to create a layout of base pads in a desired pattern. Further, the microarrays may include features to encourage clonality at the sites.05-09-2013
20130130937SAMPLE HOLDER FOR MICROARRAY READER BASED ON EVANESCENT WAVE BIOSENSOR - A microarray reader (05-23-2013
20130130938OLIGONUCLEOTIDE LIBRARY ENCODING RANDOMISED PEPTIDES - The invention relates to a method of producing an oligonucleotide library comprising a plurality of oligonucleotides, each oligonucleotide in the library having at least one predetermined position, a randomisation codon selected from a defined group of codons, the codons within said defined group coding for different amino acids. Vector, host cells containing such libraries and kits for the production of such libraries are also provided.05-23-2013
20130143771NON-FOULING POLYMERIC SURFACE MODIFICATION AND SIGNAL AMPLIFICATION METHOD FOR BIOMOLECULAR DETECTION - An article such as a biosensor having a nonfouling surface thereon is described. The article comprises: (a) a substrate having a surface portion; (b) a linking layer on the surface portion; (c) a polymer layer comprising brush molecules formed on the linking layer; and (d) optionally but preferably, a first member of a specific binding pair (e.g., a protein, peptide, antibody, nucleic acid, etc.) coupled to the brush molecules. The polymer layer is preferably formed by the process of surface-initiated polymerization (SIP) of monomeric units thereon. Preferably, each of the monomeric units comprises a monomer (for example, a vinyl monomer) core group having at least one protein-resistant head group coupled thereto, to thereby form the brush molecule on the surface portion. Methods of using the articles are also described.06-06-2013
20100279896siRNA Targeting Interleukin-1 Receptor-Associated Kinase 4(IRAK4) - 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 IRAK4.11-04-2010
20110275541USE OF MULTIPLE RECOMBINATION SITES WITH UNIQUE SPECIFICITY IN COMBINATIONAL CLONING - The present invention provides compositions and methods for recombinational cloning. The compositions include vectors having multiple recombination sites with unique specificity. The methods permit the simultaneous cloning of two or more different nucleic acid molecules. In some embodiments the molecules are fused together while in other embodiments the molecules are inserted into distinct sites in a vector. The invention also generally provides for linking or joining through recombination a number of molecules and/or compounds (e.g., chemical compounds, drugs, proteins or peptides, lipids, nucleic acids, carbohydrates, etc.) which may be the same or different. Such molecules and/or compounds or combinations of such molecules and/or compounds can also be bound through recombination to various structures or supports according to the invention.11-10-2011
20120258889siRNA Targeting Kinase Insert Domain Receptor (KDR) - 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 KDR.10-11-2012
20120258888siRNA Targeting Proto-oncogene MET - 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.10-11-2012
20120258887CC2D2A GENE MUTATIONS ASSOCIATED WITH JOUBERT SYNDROME AND DIAGNOSTIC METHODS FOR IDENTIFYING THE SAME - The present invention provides a method of screening a subject for mutations in the CC2D2A gene that are associated with Joubert syndrome, an autosomal recessive form of mental retardation. The present invention also provides proteins that are associated with Joubert syndrome including proteins that includes an amino acid sequence that terminates in DHEGGSGMES (SEQ ID NO: 1). Also provided are nucleotide sequences encoding such proteins and methods of screening subjects to identify nucleotide sequences or proteins associated with Joubert syndrome.10-11-2012
20130157899REAGENTS AND METHODS RELATING TO DNA ASSAYS USING AMPLICON PROBES ON ENCODED PARTICLES - Encoded bead multiplex assays for chromosomal gains and losses are provided that provide the benefits of complex, large template DNA sources, such as BAC DNA, as the probe material without bead networking or other assay performance problems. Reagents for assaying DNA are described herein which include a plurality of encoded particles having attached amplicons amplified from a template DNA sequence. Each individual attached amplicon includes a nucleic acid sequence identical to a random portion of the template DNA sequence, wherein the amplicons together represent substantially the entire template DNA and wherein the nucleic acid sequence identical to a random portion of the template DNA sequence of each individual amplicon is shorter than the entire template DNA.06-20-2013
20120283142siRNA Targeting Amyloid Beta (A4) Precursor Protein (APP) - 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 APP.11-08-2012
20120283141ENZYME-CATALYZED METAL DEPOSITION FOR THE ENHANCED DETECTION OF ANALYTES OF INTEREST - The invention is directed to enhanced methods for detecting an analyte of interest in situ, by immunoassay, or by hybridization comprising binding an enzyme-labeled conjugate molecule to an analyte of interest in the presence of a redox-inactive reductive species and a soluble metal ion. The enzyme catalyzes the conversion of the inactive reductive species to an active reducing agent, which in turn reduces the metal ion to a metal atom thereby providing an enhanced means of detecting the analyte via metal deposition.11-08-2012
20120283140Microfluidic Devices and Methods for Gene Synthesis - Certain aspects of the present invention provide devices and methods for preparing oligonucleotides and for assembling nucleic acid molecules using microfluidic devices.11-08-2012
20120283139METHOD OF DESIGNING ADDRESSABLE ARRAY SUITABLE FOR DETECTION OF NUCLEIC ACID SEQUENCE DIFFERENCES USING LIGASE DETECTION REACTION - The present invention is directed to a method of designing a plurality of capture oligonucleotide probes for use on a support to which complementary oligonucleotide probes will hybridize with little mismatch, where the plural capture oligonucleotide probes have melting temperatures within a narrow range. The first step of the method involves providing a first set of a plurality of tetramers of four nucleotides linked together, where (1) each tetramer within the set differs from all other tetramers in the set by at least two nucleotide bases, (2) no two tetramers within a set are complementary to one another, (3) no tetramers within a set are palindromic or dinucleotide repeats, and (4) no tetramer within a set has one or less or three or more G or C nucleotides. Groups of 2 to 4 of the tetramers from the first set are linked together to form a collection of multimer units. From the collection of multimer units, all multimer units formed from the same tetramer and all multimer units having a melting temperature in ° C. of less than 4 times the number of tetramers forming a multimer unit are removed to form a modified collection of multimer units. The modified collection of multimer units is arranged in a list in order of melting temperature. The order of the modified collection of multimer units is randomized in 2° C. increments of melting temperature. Alternating multimer units in the list are then divided into first and second subcollections, each arranged in order of melting temperature. After the order of the second subcollection is inverted, the first collection is linked in order to the inverted second collection to form a collection of double multimer units. From the collection of double multimer units, those units (1) having a melting temperature in ° C. less than 11 times the number of tetramers and more than 15 times the number of tetramers, (2) double multimer units with the same 3 tetramers linked together, and (3) double multimer units with the same 4 tetramers linked together with or without interruption are removed, to form a modified collection of double multimer units. The modified collection of double multimers can be immobilized on a support and used to capture, by hybridization, the products of a ligation detection reaction. As a result, the output of a ligation detection reaction, which is useful in detecting single-base changes, insertions, deletions, or translocations in a plurality of target nucleotide sequences, can be formatted on a support.11-08-2012
20130157898PROBE, PROBE SET, PROBE CARRIER, AND TESTING METHOD - A probe, a set of probes, and a probe carrier on which the probe or the set of probes is immobilized, are provided for classification of fungus species. The probe or the set of probes is capable of collectively detecting fungus of the same species and distinguishingly detecting those fungus from fungus of other species. The probe is an oligonucleotide probe for detecting a pathogenic fungus DNA and includes at least one of base sequences of SEQ ID NOS. 1 to 4 and mutated sequences thereof.06-20-2013
20130184184Methods and/or Use of Oligonucleotide Conjugates Having Varied Degrees of Labeling for Assays and Detections - The present disclosure is directed to methods and/or uses of oligonucleotide conjugates having varied degrees of labeling for assays and detections and related systems and/or kits. Certain methods are directed to a method for detecting one or more biological targets of a sample in a detection assay, comprising: providing a molecular probe, comprising a binding moiety and an oligonucleotide sequence, to a sample comprising one or more biological targets; binding the one or more biological targets with the binding moiety; providing a detectable component to the sample, wherein the detectable component comprises a signal generating moiety conjugated to an oligonucleotide sequence complementary to the oligonucleotide sequence of the molecular probe; hydridizing the oligonucleotide sequence of the target-bound molecular probe to the detectable component; and detecting a signal generated from the hydridized detectable component. Various other embodiments, applications etc. are disclosed herein.07-18-2013
20130123145METHODS. PARTICLES, AND ASSAY KITS FOR IDENTIFYING PRESENCE OF BIOLOGICAL PARAMETERS - Multiplexed assays are disclosed for detection of duster differentiation 4 (CD4) glycoprotein expressed on the cell surface of I-helper cells, monocytes, macrophages, and dendritic cells; cluster differentiation 25 (CD25), a type transmembrane protein present on activated T-cells, activated B-cells, thymocytes, myeloid precursors, and oligodendrocytes; and Forkhead box P3 (FOXP3), an intracellular protein involved in immune system responses in cell cultures, tissues samples, humans, and biological samples. The multiplexed assays can be used to detect 1r-cells, activated I-cells, and other similar cell types (e.g. natural T regulatory cells, adaptive/induced T regulatory T cells). The multiplexed assays employ quantum dots of various shapes, types, compositions, coatings, sizes, ligands and other such characteristics.05-16-2013
20110312612LOC DEVICE FOR ELECTROCHEMILUMINESCENT DETECTION OF TARGET SEQUENCES WITH PROBES BETWEEN A WORKING ELECTRODE AND A PHOTOSENSOR - A lab-on-a-chip (LOC) device for detecting a target nucleic acid sequence in a sample, the LOC device having probes with a nucleic acid sequence complementary to the target nucleic acid sequence for forming probe-target hybrids, and an electrochemiluminescent (ECL) luminophore, and, electrodes for generating an excited state in the ECL luminophore in which the ECL luminophore emits photons of light, wherein, the electrodes are arranged in pairs, one of the electrodes in each electrode pair being a working electrode which causes oxidation or reduction of the luminophore to generate an excited species that emits a photon, the working electrode being positioned such that the probes are between the photosensor and the working electrode.12-22-2011
20110312611TEST MODULE WITH TRANSITION METAL-LIGAND COMPLEX FLUOROPHORE - A test module having an outer casing dimensioned for hand-held portability, the outer casing having an inlet for receiving a biological sample containing a target nucleic acid sequence, and, probes in the outer casing for hybridization with the target nucleic acid sequence to form probe-target hybrids, the probes each having a fluorophore such that the probe-target hybrids emit a fluorescence signal in response to exposure to an excitation light, wherein, the fluorophore is a transition metal-ligand complex.12-22-2011
20110312610TEST MODULE WITH LONG FLUORESCENCE LIFETIME PROBES - A test module having an outer casing dimensioned for hand-held portability, the outer casing having an inlet for receiving a biological sample containing a target nucleic acid sequence, and, probes in the outer casing for hybridization with the target nucleic acid sequence to form probe-target hybrids, the probes each having a fluorophore such that the probe-target hybrids emit a fluorescence signal in response to exposure to an excitation light, wherein, the fluorophore has a fluorescence lifetime greater than 100 nanoseconds.12-22-2011
20110312609TEST MODULE FOR ORIENTATION-INDEPENDENT OPERATION - A test module for analyzing genetic material in a biological sample, the test module having an outer casing with a receptacle for receiving the biological sample, functional sections for processing and analyzing the biological sample, a controller for operating the functional sections, and, a flow-path from the receptacle to the functional sections, wherein, the flow-path is configured to draw the sample to be analyzed from the receptacle to the functional sections by capillary action regardless of module orientation.12-22-2011
20110312608TEST MODULE WITH LOW-VOLUME HYBRIDIZATION CHAMBER AND LOW-VOLUME REAGENT RESERVOIR - A test module having an outer casing having an inlet for receiving a biological sample containing a target nucleic acid sequence, a reagent reservoir containing a reagent for addition to the biological sample, and, a hybridization chamber containing probes having a nucleic acid sequence for hybridization with the target nucleic acid sequence to form probe-target hybrids, wherein, the reagent reservoir has a volume less than 20,000,000 cubic microns and the hybridization chamber has a volume less than 9,000 cubic microns.12-22-2011
20110312607GENETIC ANALYSIS LOC WITH HYBRIDIZATION ARRAY WITH CALIBRATION PHOTOSENSOR OUTPUT SUBTRACTED IN A DIFFERENTIAL CIRCUIT FROM THE OUTPUT OF HYBRIDIZATION PHOTOSENSORS - A microfluidic device having a supporting substrate, an inlet for receiving a biological sample containing target nucleic acid sequences, probes that each have a nucleic acid sequence for hybridization with a respective one of the target nucleic acid sequences to form a probe-target hybrid and emit a fluorescence signal in response to an excitation light, and, photosensors corresponding to each of the probes respectively, and, a calibration photosensor not corresponding to any of the probes such that output from the calibration photosensor is subtracted in a differential circuit from each output from the photosensors.12-22-2011
20110312606LOC DEVICE WITH DIGITAL MEMORY - A lab-on-a-chip (LOC) device for analyzing a sample fluid, the LOC device having a supporting substrate, a sample inlet for receiving the sample, a microsystems technology (MST) layer with functional sections for processing and analyzing the sample, and, CMOS circuitry between the supporting substrate and the MST layer, the CMOS circuitry having digital memory for storing data and operational information to operatively control the functional sections during processing and analysis of the sample.12-22-2011
20110312605LOC DEVICE WITH INTEGRAL CONTROLLER - A lab-on-a-chip (LOC) device for analyzing a sample fluid, the LOC device having a supporting substrate, a sample inlet for receiving the sample, a microsystems technology (MST) layer with functional sections for processing and analyzing the sample, and, CMOS circuitry between the supporting substrate and the MST layer, the CMOS circuitry having a controller to control operations performed by the functional sections during processing and analysis of the sample.12-22-2011
20110312604LOC HAVING ON-CHIP ELECTRONICS FOR USE IN A TEST MODULE TO CONTROL MODULE COMMUNICATIONS - A lab-on-a-chip (LOC) device for installation in a test module for analyzing a sample fluid and communicating test results to an external device, the LOC device having a supporting substrate, a sample inlet for receiving the sample, a microsystems technology (MST) layer with functional sections for processing and analyzing the sample, and, CMOS circuitry on the supporting substrate for operative control of a communication interface in the test module for communication with the external device.12-22-2011
20110312603TEST MODULE WITH LOC HAVING ON-CHIP ELECTRONICS FOR MODULE CONTROL - A test module for analyzing a sample fluid, the test module having a receptacle for receiving the sample, functional sections for processing and analyzing the sample, a supporting substrate, and, CMOS circuitry on the supporting substrate for operative control of the functional sections during processing and analysis of the sample.12-22-2011
20110312602GENETIC ANALYSIS LOC WITH THERMAL BEND ACTUATED SURFACE TENSION VALVE - A lab-on-a-chip (LOC) device for genetic analysis having a supporting substrate, an array of probes for hybridization with target nucleic acid sequences to form probe-target hybrids, a channel for directing a flow of liquid containing the target nucleic acid sequences, the channel having an inlet, an outlet and a meniscus anchor between the inlet and the outlet such that the flow from the inlet towards the outlet stops at the meniscus anchor where the liquid forms a meniscus, and, an actuator valve with a movable member for contacting the liquid, and an actuator for displacing the movable member from a quiescent position to an actuated position where the meniscus is extended into contact with a surface downstream of the meniscus anchor such that the liquid flow towards the outlet resumes.12-22-2011
20110312601LOC DEVICE WITH DIGITAL MEMORY FOR SECURE STORAGE OF DATA - A lab-on-a-chip (LOC) device for analyzing a sample fluid, the LOC device having a sample inlet for receiving the sample, a microsystems technology (MST) layer with functional sections for processing and analyzing the sample, and, CMOS circuitry with digital memory for storing data and operational information to operatively control the functional sections during processing and analysis of the sample, wherein, the data is encrypted for secure communication with an external device.12-22-2011
20110312579LOC DEVICE WITH PARALLEL INCUBATION AND PARALLEL NUCLEIC ACID AMPLIFICATION FUNCTIONALITY - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample containing genetic material, a supporting substrate, a plurality of reagent reservoirs, a first incubation section, the first incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, a second incubation section, the second incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material in parallel with the first incubation section, a first nucleic acid amplification section downstream of the first incubation section for amplifying nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the second incubation section for amplifying nucleic acid sequences in the genetic material in parallel with the first nucleic acid amplification section, wherein, the first incubation section, the second incubation section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312578GENETIC ANALYSIS LOC FOR NON-SPECIFIC NUCLEIC ACID AMPLIFICATION PRIOR TO SPECIFIC AMPLIFICATION OF PARTICULAR SEQUENCES - A lab-on-a-chip (LOC) device for genetic analysis of a sample containing target nucleic acid sequences, the LOC device having a sample inlet for receiving the sample, a plurality of reagent reservoirs containing dNTP's, primers, polymerase and buffer solution for addition to the sample, and, a nucleic acid amplification section for thermal control of the sample to perform a first stage amplification of the target nucleic acid sequences and subsequent thermal control of amplicon from the first stage amplification, to perform a second stage amplification for further amplifying the target nucleic acid sequences.12-22-2011
20110312577TEST MODULE WITH LOW-VOLUME HYBRIDIZATION CHAMBERS AND REAGENT RESERVOIR FOR ELECTROCHEMILUMINESCENT DETECTION OF TARGET NUCLEIC ACID SEQUENCES - A test module for detecting target nucleic acid sequences in a fluid, the test module having an outer casing having an inlet for receiving the fluid containing the target nucleic acid sequences, a hybridization chamber mounted in the casing, the hybridization chamber containing electrochemiluminescent (ECL) probes for detecting the target nucleic acid sequences, each of the ECL probes having an ECL luminophore for emitting photons when in an excited state and a functional moiety for quenching photon emission from the ECL luminophore by resonant energy transfer, electrodes for receiving an electrical pulse to excite the ECL luminophores, and, a reagent reservoir containing a reagent for addition to the fluid prior to detection of the target nucleic acid sequences, wherein, the hybridization chamber has a volume less than 900,000 cubic microns, and, the reagent reservoir has a volume less than 1000,000,000 cubic microns.12-22-2011
20110312576GENETIC ANALYSIS LOC DEVICE FOR MULTI-STAGE AMPLIFICATION OF NUCLEIC ACID SEQUENCES - A lab-on-a-chip (LOC) device for genetic analysis of nucleic acid sequences in a sample, the LOC device having a sample inlet for receiving the sample, a first polymerase chain reaction (PCR) section for thermal cycling a first PCR mixture of dNTP's, primers, and buffer solution together with the sample and polymerase, to amplify the nucleic acid sequences, and, a second PCR section downstream of the first PCR section for thermally cycling a second PCR mixture of dNTPs, primers, and buffer solution together with polymerase, and at least some of the amplicon from the first PCR section.12-22-2011
20110312575GENETIC ANALYSIS LOC FOR NUCLEIC ACID AMPLIFICATION USING A NICKING ENZYME AND A DNA POLYMERASE - A lab-on-a-chip (LOC) device for genetic analysis of a sample containing target nucleic acid sequences, the LOC device having a sample inlet for receiving the sample, a plurality of reagent reservoirs containing dNTPs, primers, nicking enzymes, buffer solution and DNA polymerase for addition to the sample to form an amplification mixture, and, a nucleic acid amplification section for maintaining the amplification mixture at a predetermined temperature during isothermal amplification of the target nucleic acid sequences.12-22-2011
20110312574LOC DEVICE FOR PATHOGEN DETECTION, GENETIC ANALYSIS AND PROTEOMIC ANALYSIS WITH DIALYSIS, CHEMICAL LYSIS, INCUBATION AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for pathogen detection, genetic analysis and proteomic analysis of a biological sample, using a leukocyte dialysis section for separating out a leukocyte stream, a pathogen dialysis section for separating out a pathogen stream. A leukocyte lysis section lyses the leukocytes and a leukocyte incubation section allows enzymatic reaction of the genetic material with enzymes. A pathogen lysis section lyses the pathogens and, a pathogen incubation section allows enzymatic reaction of the genetic material with enzymes. An erythrocyte lysis section lyses the erythrocytes. First and second leukocyte nucleic acid amplification sections amplify nucleic acid sequences in parallel. First and second pathogen nucleic acid amplification sections amplify nucleic acid sequences in parallel.12-22-2011
20110312573LOC DEVICE FOR PATHOGEN DETECTION AND GENETIC ANALYSIS WITH CHEMICAL LYSIS, INCUBATION AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for pathogen detection and genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a plurality of reagent reservoirs, a lysis section for lysing pathogens and leukocytes in the sample to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the pathogens and leukocytes in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, a first nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences in the genetic material in a first portion of the sample flow from the incubation section, and, a second nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences in the genetic material in a second portion of the sample flow from the incubation section, wherein, the lysis section, the incubation section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312572LOC DEVICE FOR PATHOGEN DETECTION AND GENETIC ANALYSIS WITH CHEMICAL LYSIS, INCUBATION AND NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for pathogen detection and genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a plurality of reagent reservoirs, a lysis section for lysing pathogens and leukocytes in the sample to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the pathogens and leukocytes in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, and, a nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences from the genetic material, wherein, the lysis section, the incubation section and the nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312571LOC DEVICE FOR GENETIC ANALYSIS WITH DIALYSIS, CHEMICAL LYSIS AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating cells larger than a predetermined threshold in the sample from smaller constituents, whereby the cells larger than a predetermined threshold include target cells containing genetic material for analysis, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing cells to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the target cells in the lysis section, a first nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in parallel with the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312570MICROFLUIDIC DEVICE FOR DETECTING TARGET NUCLEIC ACID SEQUENCES WITH PROBES HAVING LONG FLUORESCENCE LIFETIME FLUOROPHORES - A microfluidic device for detecting a target nucleic acid sequence, the microfluidic device having a probe for hybridization with the target nucleic acid sequence to form a probe-target hybrid, the probe having a fluorophore for generating fluorescence emissions in response to an excitation light, a photodiode for detecting the fluorescence emissions, and, CMOS circuitry activating the photodiode, wherein, the fluorophore has a fluorescence lifetime longer than 100 nanoseconds.12-22-2011
20110312569MICROFLUIDIC DEVICE WITH SMALL CROSS SECTIONAL AREA MICROCHANNEL - A microfluidic device having a sample inlet for receiving a sample of biological material having nucleic acid sequences, a polymerase chain reaction (PCR) section with a PCR microchannel for thermally cycling the sample to amplify the nucleic acid sequences, the PCR microchannel defining a flow-path for the sample such that flow of the sample along the PCR microchannel is driven by capillary action, and, the PCR microchannel has a cross sectional area transverse to the flow less than 100,000 square microns.12-22-2011
20110312568LOC DEVICE FOR GENETIC ANALYSIS WITH DIALYSIS, CHEMICAL LYSIS, INCUBATION AND TANDEM NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating cells larger than a predetermined threshold in the sample from smaller constituents, whereby the cells larger than a predetermined threshold include target cells containing genetic material for analysis, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing the target cells to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the target cells in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, a first nucleic acid amplification section downstream of the incubation section for amplifying first nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the first nucleic acid amplification section for amplifying second nucleic acid sequences in the amplicon from the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the incubation section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312567LOC DEVICE FOR ELECTROCHEMILUMINESCENT DETECTION OF TARGET NUCLEIC ACID SEQUENCES USING HYBRIDIZATION CHAMBER ARRAY AND NEGATIVE CONTROL CHAMBER WITHOUT PROBES - A lab-on-a-chip (LOC) device for detecting target nucleic acid sequences in a fluid, the LOC device having electrochemiluminescent (ECL) probes for detecting the target nucleic acid sequences, each of the probes having an ECL luminophore for emitting photons when in an excited state, a functional moiety for quenching photon emission from the ECL luminophore by resonant energy transfer, electrodes for receiving an electrical pulse to excite the ECL luminophores, hybridization chambers containing the probes for detection of the targets, and a pair of the electrodes, and, at least one negative control chamber without the ECL probes.12-22-2011
20110312566LOC DEVICE FOR GENETIC ANALYSIS WITH DIALYSIS, CHEMICAL LYSIS, INCUBATION AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating cells larger than a predetermined threshold in the sample from smaller constituents, whereby the cells larger than a predetermined threshold include target cells containing genetic material for analysis, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing the target cells to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the target cells in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, a first nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences in the genetic material in parallel with the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the incubation section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312565LOC DEVICE FOR DETECTING TARGET NUCLEIC ACID SEQUENCES USING HYBRIDIZATION CHAMBER ARRAY AND NEGATIVE CONTROL CHAMBER CONTAINING PROBES WITHOUT ELECTROCHEMILUMINESCENT REPORTER - A lab-on-a-chip (LOC) device for detecting target nucleic acid sequences in a fluid, the LOC device having electrochemiluminescent (ECL) probes for detecting the target nucleic acid sequences, each of the probes having an ECL luminophore for emitting photons when in an excited state, a functional moiety for quenching photon emission from the ECL luminophore by resonant energy transfer, electrodes for receiving an electrical pulse to excite the ECL luminophores, hybridization chambers containing the probes for detection of the targets, and a pair of the electrodes, and, at least one negative control chamber containing negative control probes without an ECL luminophore.12-22-2011
20110312564LOC DEVICE FOR GENETIC ANALYSIS WITH DIALYSIS, CHEMICAL LYSIS, INCUBATION AND NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating cells larger than a predetermined threshold in the sample from smaller constituents, whereby the cells larger than a predetermined threshold include target cells containing genetic material for analysis, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing the target cells to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the target cells in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, and, a nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences from the genetic material, wherein, the dialysis section, the lysis section, the incubation section and the nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312563LOC DEVICE FOR DETECTING TARGET NUCLEIC ACID SEQUENCES IN A FLUID USING HYBRIDIZATION CHAMBER ARRAY AND NEGATIVE CONTROL CHAMBER CONTAINING ELECTROCHEMILUMINESCENT PROBE DESIGNED TO BE NON-COMPLEMENTARY TO ANY SEQUENCE IN THE FLUID - A lab-on-a-chip (LOC) device for detecting target nucleic acid sequences in a fluid, the LOC device having electrochemiluminescent (ECL) probes for detecting the target nucleic acid sequences, each of the probes having an ECL luminophore for emitting photons when in an excited state, a functional moiety for quenching photon emission from the ECL luminophore by resonant energy transfer, electrodes for receiving an electrical pulse to excite the ECL luminophores, hybridization chambers containing the probes for detection of the targets, and a pair of the electrodes, and, at least one negative control chamber containing negative control probes that are incapable of hybridization with any nucleic acid sequences in the fluid.12-22-2011
20110312562LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, CHEMICAL LYSIS AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the cells in the lysis section, a first nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a first portion of the sample flow from the lysis section, and, a second nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a second portion of the sample flow from the lysis section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312561MICROFLUIDIC DEVICE WITH PHOTODIODES WITH CONTROLLABLE SHUNTS TO DETECT FLUORESCING HYBRIDIZED PROBES - A microfluidic device for detecting a target nucleic acid sequence, the microfluidic device having a probe for hybridization with the target nucleic acid sequence to form a probe-target hybrid, the probe having a fluorophore for generating fluorescence emissions in response to an excitation light, a photodiode for detecting the fluorescence emissions, a shunt transistor between the photodiode and a voltage source, and, CMOS circuitry for controlling the shunt transistor to remove carriers generated by absorption of photons of the excitation light in the photodiode.12-22-2011
20110312560LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, THERMAL LYSIS AND TANDEM NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, the lysis section having a lysis chamber and a heater for lysing the pathogens while the sample is in the lysis chamber, a first nucleic acid amplification section downstream of the lysis section for amplifying first nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the first nucleic acid amplification section for amplifying second nucleic acid sequences in the amplicon from the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312559LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, THERMAL LYSIS AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, the lysis section having a lysis chamber and a heater for lysing the pathogens while the sample is in the lysis chamber, a first nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a first portion of the sample flow from the lysis section, and, a second nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a second portion of the sample flow from the lysis section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312558LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, LYSIS AND TANDEM NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, a first nucleic acid amplification section downstream of the lysis section for amplifying first nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the first nucleic acid amplification section for amplifying second nucleic acid sequences in the amplicon from the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312557LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, LYSIS AND PARALLEL NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, a first nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a first portion of the sample flow from the lysis section, and, a second nucleic acid amplification section downstream of the lysis section for amplifying nucleic acid sequences in the genetic material in a second portion of the sample flow from the lysis section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312556MICROFLUIDIC DEVICE WITH TRIGGER PHOTODIODE IN EACH HYBRIDIZATION CHAMBER - A microfluidic device having a supporting substrate, a hybridization chamber containing a probe having a nucleic acid sequence for hybridization with a target nucleic acid sequence to form a probe-target hybrid, the probe-target hybrid being configured to generate a fluorescence signal in response to an excitation light, and, CMOS circuitry between the supporting substrate and the hybridization chamber, the CMOS circuitry having a photodiode for generating an output signal in response to the fluorescence signal, and a trigger photodiode for generating an output in response to the excitation light, wherein, the CMOS circuitry is configured to activate the photodiode when the trigger photodiode indicates the excitation light has deactivated.12-22-2011
20110312555LOC DEVICE FOR DETECTING HYBRIDIZATION OF TARGET NUCLEIC ACID SEQUENCES WITH ELECTROCHEMILUMINESCENT RESONANT ENERGY TRANSFER, PRIMER-LINKED, STEM-AND-LOOP PROBES - A lab-on-a-chip (LOC) device for detecting hybridization of target nucleic acid sequences, the LOC device having electrochemiluminescent (ECL), resonant energy transfer, primer-linked, stem-and-loop probes for hybridization with the target nucleic acid sequences to form probe-target hybrids, each of the probes having a loop portion containing the target nucleic acid sequence, a primer for extension along the target nucleic acid sequence to form a nucleic acid sequence complementary to the target, an ECL luminophore for emitting photons when in an excited state, and a functional moiety for quenching photon emission from the ECL luminophore by resonant energy transfer, and, electrodes for receiving an electrical pulse to excite the ECL luminophores, wherein during use, forming the complementary nucleic acid sequence causes the loop portion to open such the target nucleic acid sequence therein hybridizes to the complementary nucleic acid sequence and the ECL luminophore is moved away from the functional moiety.12-22-2011
20110312554MICROFLUIDIC DEVICE WITH DIALYSIS DEVICE, LOC AND INTERCONNECTING CAP - A microfluidic device for processing a sample fluid containing target molecules, the microfluidic device having a dialysis device for receiving the sample and concentrating the target molecules in a portion of the sample, a lab-on-a-chip (LOC) for analyzing the target molecules, and, a cap overlaying the LOC and the dialysis device for establishing fluid communication between the LOC and the dialysis device.12-22-2011
20110312553MICROFLUIDIC DEVICE WITH NON-IMAGING OPTICS FOR ELECTROCHEMILUMINESCENT DETECTION OF TARGETS - A microfluidic device for detecting target molecules in a fluid, the microfluidic device having an array of chambers containing electrochemiluminescent (ECL) probes for reaction with the target molecules to form a probe-target complexes, electrodes positioned in each of the chambers for receiving an electrical pulse, the probe-target complexes being configured to emit a photon of light when excited by current between the electrodes, and, a photosensor for detecting the light emitted by the probes, wherein, the photosensor is less than 1600 microns from the probes.12-22-2011
20110312552MICROFLUIDIC DEVICE WITH CONDUCTIVITY SENSOR - A microfluidic device for processing a fluid, the microfluidic device having an inlet for receiving the fluid, functional sections for processing the fluid, a flow-path extending from the inlet into at least some of the functional sections, CMOS circuitry for operative control of the functional sections, and, a conductivity sensor with a first terminal and a second terminal spaced apart along the flow-path, and a first electrode and a second electrode positioned between the first terminal and the second terminal and spaced apart along the flow-path, wherein, the CMOS circuitry is configured to generate a current between the first terminal and the second terminal, and measure a voltage across the first electrode and the second electrode such that conductivity of the fluid in the flow-path is derived from the current and the measured voltage.12-22-2011
20110312551LOC DEVICE FOR GENETIC ANALYSIS WHICH PERFORMS NUCLEIC ACID AMPLIFICATION BEFORE REMOVING NON-NUCLEIC ACID CONSTITUENTS IN A DIALYSIS SECTION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a plurality of reagent reservoirs, a nucleic acid amplification section downstream of the incubation section for amplifying nucleic acid sequences in the sample, and, a dialysis section downstream of the nucleic acid amplification section for prehybridization filtration of amplicon produced by the nucleic acid amplification section, the dialysis section being configured to remove cell debris from the amplicon, wherein, the nucleic acid amplification section and the dialysis section are both supported on the supporting substrate.12-22-2011
20110312550LOC DEVICE FOR GENETIC ANALYSIS WHICH PERFORMS NUCLEIC ACID AMPLIFICATION AFTER SAMPLE PREPARATION IN A DIALYSIS SECTION - A lab-on-a-chip (LOC) device for genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating small constituents from larger constituents in the sample, a plurality of reagent reservoirs, a nucleic acid amplification section downstream of the dialysis section for amplifying nucleic acid sequences in the sample, wherein, the dialysis section and the nucleic acid amplification section are both supported on the supporting substrate.12-22-2011
20110312549MICROFLUIDIC DEVICE WITH MULTI-LAYER DIALYSIS SECTION - A microfluidic device for dialysis of a fluid sample, the microfluidic device having a first layer of material defining a first channel and a second channel, the first channel configured for receiving the sample which contains constituents of different sizes, a second layer having a plurality of apertures open to the first channel and at least one fluid connection leading from the apertures to the second channel for establishing fluid communication between the first channel and the second channel, wherein, the apertures are sized in accordance with a predetermined size threshold such that the constituents flowing to the second channel are smaller constituents that are smaller than the predetermined size threshold, and the constituents retained in the first channel include larger constituents which are larger than the predetermined size threshold.12-22-2011
20110312548TEST MODULE WITH DIFFUSIVE MIXING IN SMALL CROSS SECTIONAL AREA MICROCHANNEL - A test module for analysis of genetic material in a biological sample, the test module having an outer casing with an inlet for receiving the sample, a diffusion mixing section for diffusive mixing of the sample with at least one other liquid, the diffusion mixing section having a microchannel defining a flow-path for a combined flow of the sample and the at least one other liquid, wherein, the channel cross section transverse to the flow direction is less than 100,000 square microns.12-22-2011
20110312547MICROFLUIDIC DEVICE WITH REAGENT MIXING PROPORTIONS DETERMINED BY NUMBER OF ACTIVE OUTLET VALVES - A microfluidic device for testing a fluid, the microfluidic device having an inlet for receiving the fluid, a reservoir containing a reagent, a flow-path extending from the inlet, a plurality of outlet valves for fluid communication between the flow-path and the reservoir, each of the outlet valves having an actuator for opening the outlet valve in response to an activation signal, wherein during use, a number of the outlet valves are selectively opened such that the reagent flows into the flow-path to combine with the fluid from the inlet to produce a combined flow having a proportion of the reagent, the proportion of the reagent in the combined flow being determined by the number of the outlet valves opened.12-22-2011
20110312546LOC DEVICE FOR PATHOGEN DETECTION AND GENETIC ANALYSIS WITH CHEMICAL LYSIS, INCUBATION AND TANDEM NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for pathogen detection and genetic analysis of a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a plurality of reagent reservoirs, a lysis section for lysing pathogens and leukocytes in the sample to release the genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the pathogens and leukocytes in the lysis section, an incubation section downstream of the lysis section, the incubation section being in fluid communication with one of the reagent reservoirs containing enzymes for enzymatic reaction with the genetic material, a first nucleic acid amplification section downstream of the incubation section for amplifying first nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the first nucleic acid amplification section for amplifying second nucleic acid sequences in the amplicon from the first nucleic acid amplification section, wherein, the lysis section, the incubation section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110312545LOC DEVICE FOR PATHOGEN DETECTION WITH DIALYSIS, CHEMICAL LYSIS AND TANDEM NUCLEIC ACID AMPLIFICATION - A lab-on-a-chip (LOC) device for detecting pathogens in a biological sample, the LOC device having an inlet for receiving the sample, a supporting substrate, a dialysis section for separating pathogens from larger constituents in the sample, a plurality of reagent reservoirs, a lysis section downstream of the dialysis section for lysing the pathogens to release genetic material therein, the lysis section being in fluid communication with one of the reagent reservoirs containing a lysis reagent for lysing the cells in the lysis section, a first nucleic acid amplification section downstream of the lysis section for amplifying first nucleic acid sequences in the genetic material, and, a second nucleic acid amplification section downstream of the first nucleic acid amplification section for amplifying second nucleic acid sequences in the amplicon from the first nucleic acid amplification section, wherein, the dialysis section, the lysis section, the first nucleic acid amplification section and the second nucleic acid amplification section are all supported on the supporting substrate.12-22-2011
20110319296siRNA targeting histamine receptor H1 - 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.12-29-2011
20120028842GENETIC ANALYSIS LOC WITH HYBRIDIZATION ARRAY WITH POSITIVE CONTROL CHAMBERS INCORPORATING PROBES THAT HYBRIDIZE FOR ANY AMPLICON - A microfluidic device having a supporting substrate, an inlet for receiving a biological sample containing a target nucleic acid sequence, and, an array of probes each having a nucleic acid sequence for hybridization with the target nucleic acid sequence to form a probe-target hybrid, wherein, the array of probes includes a control probe for hybridization with a target sequence known to be always present in the biological sample.02-02-2012
20130196880PATTERNED DEVICES AND METHODS FOR DETECTING ANALYTES - Disclosed herein are devices for the detection of target molecules and methods for their use and production. The disclosed devices may include optically decipherable patterns that facilitate an understanding of binding events between a target molecule and a detection molecule. In one example, a device includes a macroscopic pattern constructed using microscopic elements that can be chromogenically developed to memorialize a binding event. In another example, a device includes characters that can be chromogenically developed using an automated slide staining instrument to memorialize a binding event.08-01-2013
20130203631FRAMELESS MULTIPLEXED MICROARRAYS - The present invention relates to novel methods for the quantitative detection of molecules in an array. In particular, the present invention relates to methods and apparatuses for producing a frameless array. In another embodiment, the present invention relates to a composition comprising nitrocellulose that is useful of producing a frameless array. In another embodiment, the present invention relates to a method for detecting a molecular interaction. In yet another embodiment, the present invention relates to kits useful for practicing the methods and apparatuses of the present invention. The present invention provides improved methods and apparatuses for the high throughput analysis of molecular interactions and quantitative detection.08-08-2013
20130203632DETECTION OF NUCLEIC ACIDS BY TARGET-SPECIFIC HYBRID CAPTURE METHOD - Target-specific hybrid capture (TSHC) provides a nucleic acid detection method that is not only rapid and sensitive, but is also highly specific and capable of discriminating highly homologous nucleic acid target sequences. The method produces DNA:RNA hybrids which can be detected by a variety of methods.08-08-2013
20120071356Variants in Complement Regulatory Genes Predict Age-Related Macular Degeneration - Methods for identifying a subject at risk for developing AMD are disclosed, as are kits which can be used to practice the methods. The methods include identifying specific protective or risk polymorphisms or genotypes from the subject's genetic material, including polymorphisms in the BF, C2 and/or CFH genes. Microarrays and kits for use in these methods are also provided.03-22-2012
20090203547Gene and Cognate Protein Profiles and Methods to Determine Connective Tissue Markers in Normal and Pathologic Conditions - Differences in gene expression between connective tissue cells (e.g., tendon cells) and other closely related cell types are disclosed. Also disclosed are expression profiles between tendon cells under different genetic and environmental influences. The presently disclosed expression profiles are useful as diagnostic markers as well as markers that can be used to monitor disease states, disease progression, injury repair, drug toxicity, drug efficacy, and drug metabolism.08-13-2009
20120094872SILANE MIXTURES - Silanation compositions containing a mixture of two or more silanation reagents, where at least one silanation reagent includes a functional group capable of supporting polymer synthesis and at least one silanation reagent includes no functional group capable of supporting polymer synthesis are useful in modulating the active site density and hydrolytic stability of a surface. These compositions are particularly useful in silanating a surface prior to preparation of a polymer array and provide for increased hybridization results.04-19-2012
20120094871Particle Population and Methods of Making and Using - 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.04-19-2012
20130210675COMPOSITIONS AND METHODS FOR CONTROLLED RELEASE OF BIOMOLECULES - Provided are compositions for controlled release of biomolecules, which comprise conjugates of polymers and biomolecules conjugated through non-covalent interactions. Also provided are methods for controlled release of biomolecules and their use in biochips.08-15-2013
20130210676siRNA Targeting Myeloid Differentiation Primary Response Gene (88) (MYD88) - 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 MYD88.08-15-2013

Patent applications in class Nucleotides or polynucleotides, or derivatives thereof

Patent applications in all subclasses Nucleotides or polynucleotides, or derivatives thereof