Applera Corporation Patent applications |
Patent application number | Title | Published |
20120190714 | ALPHA KETOAMIDE COMPOUNDS AS CYSTEINE PROTEASE INHIBITORS - The present invention is directed to compounds that are inhibitors of cysteine proteases, in particular, cathepsins B, K, L, F, and S and are therefore useful in treating diseases mediated by these proteases. The present invention is directed to pharmaceutical compositions comprising these compounds and processes for preparing them. | 07-26-2012 |
20120122104 | Triple-Stranded Nucleobase Structures and Uses Thereof - The present disclosure relates to compositions and methods of using triplex structures generated by a duplex of a polypurine tract and complementary polypyrimidine tract and a triplex-forming nucleobase polymer that hydrogen bonds to both the purine and pyrimidine bases of the polypurine-polypyrimidine duplex. | 05-17-2012 |
20110315870 | SYSTEMS AND METHODS FOR ANALYZING SUBSTANCES USING A MASS SPECTROMETER - Systems and methods for analyzing compounds in a sample. In one embodiment, the present technology is directed towards a method of analyzing a sample, comprising: emitting ions from the sample; selectively filtering the emitted ions for at least one designated trigger ion; fragmenting the designated trigger ions; scanning for a designated trigger ion fragment; and upon detecting the designated trigger ion fragment, scanning for at least one confirmatory ion fragment. | 12-29-2011 |
20110206667 | POLYMORPHISM IN THE APO(A) GENE PREDICT RESPONSIVENESS TO ACETYLSALICYLIC ACID TREATMENT - This invention relates to nucleotide polymorphisms in the human Apo(a) gene and to the use of Apo(a) nucleotide polymorphisms in identifying whether a human subject will respond or not to treatment with acetylsalicylic acid. | 08-25-2011 |
20110045516 | Kits Pertaining to Analyte Determination - This invention pertains to methods, kits and/or compositions for the determination of analytes by mass analysis using unique labeling reagents or sets of unique labeling reagents. The labeling reagents can be isomeric or isobaric and can be used to produce mixtures suitable for multiplex analysis of the labeled analytes. | 02-24-2011 |
20110028685 | Analyte Determination Utilizing Mass Tagging Reagents Comprising A Non-Encoded Detectable Label - This invention pertains to methods, mixtures, kits and compositions pertaining to analyte determination and/or quantification by mass spectrometry using compounds comprising a reporter moiety and a non-encoded detectable label. The compounds can be used in sets for the analysis of mixtures of labeled analytes. | 02-03-2011 |
20110003281 | Device and method for multiple analyte detection - The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more of a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device. | 01-06-2011 |
20100291548 | Methods of Detecting Target Nucleic Acids - The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore. | 11-18-2010 |
20100280246 | ENERGY TRANSFER DYES WITH ENHANCED FLUORESCENCE - Novel linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye are provided. These linkers facilitate the efficient transfer of energy between a donor and acceptor dye in an energy transfer dye. One of these linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye has the general structure R | 11-04-2010 |
20100261158 | Method and System for Multiplex Genetic Analysis - The present disclosure provides apparatus, systems and method for detecting separately and substantially simultaneously light emissions from a plurality of localized light-emitting analytes. A system according to exemplary embodiments of the present disclosure comprises a sample holder having structures formed thereon for spatially separating and constraining a plurality of light-emitting analytes each having a single nucleic acid molecule or a single nucleic acid polymerizing enzyme, a light source configured to illuminate the sample holder, an optical assembly configured to collect and detect separately and substantially simultaneously light emissions associated with the plurality of light emitting analytes. The system may further include a computer system configured to analyze the light emissions to determine the structures or properties of a target nucleic acid molecule associated with each analyte. | 10-14-2010 |
20100237236 | Method Of Processing Multiple Precursor Ions In A Tandem Mass Spectrometer - A method of processing multiple precursor ions in a tandem mass spectrometer includes generating a plurality of precursor ions with an ion source. At least some of the plurality of precursor ions is trapped in an ion trap. At least two precursor ions of interest are isolated from the plurality of precursor ions with a filtered noise field. Precursor ions of interest are sequentially ejected toward a collision cell. The sequentially ejected precursor ions of interest are fragmented in a collision cell. The mass-to-charge ratio spectra of the fragmented ions are then determined with a mass spectrometer. | 09-23-2010 |
20090325158 | 5-Bromo-2'-Deoxy-Uridine Labeled Nucleotide Triphosphates and Nucleic Acid Probes and Methods of Making and Using the Same - 5-bromo-2′-deoxy-uridine (BrdU) labeled nucleotide triphosphates and nucleic acid probes are described herein. The BrdU labeled nucleotide triphosphates include a linker between the nucleotide triphosphate and the BrdU moiety. The linker can be cleavable or non-cleavable. The nucleotide triphosphates can be a ribonucleotide triphosphates, 2′-deoxyribonucleotide triphosphates or 2′,3′-dideoxyribonucleotide triphosphates. The nucleic acid probes can be used for in situ hybridization. | 12-31-2009 |
20090321264 | Concentration and purification of analytes using electric fields - Embodiments of a device and method are described which provide for concentration and purification of analytes, e.g., polynucleotides, in channel devices using AC and DC electric fields. | 12-31-2009 |
20090312410 | Genetic polymorphisms associated with coronary heart disease, methods of detection and uses thereof - The present invention is based on the discovery of genetic polymorphisms that are associated with coronary heart disease, specifically MI and including early-onset MI, and response to drug treatment. In particular, the present invention relates to nucleic acid molecules containing the polymorphisms, variant proteins encoded by such nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and proteins, and methods of using the nucleic acid and proteins as well as methods of using reagents for their detection. | 12-17-2009 |
20090305238 | Microarray Microcard - A fluid processing device is provided that comprises a substrate including a surface and a fluid processing pathway at least partially formed in or on the surface. The fluid processing pathway can comprise a channel, a reaction region in fluid communication with the channel, a microarray in fluid communication with the channel, and optionally a deformable valve. The microarray can comprise binding and/or detection sites, and each site can comprise a binding moiety. A method and a system using the fluid processing device, are also provided. | 12-10-2009 |
20090264635 | METHODS AND COMPOSITIONS FOR DEPLETING ABUNDANT RNA TRANSCRIPTS - The present invention concerns a system for isolating, depleting, and/or preventing the amplification of a targeted nucleic acid, such as mRNA or rRNA, from a sample comprising targeted and nontargeted nucleic acids. | 10-22-2009 |
20090259438 | RELATIVE NOISE - Relative noise is a single scalar value that is used to predict the maximum value of the expected noise at any point and is calculated from the measured signal and a mathematical noise model. The mathematical noise model is selected or estimated from an observation that includes statistical and/or numerical modeling based on a population of measurement points. An absolute noise for a plurality of points of the measured signal is estimated. An array of values is calculated by dividing each of a plurality of points of the absolute noise by a corresponding expected noise value calculated from the mathematical noise model. The relative noise is calculated by taking a standard deviation of a plurality of points of the array. The relative noise can be used to calculate scaled background signal noise, filter regions, denoise data, detect false positives from features, calculate S/N, and determine a stop condition for acquiring data. | 10-15-2009 |
20090258003 | Genetic polymorphisms associated with venous thrombosis, methods of detection and uses thereof - The present invention is based on the discovery of genetic polymorphisms that are associated with coronary heart disease and in particular VT and response to drug treatment. In particular, the present invention relates to nucleic acid molecules containing the polymorphisms, variant proteins encoded by such nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and proteins, and methods of using the nucleic acid and proteins as well as methods of using reagents for their detection. | 10-15-2009 |
20090256073 | Chemical Noise Reduction For Mass Spectrometry - In various aspects, the present teachings provide systems and methods for reducing chemical noise in a mass spectrometry instrument that use a neutral chemical reagent and one or more mass filters to reduce interfering chemical background ion signals that are generated by ionization sources of mass spectrometers. In various embodiments, the neutral chemical reagent belongs to the class of organic chemical species containing a disulfide functionality. | 10-15-2009 |
20090242751 | Power Supply Regulation Using A Feedback Circuit Comprising An AC And DC Component - In various aspects, ion sources, mass spectrometer systems, and a power supply circuit coupled to a feedback circuit are provided. A power supply is provided that includes at least the power supply circuit and is operable to transfer charge to a load. The feedback circuit is responsive to a DC component of an output voltage supplied by the power supply in a first feedback loop and an AC component of the output voltage in a second feedback loop to produce a feedback signal representative of at least one of: a value of the output voltage before a charge transfer from a capacitor of the power supply to a load; the value of the output voltage during the charge transfer from the capacitor of the power supply to the load; or the value of the output voltage after the charge transfer from the capacitor of the power supply to the load. | 10-01-2009 |
20090239290 | SINGLE-TUBE, READY-TO-USE ASSAY KITS, AND METHODS USING SAME - An assay kit is provided that includes assay reagents stored in a single-tube container, and a data storage medium containing information about the contents of the container. Methods are provided for using the data provided with the kit to direct instruments and/or processes, for example, to control an instrument to perform amplification and/or sequencing reactions. | 09-24-2009 |
20090239233 | SINGLE-TUBE, READY-TO-USE ASSAY KITS, AND METHODS USING SAME - An assay kit is provided that includes assay reagents stored in a single-tube container, and a data storage medium containing information about the contents of the container. Methods are provided for using the data provided with the kit to direct instruments and/or processes, for example, to control an instrument to perform amplification and/or sequencing reactions. | 09-24-2009 |
20090236513 | SYSTEMS AND METHODS FOR ANALYZING SUBSTANCES USING A MASS SPECTROMETER - Systems and methods for analyzing compounds in a sample. In one embodiment, the present technology is directed towards a method of analyzing a sample, comprising: emitting ions from the sample; selectively filtering the emitted ions for at least one designated trigger ion; fragmenting the designated trigger ions; scanning for a designated trigger ion fragment; and upon detecting the designated trigger ion fragment, scanning for at least one confirmatory ion fragment. | 09-24-2009 |
20090196873 | Methods and compositions for treating diseases targeting CDCP1 - Methods and compositions for detecting and treating a disease, particularly cancer, associated with differential expression of CDCP1 in disease cells compared to healthy cells. Also provided are antagonists or agonists of CDCP1, and methods for screening agents that modulate the CDCP1 level or activity in vivo or in vitro. | 08-06-2009 |
20090186779 | DIAMOND-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 |
20090176661 | WHOLE 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. | 07-09-2009 |
20090163381 | Methods, 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 |
20090142761 | METHODS AND KITS FOR METHYLATION DETECTION - Ligation-based methods and kits are disclosed for determining the degree of methylation of one or more target nucleotides. In certain embodiments, the methylation status of one or more target nucleotides is determined by generating misligation products. In certain embodiments, at least one target nucleotide is amplified prior to the ligation reaction. In certain embodiments, at least one ligation product, at least one ligation product surrogate, at least one misligation product, at least one misligation product surrogate, or combinations thereof are amplified. In certain embodiments, one or more ligation probes comprise at least one nucleotide analog, at least one Modification, at least one mismatched nucleotide, or combinations thereof. | 06-04-2009 |
20090140138 | Linear FAIMS Power Supply - In various embodiments the present teachings provide high-voltage, asymmetric-waveform power supplies useful for, e.g., differential mobility spectrometry. In various embodiments, provided are high-voltage, asymmetric-waveform power supplies for high-field asymmetric waveform ion mass spectrometers having field values greater than about 5,000 volts cm | 06-04-2009 |
20090135421 | System for detecting markers - An apparatus for detecting labeled beads is provided. The apparatus can include: one or more irradiation sources disposed for irradiating the one or more detection zones with radiation; at least one detector disposed for collecting charges corresponding to light signals emitted from labeled beads in the one or more detection zones, which have been excited by the radiation; and a system coupled to the at least one detector for effecting time delay integration of the charges by accumulating the charges before reading the charges at the output of the at least one detector. | 05-28-2009 |
20090130666 | Cytometric system including nucleic acid sequence amplification, and method - The invention relates to a cytometric system that can include a first station capable of selectively sorting a nucleic acid sequence-containing biological material from a biological sample, and a second station where nucleic acid of the sorted nucleic acid sequence-containing biological material, can undergo a nucleic acid amplification reaction. The system can include a conduit system adapted to facilitate transfer of a sorted biological material or processed biological material from one region or station, to another. All of the stations can be controlled by a central control system. Methods of sorting a biological material from a biological sample, and methods of amplifying nucleic acid of a sorted nucleic acid sequence-containing material, are also provided. | 05-21-2009 |
20090121126 | HIGH RESOLUTION EXCITATION/ISOLATION OF IONS IN A LOW PRESSURE LINEAR ION TRAP - Methods for improved separation of ions from an ion trap employing a combination of low pressure and low amplitude ion excitation, including methods for removing, from an ion trap ion population, ions having a m/z value neighboring that of an ion of interest, mass spectrometry methods providing improved resolution of ion detection, and programmable apparatus programmed with instructions therefor. | 05-14-2009 |
20090114804 | System and Methods for Improving Signal/Noise Ratio for Signal Detectors - A method and system for characterizing and quantifying various error and calibration components of signals associated with photo-detectors. By varying the detector operational parameters such as input light intensity and integration times, measured signals can be analyzed to separate out and quantify various components of the measured signals. The various components thus determined may be categorized according to their dependencies on the operational parameters. Such component characterization allows better understanding of the detector system and ways in which such system can be improved so as to yield an improved measurement result for which the detector is being utilized. | 05-07-2009 |
20090108196 | ION OPTICS SYSTEMS - In various embodiments, provided are ion optics systems comprising an even number of ion mirrors arranged in pairs such that a trajectory of an ion exiting the ion optics system can be provided that intersects a surface substantially parallel to an image focal surface of the ion optics system at a position that is substantially independent of the kinetic energy the ion had on entering the ion optics system. In various embodiments, provided are ion optics systems comprising an even number of ion mirrors arranged in pairs where the first member and second member of each pair are disposed on opposite sides of a first plane such that the first member of the pair has a position that is substantially mirror-symmetric about the first plane relative to the position of the second member of the pair. | 04-30-2009 |
20090105452 | NON-FLUORESCENT QUENCHER COMPOUNDS AND BIOMOLECULAR ASSAYS - Bis-diazo, triaryl and aryldiazo-N-arylphenazonium quencher moieties, substituted with electron-withdrawing and electron-donating substituents which induce polarity in the delocalized aryl/diazo ring systems, are useful as labels when attached to biomolecules such as polynucleotides, nucleosides, nucleotides and polypeptides. The quencher moieties are non-fluorescent and accept energy transfer from fluorescent reporter labels by any energy-transfer mechanism, such as FRET. | 04-23-2009 |
20090093062 | Fluorescent Dye Compounds, Conjugates and Uses Thereof - The present teachings generally relate to fluorescent dyes, linkable forms of fluorescent dyes, energy transfer dyes, reagents labeled with fluorescent dyes and uses thereof. | 04-09-2009 |
20090082225 | NUCLEIC ACID ARCHIVING - This invention is directed to a process for tightly binding nucleic acid to solid phase and corresponding processes for the utilization thereof. Nucleic acid is bound to solid phase matrices exhibiting sufficient hydrophilicity and electropositivity to tightly bind the nucleic acids from a sample. These processes include nucleic acid (double or single stranded DNA and RNA) capture from high volume and/or low concentration specimens, buffer changes, washes, and volume reductions, and enable the interface of solid phase bound nucleic acid with enzyme, hybridization or amplification strategies. The tightly bound nucleic acid may be used, for example, in repeated analyses to confirm results or test additional genes in both research and commercial applications. Further, a method is described for virus extraction, purification, and solid phase amplification from large volume plasma specimens. | 03-26-2009 |
20090081768 | Devices and Methods for Thermally Isolating Chambers of an Assay Card - An assay card and devices and methods for isolating chambers on the assay card are described. The assay card comprises a substrate formed of one or more materials, e.g., plastic, having a softening temperature, the substrate defining channels communicating with respective reaction chambers. The assay card may be heated in a region of the channels to at least the softening temperature. The softened plastic may be deformed, e.g., with a tool which may or may not also provide the heat for softening the substrate. In this manner, the plastic of the substrate may be caused to at least partially obstruct the channels, thereby isolating the reaction chambers. The invention also relates to a method of manufacturing a tool device that includes pins for heating and deforming an assay card. | 03-26-2009 |
20090074767 | Isolated human phosphodiesterase proteins, nucleic acid molecules encoding human phosphodiesterase proteins, and uses thereof - The present invention provides amino acid sequences of peptides that are encoded by genes within the human genome, the phosphodiesterase peptides of the present invention. The present invention specifically provides isolated peptide and nucleic acid molecules, methods of identifying orthologs and paralogs of the phosphodiesterase peptides, and methods of identifying modulators of the phosphodiesterase peptides. | 03-19-2009 |
20090053819 | Methods and Systems for Protein and Peptide Evidence Assembly - The present teachings provide methods and systems for the identification of proteins via peptide analysis. Some embodiments analyze proteins identified by analysis techniques such as mass spectrometry and build protein groups out of results. Groups can be formed by collecting like proteins and examining the group so as to identify if it is likely that only one form of a protein is present or, if there is enough evidence to support the presence of alternate forms. Various embodiments provide visual reports that can be interactive. These reports can allow a user to visualize relationships between proteins both intra- and inter-group. Methods are also introduced that can reduce the identification of false positives by taking into account a priori information. | 02-26-2009 |
20090050796 | METHOD FOR ENHANCING MASS ASSIGNMENT ACCURACY - A method of operating an ion trap spectrometer system having an ion trap is provided. The method comprises a) providing a group of ions for analysis, wherein the group of ions includes a first analyte; b) providing a filtered first analyte having a first mass-to-charge ratio by filtering out ions other than the first analyte; c) storing the filtered first analyte in the ion trap; d) storing a first set of calibrant ions in the ion trap with the filtered first analyte, wherein the first set of calibrant ions has at least one calibrant ion and each calibrant ion in the first set of calibrant ions has a known mass-to-charge ratio; e) transmitting the filtered first analyte and the first set of calibrant ions from the ion trap for detection; f) detecting the filtered first analyte to generate a first analyte mass signal peak representing the filtered first analyte, and detecting each calibrant ion in the first set of calibrant ions to generate an associated calibrant mass signal peak for each calibrant ion in the first set of calibrant ions; and, g) calibrating a first mass signal derived from the first analyte mass signal peak by comparing the known mass-to-charge ratio and the associated calibrant mass signal peak for each calibrant ion in the first set of calibrant ions. | 02-26-2009 |
20090037117 | Differential Dissociation and Melting Curve Peak Detection - Systems and methods are provided for processing a melting or dissociation curve of a DNA or other sample, for example, during PCR processing. In some embodiments, detection of the melting point and melting curve behavior can be enhanced by taking a derivative of the curve, and detecting peaks in the differential dissociation curve. In some embodiments, the derivative operation can comprise the use of edge-processing, or other detection algorithms. In some embodiments, the dissociation analysis can comprise removing low-frequency (or pedestal) components of the differential dissociation curve. In some embodiments, the differential dissociation curve can exhibit a smoothed or more regular appearance than the raw detected data. | 02-05-2009 |
20090036325 | Directed assembly of amplicons to enhance read pairing signature with massively parallel short read sequencers - The present teachings relate to improved methods, kits, and compositions for making nucleic acid libraries and sequencing nucleic acids. In some embodiments, directionally defined concatamers are generated, facilitating sequencing efforts. | 02-05-2009 |
20090035825 | Devices, Systems, and Methods for Preparing Emulsions - A vortex mixer and method for forming an emulsion wherein the mixer is adapted to form an emulsion with a desired droplet size and having a desired volume. The vortex mixer provides improved uniformity in emulsion preparation and may be used to create multiple emulsions simultaneously. | 02-05-2009 |
20090035299 | Methods and compositions for treating diseases targeting MABA1 - Methods and compositions for diagnosing, detecting and treating a colon disease associated with differential expression of MABA1 in comparison to healthy cells. Also provided are antagonists or agonists of MABA1, and methods for screening agents that modulate the MABA1 level or activity in vivo or in vitro. | 02-05-2009 |
20090031506 | UV Excitable Fluorescent Energy Transfer Dyes - Novel energy transfer dyes which can be used with shorter wavelength light sources are provided. These dyes include a donor dye with an absorption maxima at a wavelength between about 250 to 450 nm and an acceptor dye which is capable of absorbing energy emitted from the donor dye. One of the energy transfer dyes has a donor dye which is a member of a class of dyes having a coumarin or pyrene ring structure and an acceptor dye which is capable of absorbing energy emitted from the donor dye, wherein the donor dye has an absorption maxima between about 250 and 450 nm and the acceptor dye has an emission maxima at a wavelength greater than about 500 nm. | 02-05-2009 |
20090029868 | Expression signature in peripheral blood for detection of aortic aneurysm - We hypothesized that gene expression patterns in peripheral blood cells may correlate with TAA disease status, and carried out a comprehensive gene expression survey on peripheral blood cells obtained from TAA patients and normal individuals. A distinct gene expression profile in peripheral blood cells can classify TAA patients from normal individuals. The genes provided by the present teachings define a set of diagnostic markers, thus providing a blood-based gene expression test to facilitate early detection of TAA disease. Methods of distinguishing ascending from descending TAA are also provided, as are methods of distinguishing familial from sporadic TAA. | 01-29-2009 |
20090029454 | SAMPLE BLOCK APPARATUS AND METHOD FOR MAINTAINING A MICROCARD ON A SAMPLE BLOCK - A thermal cycling device for thermally cycling samples of biological material contained in a microcard having a top and bottom surface. The thermal cycling device can include a sample block having an upper surface configured for engaging the bottom surface of a microcard, a vacuum device, and a temperature control system operatively connected with the sample block. The upper surface of the sample block may include a plurality of channels, the channels defining spaces between the sample block and the bottom surface of a microcard that may be positioned thereon. The vacuum device may be in fluid communication with the sample block for drawing gas out of the spaces defined by the channels in the sample block. The vacuum device may be configured for substantially maintaining a vacuum between the sample block and microcard so that a retention force is imparted on the microcard to urge the microcard toward the sample block. Methods of maintaining a microcard on a sample block of a thermal cycling device are also provided. | 01-29-2009 |
20090023189 | APPARATUS AND METHODS FOR PREPARATION OF SUBTANTIALLY UNIFORM EMULSIONS CONTAINING A PARTICLE - Methods and systems for forming water-in-oil emulsions are described. For example, an apparatus is described which includes: a first compartment containing a plurality of particles dispersed in an aqueous phase; a second compartment containing an oil phase; a porous layer separating the first and second compartments; and a device for applying pressure to the first compartment. A method is described which includes: moving an oil phase relative to a surface of a porous layer while simultaneously forcing an aqueous composition comprising particles through the porous layer and into the flowing dispersion medium thereby forming droplets of the aqueous composition containing particles dispersed in the oil phase. The aqueous composition can include one or more nucleic acid templates and reagents for amplifying the nucleic acids such as PCR reagents. A porous partition is described comprising a first and second major surfaces and at least two straight through pores comprising a cross sectional shape selected from a polygon, an oval, an oblong, a dumbbell, a bowtie and irregular shapes thereof. Aqueous droplets containing an oligonucleotide attached to a particle and reagents can be used as a microreactor for nucleic acid amplification. | 01-22-2009 |
20090021735 | Time-delay integration in detection of labeled beads - An apparatus for detecting labeled beads is provided. The apparatus can include: one or more irradiation sources disposed for irradiating the one or more detection zones with radiation; at least one detector disposed for collecting charges corresponding to light signals emitted from labeled beads in the one or more detection zones, which have been excited by the radiation; and a system coupled to the at least one detector for effecting time delay integration of the charges by accumulating the charges before reading the charges at the output of the at least one detector. | 01-22-2009 |
20090017554 | DETECTION AND MIXING IN A CONDUIT IN INTEGRATED BIOANALYSIS SYSTEMS - Apparatuses and methods in which detection is integrated with various liquid processing and environmental control functions to create integrated bioanalysis systems are disclosed. Though the various integrated bioanalysis systems are useful for any number of analysis formats, they are adaptable to high-throughput processing of samples. | 01-15-2009 |
20090012282 | 5-METHYLCYTOSINE DETECTION, COMPOSITIONS AND METHODS THEREFOR - Compositions and methods for detecting 5-methylcytosine in a nucleic acid are disclosed. A 5-methylcytosine discriminator, which is a deoxyribonucleosidetriphosphate comprising a cytosine-pairing moiety such as a guanosine and a moiety which hinders hydrogen bonding between the cytosine-pairing moiety and a 5-methylcytosine is described. The discriminator is able to base pair with a cytosine but not a 5-methylcytosine. A 5-methylcytosine comprised by a target nucleotide can be detected in a reaction using a DNA polymerase and a primer hybridized immediately adjacent to the target nucleotide. In the reaction, pyrophosphate released upon incorporation of a dNTP complementary to a target nucleotide is detected. Lack of incorporation of the discriminator, but incorporation of a dGTP, can indicate that the target nucleotide is a 5-methylcytosine. | 01-08-2009 |
20090009767 | Optical instrument including excitation source - An optical instrument is provided for simultaneously illuminating two or more spaced-apart reaction regions with excitation beams generated by a light source. The light source can include an area light array of light emitting diodes, one or more solid state lasers, one or more micro-wire lasers, or a combination thereof. According to various embodiments, a Fresnel lens can be disposed along a beam bath between the light source and the reaction regions. Methods of analysis using the optical instrument are also provided. | 01-08-2009 |
20090004662 | METHOD AND COMPOSITIONS FOR NUCLEIC ACID AMPLIFICATION - The present teachings provide methods, compositions, and kits for nucleic acid amplification. In some embodiments of the present teachings, amplification reactions are performed with at least one high stability primer. In some embodiments, the present teachings provide a method comprising a high stability primer for amplification of a nucleic acid sequence in a sample comprising a target nucleic acid sequence and a PCR inhibitor. | 01-01-2009 |
20090004064 | Multi-material microplate and method - A microplate assembly for performing an analytical method on an assay, comprising a microplate base structure having a plurality of apertures formed therethrough, and a plurality of well inserts coupled to the microplate base structure adjacent the apertures. Each of the plurality of well inserts has an open top portion and is adapted to receive an assay. The microplate base structure and the plurality of well inserts can comprise different materials. Methods of manufacturing the microplate assembly are also provided. | 01-01-2009 |
20090004062 | DEVICES FOR IMPROVING THE FLATNESS OF HIGH-DENSITY MICROPLATES - Methods and apparatuses that improve the flatness of the microplates. In some embodiments, a pair of opposing channels that extends along a length of a rigid member is used to retain the microplate on the rigid member and to impart a level of flatness of at least a predetermined value. In some embodiments, one or more rigid framing members each having a channel therein are disposed along the edges of a microplate and impart a level of flatness of at least a predetermined value to the microplate. In some embodiments, a method of flattening the microplate comprises securing the microplate to a rigid member so the microplate has a flatness of at least a predetermined value and maintaining the microplate secured to the rigid member during a subsequent spotting or filling operation. | 01-01-2009 |
20090000690 | Diffusion-aided loading system for microfluidic devices - Microfluidic devices having a diffusion-aided system for loading samples into the microfluidic device are provided. Methods of gas-venting a microfluidic device through a non-porous, gas permeable material sealing cover layer, for example, during liquid sample loading, are also provided. The non-porous, gas-permeable material can be, for example, a polysiloxane, for example, polydimethylsiloxane. | 01-01-2009 |
20080308160 | Device including inductively heatable fluid retainment region, and method - A device is provided that comprises one or more fluid retainment regions each having at least one wall, and one or more loops in heat-transfer communication with the at least one wall. Each of the loops can comprise an electrical conductor that surrounds the same or a different fluid retainment region. A device is provided that comprises one or more fluid retainment regions each having particulates disposed therein. A system is provided that includes a platen adapted to hold a device including fluid retainment regions and one or more electrical conductors in heat-transfer communication with the fluid retainment regions. Methods of heating a sample are also provided. | 12-18-2008 |
20080299651 | Thermal cycle for automatic performance of the polymerase chain reaction with close temperature control - A thermal cycler for automatic performance of the polymerase chain reaction is provided. The thermal cycler comprises a heater control that provides close temperature control of the reaction. | 12-04-2008 |
20080299554 | Genetic polymorphisms associated with liver fibrosis, methods of detection and uses thereof - The present invention is based on the discovery of genetic polymorphisms that are associated with liver fibrosis and related pathologies. In particular, the present invention relates to nucleic acid molecules containing the polymorphisms, including groups of nucleic acid molecules that may be used as a signature marker set, variant proteins encoded by such nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and proteins, and methods of using the nucleic acid and proteins as well as methods of using reagents for their detection. | 12-04-2008 |
20080293127 | Method to Render Pressure Sensitive Adhesive Compatible with Polymerase Chain Reaction Systems - A method for substantially eliminating a cross-linking element of a pressure sensitive adhesive by heating the pressure sensitive adhesive at a temperature of at least 180° C. for a period of time required to thermally decompose the cross-linking element of the pressure sensitive adhesive. | 11-27-2008 |
20080290283 | Signal noise reduction for imaging in biological analysis - A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings. | 11-27-2008 |
20080290037 | Methods and Apparatuses for Separating Biological Particles - Methods and apparatuses for separating biological particles are provided. | 11-27-2008 |
20080288178 | Sequencing system with memory - The present teachings provide a device including a memory. According to various embodiments, the memory is readable, writable, and rewritable. The present teachings further provide processing stations, e.g., for carrying out electrophoresis, pcr, genetic analysis, sample preparation, and/or sample cleanup, etc., that are capable of reading from and/or writing/rewriting to such memory. | 11-20-2008 |
20080286796 | Genetic polymorphisms associated with neurodegenerative diseases, methods of detection and uses thereof - The present invention is based on the discovery of genetic polymorphisms that are associated with neurodegenerative disease, particularly Alzheimer's disease and Parkinson's disease. In particular, the present invention relates to nucleic acid molecules containing the polymorphisms, variant proteins encoded by such nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and proteins, and methods of using the nucleic acid and proteins as well as methods of using reagents for their detection. | 11-20-2008 |
20080286772 | Method for Direct Amplification from Crude Nucleic Acid Samples - The present teachings relate to improved methods, kits, and reaction mixtures for amplifying nucleic acids. In some embodiments a novel direct buffer formulation is provided which allows for the direct amplification of the nucleic acids in a crude sample with minimal sample purification. | 11-20-2008 |
20080284602 | METHODS AND SYSTEMS FOR USING RFID IN BIOLOGICAL FIELD - Biological reagent carrier devices and methods are disclosed, which employ RFID techniques to associate information with biological reagents. | 11-20-2008 |
20080281466 | System and Method for Selective Retrieval of Support Beads - Systems and methods are provided that can include a storage and retrieval robot operating under program control to extract a selective number of support beads from a storage or retainment region, for dispensing to titer wells or other vessels for assays and other purposes. According to various embodiments, the storage and retrieval robot can position a capture device over any one or more storage wells containing oligonucleotide or other material support beads, and withdraw or extract those support beads into a collection tube under vacuum pressure or other force. According to various embodiments, a selected number of support beads can be extracted, using a linear motor piston to limit available space for support bead insertion. According to various embodiments, the collected support beads can be dispensed into one or more destination tubes, wells, or other containers, surfaces, vessels, receptacles or mixture containment region, for use in assays or other purposes. According to various embodiments, a calculated plurality of support beads can be extracted or mixed in selective quantities. According to various embodiments, a sample subset of the supply support beads can be taken, to calculate an amount of actual oligonucleotide contained in the support beads. According to various embodiments, an adjustment or normalization of the number of support beads dispensed can be performed to compensate for variations in oligonucleotide amount, thereby enhancing the uniformity of concentration in solution. | 11-13-2008 |
20080281089 | Methods and Systems for Differential Extraction - Methods are provided for differential extraction of DNA from at least two different cell types. Systems for carrying out the differential extraction methods are also provided. A kit is also provided for differential extraction of DNA from at least two different cell types using a multi-compartment container. | 11-13-2008 |
20080274466 | Enrichment Through Heteroduplexed Molecules - The present invention relates to the enrichment of specific target sequences Enrichment can be achieved through the formation of a heteroduplex that includes the specific target sequence and then the specific cleavage of the heteroduplex. A binding moiety is then added to the cleaved heteroduplex, allowing for the subsequent manipulation of the specific target sequence in the heteroduplex. | 11-06-2008 |
20080269076 | Multiple Capillary Device and Method for Synthesis and Dispensing - A system and method for synthesizing a peptide, a nucleic acid sequence, an oligonucleotide, a DNA sequence, an RNA sequence, or the like, inside an array of capillary tubes, is provided. The system can comprise an array of capillary tubes. Each of the capillary tubes in the array of capillary tubes can comprise a first end, a second end, an inner wall, and a sequence linker bonded to the inner wall. The system can comprise a pressure control source that can be in fluid communication with each of the first ends of the array of capillary tubes. The system can comprise a reagent container support, wherein the second end of each of the capillary tubes can be adapted to move towards and/or away from the reagent container support. | 10-30-2008 |
20080269074 | Methods, 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. | 10-30-2008 |
20080268509 | METHODS OF LABELING POLYNUCLEOTIDES WITH ENERGY TRANSFER DYES - Novel linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye are provided. These linkers faciliate the efficient transfer of energy between a donor and acceptor dye in an energy transfer dye. One of these linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye has the general structure R | 10-30-2008 |
20080268448 | Multiplex compositions and methods for quantification of human nuclear DNA and human male DNA and detection of PCR inhibitors - The invention relates to a method for simultaneous quantification of human nuclear DNA and human male DNA in a biological sample while also detecting the presence of PCR inhibitors in a single reaction. The multiplex quantification method also provides a ratio of human nuclear and male DNA present in a biological sample. Such sample characterization is useful for achieving efficient and accurate results in downstream molecular techniques such as genotyping. | 10-30-2008 |
20080267829 | Sample Substrate Having a Divided Sample Chamber and Method of Loading Thereof - A sample substrate configured for samples of biological material is provided. The sample substrate has a dual chambered sample well separated by a wall that may be punctured or otherwise breached to allow mixing of material contained in the two initially separate chambers. The chambers are connected by channels to fluid reservoirs, wherein the channels can be staked to prevent further fluid flow into and out of the chambers. Methods of loading a sample substrate are also provided. | 10-30-2008 |
20080265139 | COMBINATION READER - An imaging system for collecting images of signals associated with a sample tile comprising a stage supporting the sample tile, a ring illuminator system emitting a uniform excitation energy upon an entirety of the sample tile causing at least a first signal to be generated from the sample tile, and an image collecting device collecting a first image of the first signal. The image collecting device further collecting a second image of a second signal emitted from the sample tile, wherein the second signal being different than the first signal. | 10-30-2008 |
20080248534 | Adaptive Thermal Block Temperature Control Method and System - Aspects of the present teachings describe a method and apparatus for automatically controlling a block temperature to reduce undershooting and overshooting of the temperatures of a sample contained in the block and participating in a polymerase chain reaction (PCR). The adaptive thermal block temperature control begins when a sample temperature enters a sample window region between a preliminary setpoint temperature and a target setpoint temperature for the sample. Based on thermodynamic behavior of the sample and the predetermined phase of PCR, predicting a time period measured subsequent to the preliminary setpoint temperature when the sample will reach the target setpoint suitable for the predetermined phase of PCR. During this time period, varying the block temperature ramp rate with a series of cooling and heating changes to ensure the block temperature reaches the target setpoint temperature at approximately the same time as the sample reaches the same. Synchronizing the block temperature and sample temperature to the target setpoint temperature reduces undershooting and overshooting of the sample temperature and increases the speed and efficiency of the overall PCR process as it relates to the thermal cycling operations. | 10-09-2008 |
20080248476 | Genetic polymorphisms associated with myocardial infarction, methods of detection and uses thereof - The present invention is based on the discovery of genetic polymorphisms that are associated with myocardial infarction. In particular, the present invention relates to nucleic acid molecules containing the polymorphisms, variant proteins encoded by such nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and proteins, and methods of using the nucleic acid and proteins as well as methods of using reagents for their detection. | 10-09-2008 |
20080248469 | Methods for Identifying Nucleotides of Interest in Target Polynucleotides - In some embodiments, the present teachings provide a method of identifying a nucleotide of interest in a target polynucleotide. In some embodiments, the method can comprise forming an amplification strand, wherein the amplification strand comprises a hairpinning end region; hybridizing the hairpinning end region of the amplification strand with a hairpinning region of a target polynucleotide, to form a self-complementary amplification product. After performing an extension reaction, wherein the hairpinning end region of the amplification strand is extended, an extended reaction product is formed. Detection of the extended reaction product can result in the identification of a nucleotide of interest in the target polynucleotide. Additional methods, as well as kits, are also provided. | 10-09-2008 |
20080243415 | Calibrating the Positions of a Rotating and Translating Two-Dimensional Scanner - Systems and methods are provided that comprise calibration techniques and associated systems that identify the two-dimensional position, or other alignment or positioning, of sample wells or other calibration objects located in a sample well plate, or other surface or area of interest. In some embodiments, calibration of the plate and/or positioning and/or alignment with respect to detection optics can be performed in multiple stages for two or more dimensions. | 10-02-2008 |
20080241955 | Methods, Mixtures, Kits And Compositions Pertaining To Analyte Determination - This invention pertains to methods, mixtures, kits and compositions pertaining to analyte determination by mass spectrometry using labeling reagents that comprise a nucleophilic reactive group that reacts with a functional group of an analyte to produce a labeled analyte. The labeling reagents can be used as isobaric sets, mass differential labeling sets or in a combination of isobaric and mass differential labeling sets. | 10-02-2008 |
20080241846 | Genetic polymorphisms associated with coronary events and drung response, methods of detection and uses thereof - The present invention provides compositions and methods based on genetic polymorphisms that are associated with coronary heart disease (particularly myocardial infarction), aneurysm/dissection, and/or response to drug treatment, particularly statin treatment. For example, the present invention relates to nucleic acid molecules containing the polymorphisms, variant proteins encoded by these nucleic acid molecules, reagents for detecting the polymorphic nucleic acid molecules and variant proteins, and methods of using the nucleic acid molecules and proteins as well as methods of using reagents for their detection. | 10-02-2008 |
20080240529 | Methods for Improving the Perfomance of a Detector - A system and method for allowing adjustments of various parameters associated with the operation of charge-coupled devices adapted for use in biological analysis devices. Gate voltage signal applied to the CCDs can be adjusted to advantageously affect the manner in which charge is transferred from pixels. The manner in which transferred charges from the pixels are processed in a readout process can also be adjusted to advantageously change the speed of the CCD based detector. Various methods of performing such adjustments are disclosed. | 10-02-2008 |
20080238627 | Sample carrier device incorporating radio frequency identification, and method - An apparatus for associating information with a carrier and/or at least one biological reagent is provided. The apparatus can include a carrier adapted to retain at least one biological reagent and at least one non-silicon Radio Frequency Identification Tag (RFID). The RFID tag can comprise information in the form of an information pointer that can be resolved by an information pointer resolution device. The information pointer and/or resolution device can be used to access a remote system. The carrier can be configured, for example, as a microfluidic processing device or a multi-well plate. Methods and systems using the apparatus are also provided. | 10-02-2008 |
20080234947 | SCIENTIST DOMAIN-CENTRIC USER INTERFACE AND ENABLING "SOFT" TRANSLATION - The scientist domain-centric user interface system may prompt the user to supply scientist-centric information expressed utilizing terminology of a scientific domain, such as biology or analytical chemistry. A translation system then generates control parameters to control the search algorithm, thus relieving the user from having to learn how select and configure the algorithm control parameters directly. | 09-25-2008 |
20080233587 | METHOD FOR DIRECT AMPLIFICATION FROM CRUDE NUCLEIC ACID SAMPLES - The present teachings relate to improved methods, kits, and reaction mixtures for amplifying nucleic acids. In some embodiments a novel direct buffer formulation is provided which allows for the direct amplification of the nucleic acids in a crude sample with minimal sample purification. | 09-25-2008 |
20080228589 | Methods For Placing, Accepting, And Filling Orders For Products and Services - Methods and systems for ordering assays which detect SNPs or gene expression are provided. The methods use PCR and RT-PCR procedures. Collections of stock assays are assembled using pre- and post-manufacturing quality control procedures and made available to consumers via the Internet. In addition, custom assays are prepared upon order from the consumer and these assays are also prepared using pre- and post-manufacturing quality control procedures. The assays are then delivered to the consumer. | 09-18-2008 |
20080220987 | Methods, 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. | 09-11-2008 |
20080219992 | Pancreatic cancer secreted targets and uses thereof - The present invention provides a method for diagnosing and detecting diseases associated with pancreas. The present invention provides one or more proteins or fragments thereof, peptides or nucleic acid molecules differentially expressed in pancreatic diseases (PCAST) and antibodies binds to PCAST. The present invention provides that PCAST is used as targets for screening agents that modulates the PCAST activities. Further the present invention provides methods for treating diseases associated with pancreas. | 09-11-2008 |
20080213859 | Methods for the Reduction of Stutter in Microsatellite Amplification - The invention provides a method for reducing stutter in the amplification of a microsatellite comprising the steps of providing a sample comprising a microsatellite having a G+C content of 50% or less; contacting the sample with at least one enzyme having nucleic acid polymerase activity; and incubating the sample with the enzyme for a sufficient amount of time and under conditions sufficient to amplify the microsatellite; wherein the incubation is performed in the presence of an amount of betaine, sorbitol or mixtures thereof, effective to reduce stutter relative to the amount of stutter observed in the absence of betaine and/or sorbitol. The invention also provides compositions containing betaine and/or sorbitol, kits for amplifying microsatellites having a G+C content of 50% or less, and methods of using all of the foregoing. | 09-04-2008 |
20080213755 | Method and Device for Detection of Nucleic Acid Sequences | 09-04-2008 |
20080209978 | System and Method for Instrument Calibration - Methods for generating a calibration factor and for calibrating are provided whereby interstitial spacing between support locations of a platform is used to embed a detectable material, emissions from which are used to generate the calibration factor. In some embodiments, the external space, outer perimeter, and other areas of a platform are used to embed detection materials for the normalization, calibration, correction, compensation, or other method of adjustment for detected emission data. The emission data can be taken from an assay, amplification, reaction, analysis, or other process, for example, from a PCR run or other reaction. By calibrating or adjusting the sample support with the detected emission data, a more efficient detection of the assay, amplification, reaction, analysis, or other process, can be achieved. | 09-04-2008 |
20080206771 | Method For Recovering Nucleic Acid From A Mixed Cell Suspension, Without Centrifugation - A method for selectively recovering nucleic acid from a first cell type in a sample containing cells of at least a first cell type and a second cell type, and a cell suspension medium comprising extracellular impurities, is provided. The method entails combining the sample with particles responsive to a magnetic field in a vessel, the magnetic particles having the ability to sequester the cells from the cell suspension medium upon application of a magnetic field; exposing the vessel to a magnetic field for a time sufficient to cause sequestration of the cells by the particles; removing the impurities-containing cell suspension medium from the vessel while retaining the cells; lysing selectively cells of the first cell type; and isolating the nucleic acid from the lysed cells. Methods for recovering nucleic acid from the second cell type are also provided. | 08-28-2008 |
20080206769 | Molecular prognostic signature for predicting breast cancer distant 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. | 08-28-2008 |
20080203618 | Non-Contact Devices and Methods for Preparation of a Hybridization Substrate - The present application relates to an apparatus and method for non-contact collapsing of a porous material on a nonporous substrate. | 08-28-2008 |
20080201103 | Robust Detection of Variability in Multiple Sets of Data - The present teachings comprise systems and methods for calibrating the background or baseline signal in a PCR or other reaction. The background signal derived from detected emissions of sample wells can be subjected to a normalized statistical metric, and be compared to a threshold or other standard to discard outlier cycles or other extraneous data. According to various embodiments, a relative standard deviation (relativeSTD) for the background component can be generated by dividing the standard deviation by the median of differences across all wells, where the difference is defined as the difference between maximum and minimum pixel values of a well. The relativeSTD as a metric is not sensitive to machine-dependent variations in absolute signal output that can be caused by different gain settings, different LED draw currents, different optical paths, or other instrumental variations. More accurate background characterization can be achieved. | 08-21-2008 |