LIFE TECHNOLOGIES CORPORATION Patent applications |
Patent application number | Title | Published |
20160110624 | Methods and Systems for Detection of a Consumable in a System - A computer-implemented method for detecting a presence of an object-of-interest in a system is provided. The method includes imaging the first object-of-interest including an identifier, wherein the imaging generates a first set of image data and determining the portion of the image data including the identifier based on a predetermined location. The method further includes dividing the portion of the image data including the identifier into at least two segments Next, the presence of the object-of-interest is determined by determining if intensity values within each segment exceed a presence threshold. | 04-21-2016 |
20160103957 | METHODS, SYSTEMS, AND COMPUTER-READABLE MEDIA FOR CALCULATING CORRECTED AMPLICON COVERAGES - Methods, systems, and computer-readable media are disclosed for calculating corrected amplicon coverages. One method includes: mapping a plurality of reads of a plurality of amplicons based on amplified target regions of a sample suspected of having one or more genetic abnormalities to a reference sequence that includes one or more nucleic acid sequences corresponding to the amplified target regions; calculating amplicon coverages and total reads, wherein amplicon coverages is a number of reads mapped to an amplicon, and total reads is a number of mapped reads; and calculating corrected amplicon coverages based on the calculated amplicon coverages and calculated total reads by applying a batch effect correction. | 04-14-2016 |
20160019340 | SYSTEMS AND METHODS FOR DETECTING STRUCTURAL VARIANTS - Systems and method for identifying gene fusions can obtain sequencing information for a plurality of amplicons from a nucleic acid sample. The sequencing information can include a plurality of reads that are initially partially mapped to a reference sequence. Fragments may be generated by splitting the partially mapped reads into mapped and unmapped fragments, and the fragments may be remapped to the reference sequence. Gene fusions can be identified based on reads where the first fragment maps to a first gene and the second fragment maps to a second gene. | 01-21-2016 |
20150355138 | METHODS, SYSTEMS, AND COMPUTER-READABLE MEDIA FOR COMPRESSION OF SEQUENCING DATA - Methods, systems, and computer-readable media are disclosed for compression of sequencing data. One method includes receiving waveform data associated with a chemical event occurring on a sensor array, the waveform data including a plurality of time-based waveforms of a corresponding plurality of locations of the sensor array; converting, by at least one processor, each time-based waveform of the waveform data into a frequency-domain spectrum; generating, by the at least one processor, a key frame based on a plurality of the frequency-domain spectrums; calculating, by the at least one processor, for each of the frequency-domain spectrums, a difference between the frequency-domain spectrum and the key frame; and encoding, by the at least one processor, each calculated difference between the frequency-domain spectrum and the key frame. | 12-10-2015 |
20150190765 | AUTOMATED LIQUID MANUFACTURING SYSTEM - A method for continuously preparing a medium formulation mixes a diluent with a plurality of chemically incompatible concentrate solutions in such a manner that none of the ingredients of the concentrate solutions chemically react in an adverse manner. The method utilizes a static mixing chamber to add the concentrate solutions to the diluent stream sufficiently in advance of one another so that adverse chemical reactions do not occur. The method also adjusts a pH level of the diluent prior to adding any of the concentrate solutions to the diluent. | 07-09-2015 |
20150161702 | METHODS AND SYSTEMS FOR IN SILICO EXPERIMENTAL DESIGN AND FOR PROVIDING A BIOTECHNOLOGY PRODUCT TO A CUSTOMER - Provided herein is a method and computer program product for designing and/or simulating a biotechnology experiment in silico; and for providing and generating revenue from a customized list of one or more biotechnology products and/or services related to the in silico designed or simulated biotechnology experiment or the product of that experiment. In illustrative examples, the products and or services are indirectly related to a biomolecule designed by the in silico designed biotechnology experiment. In addition, provided herein is a method and computer system for generating revenue, that includes providing a customer with a first computer program product for designing or performing a biotechnology experiment in silico; and providing the customer with access to a purchase function for purchasing a second computer program product for designing or performing a biotechnology experiment in silico. Typically, functionality of the first computer product is less then and/or different than the functionality of the second computer product. | 06-11-2015 |
20150118753 | METHODS AND APPARATUS FOR GAS STREAM MASS TRANSFER WITH A LIQUID - A method and system for achieving a gas-liquid mass transfer includes delivering into a compartment of a container a liquid, the liquid having an exposed top surface disposed within the compartment. A stream of a gas is passed over the top surface of the liquid so that the stream of gas produces turbulence on the top surface that is sufficient to achieve the gas-liquid mass transfer. In one embodiment the liquid is a culture that includes cells or microorganisms and the mass transfer functions to oxygenate the culture sufficient to sustain the cells or microorganisms. | 04-30-2015 |
20150117142 | FLUID MIXING SYSTEM WITH FLEXIBLE DRIVE LINE AND FOLDABLE IMPELLER - A fluid mixing system includes a container, such as a flexible bag, bounding a compartment. A flexible drive line is disposed within the compartment, the drive line having a first end rotatably connected to a first end of the container and an opposing second end rotatably connected to a second end of the container. At least one mixing element, such as an impeller, is coupled with the flexible drive line. Rotation of the drive line facilitates rotation of the impeller within the container. | 04-30-2015 |
20150111214 | DIRECT QUANTIFICATION OF UNPROCESSED NUCLEIC ACID SAMPLES - A workflow for direct qPCR quantification of unprocessed forensic casework samples is disclosed herein. 13 pg of DNA has been detected by direct amplification from a paper substrate. Direct qPCR quantification of unprocessed forensic casework samples and direct STR amplification of unprocessed forensic casework samples collected on the same PE-swab will greatly increase forensic laboratory's efficiency and capability. | 04-23-2015 |
20150080239 | Classification and Actionability Indices for Cancer - The disclosure provides compositions, kits, and methods for detecting a plurality of genes and associated variants in a sample from a subject with cancer. The compositions, kits, and methods include a set of oligonucleotides, typically primers and/or probes that can hybridize to identify a gene variant. The methods disclosed herein provide for a mutation status of a tumor to be determined and subsequently associated with a report comprising an actionable treatment recommendation. | 03-19-2015 |
20150079659 | SERUM-FREE MAMMALIAN CELL CULTURE MEDIUM, AND USES THEREOF - The present invention provides a cell culture medium formulation that supports the in vitro cultivation, particularly in suspension, of mammalian cells, particularly epithelial cells and fibroblast cells, and methods for cultivating mammalian cells in suspension in vitro using these media. The media comprise a basal medium and a polyanionic or polyanionic compound, preferably a polysulfonated or polysulfated compound, and more preferably dextran sulfate. The present invention also provides chemically defined, protein-free eukaryotic cell culture media comprising an iron chelate and zinc, which is capable of supporting the growth (and particularly the high-density growth of mammalian cells) in suspension culture, increasing the level of expression of recombinant protein in cultured cells, and/or increasing virus production in cultured cells. | 03-19-2015 |
20150072396 | Compounds and Methods for Conjugation of Biomolecules - Low-copper click chemistry, 1.3-dipolar cycloadditions, and Staudinger ligations for modifying biomolecules is provided. Compositions, methods, and kits relating to low-copper click chemistry, 1.3-dipolar cycloadditions, and Staudinger ligations are also provided. | 03-12-2015 |
20150045547 | Synthesis Of 2' , 3' -Dideoxynucleosides For Automated DNA Synthesis And Pyrophosphorolysis Activated Polymerization - Methods for preparation of 2′,3′-dideoxynucleotides support structures, such as 2′,3′-dideoxyguanosine, 2′,3′-dideoxyadenosine, and 3′-deoxythymidine support structures are disclosed. Various methods of using such structures are also provided, such as their use for automated DNA synthesis and pyrophosphorolysis activated polymerization. | 02-12-2015 |
20150044686 | Systems and Methods for Containing Biological Samples - An article for holding a plurality of biological samples includes a substrate a substrate comprising a first surface and an opposing second surface and a plurality of reaction sites in the substrate. Each of the reaction sites extends from an opening in the first surface to an opening in the second surface. The reaction sites comprise a hexagonal shape and are configured to provide sufficient surface tension by capillary action to hold respective biological samples. The reaction sites have a density over at least a portion of the surfaces that is at least 170 holes per square millimeter. At least one of the surfaces may have a surface roughness characterized by an arithmetic average roughness (Ra) that is less than or equal to 5 nanometers. | 02-12-2015 |
20150039383 | Methods and Systems for a Product Selection Tool - A computer-implemented method for determining a desired product for performing a workflow is provided. The method includes receiving a selection of a desired workflow from a user. The desired workflow includes a set of steps including at least one step. The method includes receiving a selection of a step from the set of steps from the user, then displaying a plurality of product categories associated with the selected step. The method further includes receiving a selection of a product category of the plurality of product categories from the user, then displaying a plurality of products associated with the selected product category, and a plurality of associated metrics associated with each of the products of the plurality of products. At least one of the associated metrics is determined from input from a plurality of users. | 02-05-2015 |
20150031031 | APPARATUS FOR COLLECTING FINGERPRINTS AND BUCCAL SWABS - Disclosed are devices and methods for collection, labeling and matching biological samples containing nucleic acid in conjunction with collecting at least one ridge and valley signature such as a fingerprint or footprint of an individual. Such devices and methods are used in forensic, human identification, paternity, tissue typing, and screening technologies to rapidly process an individual's identity, determine the identity of an individual along with the genotype profile of the individual. | 01-29-2015 |
20140378315 | ENZYMATIC LIGATION OF NUCLEIC ACIDS - Methods, assays, compositions and kits for the ligation of short polynucleotides are presented herein. The short polynucleotides are optionally no more than 7 nucleotides in length, and can be as short as 3 or 4 nucleotides in length. The ligation is optionally performed by CV ligase. | 12-25-2014 |
20140377747 | CHEMICALLY-ENHANCED PRIMER COMPOSITIONS, METHODS AND KITS - A chemically-enhanced primer is provided comprising a negatively charged moiety (NCM), an oligonucleotide sequence having a) non-nuclease resistant inter-nucleotide linkages or b) at least one nuclease resistance inter-nucleotide linkage. The chemically-enhanced primer can be used for sequencing and fragment analysis. Methods for synthesizing the chemically-enhanced primer as well as a method of preparing DNA for sequencing, a method of sequencing DNA, and kits containing the chemically-enhanced primer are also provided. The method of sequencing DNA can comprise contacting amplification reaction products with the composition wherein excess amplification primer is degraded by the nuclease and the chemically-enhanced primer is essentially non-degraded. | 12-25-2014 |
20140364320 | Chemical Sensor Array Having Multiple Sensors Per Well - In one embodiment, a device is described. The device includes a material defining a reaction region. The device also includes a plurality of chemically-sensitive field effect transistors have a common floating gate in communication with the reaction region. The device also includes a circuit to obtain respective output signals from the chemically-sensitive field effect transistors indicating an analyte within the reaction region. | 12-11-2014 |
20140363839 | LONG WAVELENGTH FLUOROGENIC INTRACELLULAR ION INDICATORS THAT ARE WELL RETAINED IN THE CYTOSOL - Cell permeable metal ion indicator compounds and methods of their use and synthesis are described. The compound comprises a metal chelating moiety (M | 12-11-2014 |
20140357573 | PROGNOSTIC ASSAY FOR SQUAMOUS CELL LUNG CARCINOMA - Methods for predicting clinical outcome for a human subject diagnosed with squamous cell lung carcinoma using a panel of molecular markers that includes CDKN2A and CCND1. The markers are related to the subject's increased likelihood of a negative clinical outcome. | 12-04-2014 |
20140349893 | LABELING OF IMMOBILIZED PROTEINS USING DIPYRROMETHENEBORON DIFLUORIDE DYES - The invention describes methods for labeling or detecting of immobilized poly(amino acids), including peptides, polypeptides and proteins, on membranes and other solid supports, using fluorescent dipyrrometheneboron difluoride dyes. Such immobilized poly(amino acids) are labeled or detected on blots or on arrays of poly(amino acids), or are attached to immobilized aptamers. | 11-27-2014 |
20140342365 | Method of Determining the Nucleotide Sequence of Oligonucleotides and DNA Molecules - The present invention relates to a novel method for analyzing nucleic acid sequences based on real-time detection of DNA polymerase-catalyzed incorporation of each of the four nucleotide bases, supplied individually and serially in a microfluidic system, to a reaction cell containing a template system comprising a DNA fragment of unknown sequence and an oligonucleotide primer. Incorporation of a nucleotide base into the template system can be detected by any of a variety of methods including but not limited to fluorescence and chemiluminescence detection. Alternatively, microcalorimetic detection of the heat generated by the incorporation of a nucleotide into the extending template system using thermopile, thermistor and refractive index measurements can be used to detect extension reactions. | 11-20-2014 |
20140339091 | GEL CASSETTE ADAPTOR - A gel cassette adaptor for use with an electrophoresis system gel cassette is disclosed herein. The gel cassette adaptor allows a single gel cassette to be compatible with more than one electrophoresis system. In one example embodiment, the gel cassette adaptor includes an open sided trough having an attachment perimeter and an attachment flange coupled to the attachment perimeter. The attachment flange is designed to be compatible for mating with a gel cassette that is compatible with a first electrophoresis system. After attachment of the gel cassette adaptor, the resulting gel cassette assembly is compatible with a second electrophoresis system. Also provided is a gel cassette that includes a stabilizer post that connects the cassette plates to maintain a constant gap width between the plates during electrophoresis. In reducing deformation of the gap space between plates during gel runs, the stabilizer post can improve electrophoresis results for wide format gels. | 11-20-2014 |
20140336063 | Windowed Sequencing - In one implementation, a method is described. The method includes determining an operational characteristic of sensors of a sensor array. The method further includes selecting a group of sensors in the array based on the operational characteristic of sensors in the group. The method further includes enabling readout of the sensors in the selected group. The method further includes receiving output signals from the enabled sensors, the output signals indicating chemical reactions occurring proximate to the sensors of the sensor array. | 11-13-2014 |
20140335616 | DEFINED SYSTEMS FOR EPITHELIAL CELL CULTURE AND USE THEREOF - The present invention provides cell culture media formulations which support the in vitro cultivation of animal epithelial cells. The media comprise at least one fibroblast growth factor (FGF) and at least one agent that induces increased intracellular cAMP levels, and optionally comprise ascorbic acid. The present invention also provides methods of cultivating animal epithelial cells in vitro using these cell culture media formulations, kits comprising the media, cell culture compositions comprising the culture media and an animal epithelial cell, and compositions that may be used as replacements for organ or gland extracts in animal cell culture media. | 11-13-2014 |
20140335560 | Automated Microdissection Instrument - Systems and methods for automated laser microdissection are disclosed including automatic slide detection, position detection of cutting and capture lasers, focus optimization for cutting and capture lasers, energy and duration optimization for cutting and capture lasers, inspection and second phase capture and/or ablation in a quality control station and tracking information for linking substrate carrier or output microdissected regions with input sample or slide. | 11-13-2014 |
20140335509 | Method of Determining the Nucleotide Sequence of Oligonucleotides and DNA Molecules - The present invention relates to a novel method for analyzing nucleic acid sequences based on real-time detection of DNA polymerase-catalyzed incorporation of each of the four nucleotide bases, supplied individually and serially in a microfluidic system, to a reaction cell containing a template system comprising a DNA fragment of unknown sequence and an oligonucleotide primer. Incorporation of a nucleotide base into the template system can be detected by any of a variety of methods including but not limited to fluorescence and chemiluminescence detection. Alternatively, microcalorimetic detection of the heat generated by the incorporation of a nucleotide into the extending template system using thermopile, thermistor and refractive index measurements can be used to detect extension reactions. | 11-13-2014 |
20140332112 | Microfluidic Transfer Pins - A liquid dispenser for a microfluidic assay system is described. The dispenser includes at least one transfer pin for transferring a microfluidic sample of liquid to a target receptacle. A pin tip at one end of the transfer pin is structured to cooperate with an opening in the target receptacle. The tip uses a high voltage potential to transfer the sample from the pin to the receptacle. | 11-13-2014 |
20140323334 | Interference Control Panel for Evaluation of Analytical Assays For Samples Derived from Blood - The invention relates to quality control of analytical assays, particularly NAT assays of blood samples containing nucleic acids. A control panel containing quantified amounts of substances known to interfere with an analytical assay is used and compared with a reference sample in the analytical assay. A comparison of the assay results interference panel validates the assay and can serve as a periodic quality control check for the analytical assay as well as related methods and protocols. The use of the control panel of the invention can also determine whether interfering substances are present and establish under what conditions the analytical assay reliable. | 10-30-2014 |
20140323329 | Gene Fusion - The disclosure provides gene fusion variants and novel associations with disease states, as well as kits, probes, and methods of using the same. | 10-30-2014 |
20140316716 | Methods, Systems, and Computer Readable Media for Improving Base Calling Accuracy - A method includes exposing template polynucleotide strands, sequencing primers, and polymerase to flows of nucleotide species; obtaining a series of measured intensity values and randomly selecting a training subset therefrom; generating series of base calls using a base caller and aligning the series of base calls to a reference genome or sequence using an aligner; determining intensity value thresholds and parameters of a linear transformation corresponding to different homopolymer lengths and nucleotide species; generating series of base calls corresponding to the series of measured intensity values using at least some of the parameters of a linear transformation; and recalibrating the series of base calls corresponding to the plurality of series of measured intensity values using at least some of the intensity value thresholds. | 10-23-2014 |
20140315199 | GENE FUSIONS AND GENE VARIANTS ASSOCIATED WITH CANCER - The disclosure provides gene fusions, gene variants, and novel associations with disease states, as well as kits, probes, and methods of using the same. | 10-23-2014 |
20140308730 | CONJUGATES OF BIOMOLECULES TO NANOPARTICLES - Disclosed herein are conjugates comprising a biomolecule linked to a label that have biological activity and are useful in a wide variety of biological applications. For example, provided herein are polymerase-nanoparticle conjugates including a polymerase linked to a nanoparticle, wherein the conjugate has polymerase activity. Such conjugates can exhibit reduced aggregation and improved stochiometries wherein the average biomolecule:nanoparticle ratio approaches or equals 1:1. Also disclosed herein are improved methods for preparing such conjugates, and methods and systems for using such conjugates in biological applications such as nucleotide incorporation, primer extension and single molecule sequencing. | 10-16-2014 |
20140308666 | DEVELOPMENT OF NOVEL DETERGENTS FOR USE IN PCR SYSTEMS - This disclosure relates to novel detergents for use in various procedures including, for example, nucleic acid amplification reactions such as polymerase chain reaction (PCR). Methods for preparing the modified detergents are also described. | 10-16-2014 |
20140303038 | 3' Biased Detection of Nucleic Acids - The invention provides materials and methods for the detection of nucleic acid expression via the 3′ portion of expressed sequences. Embodiments of the invention include the use of microarrays comprising nucleic acid probes that are complementary to the 3′ end of expressed sequences and by the use of quantitative PCR (Q-PCR) based amplification of sequences found at or near the 3′ end of expressed sequences. The invention may be used to detect the presence of expressed nucleic acids encoding particular gene products (sequences present in a “transcriptome”). | 10-09-2014 |
20140296093 | USE 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. | 10-02-2014 |
20140296080 | Methods, Systems, and Computer Readable Media for Evaluating Variant Likelihood - A method for evaluating variant likelihood includes: providing a plurality of template polynucleotide strands, sequencing primers, and polymerase in a plurality of defined spaces disposed on a sensor array; exposing the plurality of template polynucleotide strands, sequencing primers, and polymerase to a series of flows of nucleotide species according to a predetermined order; obtaining measured values corresponding to an ensemble of sequencing reads for at least some of the template polynucleotide strands in at least one of the defined spaces; and evaluating a likelihood that a variant sequence is present given the measured values corresponding to the ensemble of sequencing reads, the evaluating comprising: determining a measurement confidence value for each read in the ensemble of sequencing reads and modifying at least some model-predicted values using a first bias for forward strands and a second bias for reverse strands. | 10-02-2014 |
20140295437 | Cyanine compounds and their application as quenching compounds - The present invention provides methods and non-fluorescent carbocyanine quencher compounds having the general formula: | 10-02-2014 |
20140295422 | Quantitative Real-Time PCR Assay Using FRET Dual-labeled Primers - This specification relates to non-radioactive methods, compositions and kits for non-radioactive real-time PCR using FRET dual-labeled primers and do not require the use of a probe. The non-radioactive methods may also be used for end-point PCR in which the signal is measured only at the endpoint of the PCR cycling. The dual-labeled primer maintains the molecular tether between fluorophore and quencher. Kits are also provided for the quantification or detection of one or more target nucleic acid molecules in a sample during nucleic acid synthesis, and include a dual-labeled oligonucleotide. | 10-02-2014 |
20140294268 | Methods and Systems for Streamlining Optical Calibration - A method for calibrating a biological instrument is provided. The method comprises the steps of acquiring an image of at least one biological sample array, determining a first region of interest within the image, wherein the first region of interest comprises a first plurality of locations on the at least one biological array; and identifying within the first region of interest, a plurality of image elements associated with each of the first plurality of locations on the at least one biological array. | 10-02-2014 |
20140288116 | Classification and Actionability Indices for Lung Cancer - The disclosure provides compositions, kits, and methods for detecting a plurality of genes and associated variants in a sample from a subject with lung cancer. The compositions, kits, and methods include a set of oligonucleotides, typically primers and/or probes that can hybridize to identify a gene variant. The methods disclosed herein provide for a mutation status of a tumor to be determined and subsequently associated with an actionable treatment recommendation. | 09-25-2014 |
20140274774 | UNIVERSAL REPORTER-BASED GENOTYPING METHODS AND MATERIALS - The present disclosure is drawn to methods for detection, quantitation and analysis of nucleotides of interest, for example SNPs, in nucleic acid sequences of interest using universal FRET-based reporter primers. | 09-18-2014 |
20140274733 | Methods and Systems for Local Sequence Alignment - A method for nucleic acid sequencing includes: (a) disposing a plurality of template polynucleotide strands in a plurality of defined spaces disposed on a sensor array, at least some of the template polynucleotide strands having a sequencing primer and a polymerase operably bound therewith; (b) exposing the template polynucleotide strands with the sequencing primer and a polymerase operably bound therewith to a series of flows of nucleotide species flowed according to a predetermined ordering; (c) determining sequence information for a plurality of the template polynucleotide strands in the defined spaces based on the flows of nucleotide species to generate a plurality of sequencing reads corresponding to the template polynucleotide strands; and (d) aligning the plurality of sequencing reads using an alignment process comprising a first set of alignment criteria or penalties that are based on biological changes in sequence and a second set of alignment criteria or penalties that are based on a sequencing error mode. | 09-18-2014 |
20140273324 | METHODS FOR MANUFACTURING CHEMICAL SENSORS WITH EXTENDED SENSOR SURFACES - In one implementation, a method for manufacturing a chemical sensor is described. The method includes forming a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A dielectric material is formed defining an opening extending to the upper surface of the floating gate conductor. A conductive material is formed within the opening and on an upper surface of the dielectric material. A fill material is formed on the conductive material. The fill material is used as a protect mask to remove the conductive material on the upper surface of the dielectric material. The fill material is then removed to expose remaining conductive material on a sidewall of the opening. | 09-18-2014 |
20140273219 | DIFFERENTIATED CELLULAR COMPOSITIONS AND METHODS FOR THEIR PREPARATION AND USE - The present invention relates to methods for culturing progenitor cells to differentiate primarily into a single population of cells with the same phenotype, and to compositions thereof. In particular, it relates to methods for culturing liver progenitor cells to differentiate primarily into a single population of hepatocyte-like cells, and to compositions thereof. | 09-18-2014 |
20140273205 | ANIMAL CELL CULTURE MEDIA COMPRISING NON ANIMAL OR PLANT DERIVED NUTRIENTS - The present invention provides serum-free cell culture media formulations which are capable of supporting the in vitro cultivation of animal cells. The media comprise at least one nutrient of non-animal derivation, such as at least one plant peptide and/or at least one non-animal or plant lipid and/or fatty acid. The media may further optionally comprise an enzymatic digest or extract of yeast cells. The present invention also provides methods of cultivating animal cells in vitro using these cell culture media formulations. In addition, the media of the present invention can be used for growth of animal cells for virus production. | 09-18-2014 |
20140272980 | SYSTEMS AND METHODS TO CONTROL DISSOLVED GAS - A method of sensing nucleotide reactions includes flowing at least one nucleotide solution from a container of at least two containers of a sensor system. The sensor system includes a sensor sensitive to a byproduct of nucleotide incorporation. Each container of the at least two containers includes a different nucleotide solution. The sensor system enters an idle mode after flowing. The method further includes cycling the at least two containers through at least two cycles. Each cycle includes depressurizing the at least two containers for a first period and pressurizing the at least two containers for a second period. The method also includes pressurizing the at least two containers when the sensor system enters an active mode. | 09-18-2014 |
20140272940 | METHODS FOR DETECTION OF MULTIPLE TARGET NUCLEIC ACIDS - The present disclosure, in some embodiments, relates to compositions and methods for detection of multiple target nucleic acid sequences by a single nucleic acid amplification based assay (e.g. PCR). Compositions comprising two or more primers are described for multiple target nucleic acid detection. Methods for differential detection of microorganisms (including strains/serovars/subtypes thereof) and cell types comprise a single step method to detect a signature of target nucleic acid sequences comprising: two, three or more target nucleic acids that are uniquely present in a microorganism/strain/serovar/subtype and/or cell and absent in other closely related organisms/cells. Embodiments relate to methods of diagnosis of diseases or conditions that can be detected by detecting the presence of two or more nucleic acid target markers. | 09-18-2014 |
20140271402 | FLUIDICS SYSTEM FOR SEQUENTIAL DELIVERY OF REAGENTS - The invention provides a passive fluidics circuit for directing different fluids to a common volume, such as a reaction chamber or flow cell, without intermixing or cross contamination. The direction and rate of flow through junctions, nodes and passages of the fluidics circuit are controlled by the states of upstream valves (e.g. opened or closed), differential fluid pressures at circuit inlets or upstream reservoirs, flow path resistances, and the like. Free diffusion or leakage of fluids from unselected inlets into the common outlet or other inlets at junctions or nodes is prevented by the flow of the selected inlet fluid, a portion of which sweeps by the inlets of unselected fluids and exits the fluidics circuit by waste ports, thereby creating a barrier against undesired intermixing with the outlet flow through leakage or diffusion. The invention is particularly advantageous in apparatus for performing sensitive multistep reactions, such as pH-based DNA sequencing reactions. | 09-18-2014 |
20140264472 | CHEMICAL SENSOR WITH CONSISTENT SENSOR SURFACE AREAS - In one embodiment, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A material defines an opening extending to the upper surface of the floating gate conductor, the material comprising a first dielectric underlying a second dielectric. A conductive element contacts the upper surface of the floating gate conductor and extending a distance along a sidewall of the opening. | 09-18-2014 |
20140264471 | CHEMICAL DEVICE WITH THIN CONDUCTIVE ELEMENT - In one implementation, a chemical device is described. The sensor includes a chemically-sensitive field effect transistor including a floating gate structure having a plurality of floating gate conductors electrically coupled to one another. A conductive element overlies and is in communication with an uppermost floating gate conductor in the plurality of floating gate conductors. The conductive element is wider and thinner than the uppermost floating gate conductor. A dielectric material defines an opening extending to an upper surface of the conductive element. | 09-18-2014 |
20140264470 | CHEMICAL SENSORS WITH CONSISTENT SENSOR SURFACE AREAS - In one embodiment, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A material defines an opening extending to the upper surface of the floating gate conductor. The material comprises a first dielectric underlying a second dielectric. A conductive element contacts the upper surface of the floating gate conductor and extends a distance along a sidewall of the opening, the distance defined by a thickness of the first dielectric. | 09-18-2014 |
20140264469 | CHEMICAL SENSOR WITH SIDEWALL SENSOR SURFACE - In one embodiment, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor. A material defines an opening overlying the floating gate conductor. The material comprises a conductive element having an inner surface defining a lower portion of a sidewall of the opening. A dielectric is on the conductive element and has an inner surface defining an upper portion of the sidewall. | 09-18-2014 |
20140264466 | CHEMICAL SENSOR WITH PROTRUDED SENSOR SURFACE - In one implementation, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A dielectric material defines an opening extending to the upper surface of the floating gate conductor. A conductive element on a sidewall of the opening and extending over an upper surface of the dielectric material. | 09-18-2014 |
20140264465 | CHEMICAL SENSORS WITH PARTIALLY EXTENDED SENSOR SURFACES - In one implementation, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A dielectric material defines an opening extending to the upper surface of the floating gate conductor. A conductive element is on a sidewall of the opening and spaced away from an upper surface of the dielectric material, the conductive element communicating with the floating gate conductor. | 09-18-2014 |
20140264464 | CHEMICAL SENSOR WITH SIDEWALL SPACER SENSOR SURFACE - In one implementation, a chemical sensor is described. The chemical sensor includes chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A dielectric material defines an opening extending to the upper surface of the floating gate conductor. A conductive sidewall spacer is on a sidewall of the opening and contacts the upper surface of the floating gate conductor. | 09-18-2014 |
20140264322 | CHEMICAL SENSOR WITH PROTRUDED SENSOR SURFACE - In one implementation, a chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A conductive element protrudes from the upper surface of the floating gate conductor into an opening. A dielectric material defines a reaction region. The reaction region overlies and extends below an upper surface of the conductive element. | 09-18-2014 |
20140261736 | FLUIDICS SYSTEM FOR SEQUENTIAL DELIVERY OF REAGENTS - The invention provides a passive fluidics circuit for directing different fluids to a common volume, such as a reaction chamber or flow cell, without intermixing or cross contamination. The direction and rate of flow through junctions, nodes and passages of the fluidics circuit are controlled by the states of upstream valves (e.g. opened or closed), differential fluid pressures at circuit inlets or upstream reservoirs, flow path resistances, and the like. Free diffusion or leakage of fluids from unselected inlets into the common outlet or other inlets at junctions or nodes is prevented by the flow of the selected inlet fluid, a portion of which sweeps by the inlets of unselected fluids and exits the fluidics circuit by waste ports, thereby creating a barrier against undesired intermixing with the outlet flow through leakage or diffusion. The invention is particularly advantageous in apparatus for performing sensitive multistep reactions, such as pH-based DNA sequencing reactions. | 09-18-2014 |
20140261721 | System and Method for Acoustic Focusing Hardware and Implementations - The present invention is a method and apparatus for acoustic focusing hardware and implementations. | 09-18-2014 |
20140256571 | Systems and Methods for Determining Copy Number Variation - A method of identifying a copy number variations reads includes mapping reads to a reference genome, computing coverage for a plurality of tiles, and normalizing the coverage for a tile based on a coverage mode across the plurality of tiles. The method further includes determining a score for the plurality of tiles being in a plurality of ploidy states, determining a maximum score path across the tiles and through the ploidy states, and providing a copy number determination based on the maximum score path. | 09-11-2014 |
20140256565 | METHODS FOR HLA TYPING - The present invention relates to methods for reducing the ambiguity in human leukocyte antigen (HLA) allele identification. In particular, the methods comprise using target specific oligonucleotide (TSO) techniques to determine a first set of possible HLA alleles. The methods further comprise using sequence-based typing (SBT) to obtain a second set of possible HLA alleles. The two sets of the possible HLA alleles are then combined to determine at least one common allele identified in the both the TSO and SBT assays, thus reducing the ambiguity associated with current HLA typing procedures. | 09-11-2014 |
20140248705 | NUCLEIC ACID LADDERS - The present invention provides nucleic acid compositions or ladders which may be used as standards for estimating the size (in base pairs) and or mass of nucleic acid molecules of unknown size and/or mass. The invention also relates to methods for producing such compositions or ladders, ladders or compositions produced by such methods, and to methods for estimating the size and/or mass of nucleic acid molecules by comparison to these nucleic acid sizing ladders. | 09-04-2014 |
20140248692 | SYSTEMS AND METHODS FOR NUCLEIC ACID-BASED IDENTIFICATION - Systems and methods for calculating a predictive index of identity of a nucleic acid sample using polymorphic genetic marker data are provided. In one embodiment, a predictive index of identity of the nucleic acid sample is calculated using a value from a second set of data from a polymorphic genetic marker that is not linked to a polymorphic genetic marker used to produce a first set of data. In another embodiment, the predictive index of identity is calculated using a value from a second set of data from a polymorphic genetic marker that is linked to a polymorphic genetic marker used to produce the first set of data. Systems and methods for generating an identifier for a biological sample and for verifying a relationship between a biological sample and an identifier are also provided. The identifier is an encoding of a set of values for polymorphic genetic markers. | 09-04-2014 |
20140248626 | METHODS FOR REMOVING NUCLEIC ACID CONTAMINATION FROM REAGENTS - In general, the disclosed method can be used to remove contaminating microbes and nucleic acids from microorganisms-derived reagents, apparatus and processes (materials and apparatus) related to PCR (and RT-PCR), including sample prep reagents and materials that are used to isolate, purify and detect nucleic acids. | 09-04-2014 |
20140248623 | System and Method for Determining Copies-per-Unit-Volume Using PCR and Flow Control of Droplets - Methods and systems for quantification of a target nucleic acid in a sample are provided. The method includes forming a plurality of discrete sample portions. Each of the plurality of discrete sample portions comprising a portion of the sample, and a reaction mixture. The method further includes amplifying the plurality of discrete sample portions to form a plurality of discrete processed sample portions. At least one discrete processed sample portion containing nucleic acid amplification reaction products. Fluorescence signals are detected from the at least one of the plurality of discrete processed sample portions to determine a presence of the at least one target nucleic acid. The method also includes determining the respective volumes of the plurality of the plurality of discrete processed sample portions, and estimating the number of copies-per-unit-volume of the at least one target nucleic acid in the sample. Estimating the number of copies-per-unit-volume is based on the number of discrete processed sample portions determined to contain the at least one target nucleic acid therein. | 09-04-2014 |
20140248610 | Reagents, 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. 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 immobilized beads. The invention further provides sets of labeled extension probes containing phosphorothiolate linkages. 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. | 09-04-2014 |
20140243232 | NUCLEIC ACID COMPLEXITY REDUCTION - In some embodiments, the present teachings provide compositions, systems, methods and kits for reducing the complexity of nucleotide sequences in a nucleic acid sample comprising the steps: hybridizing a plurality of polynucleotide constructs to at least one blocker oligonucleotide and to at least one capture oligonucleotide, wherein the plurality of polynucleotide constructs include a plurality of polynucleotides each joined to at least one nucleic acid adaptor, wherein the at least one nucleic acid adaptor can hybridize to the at least one blocker oligonucleotide, and wherein the at least one capture oligonucleotide can hybridize to at least a portion of target polynucleotides that are a sub-population of the plurality of polynucleotides, so as to produce a capture duplex. | 08-28-2014 |
20140242630 | Laser Microdissection Method and Apparatus - Systems and methods for automated laser microdissection are disclosed. In one variation, targeted biological material is manually or automatically selected and a transfer film is placed in juxtaposition to the location of an interior of a cut path. In another variation, a sample of biological material is mounted onto a polymer membrane which is then placed onto a substrate. Targeted biological material is manually or automatically selected and a transfer film is placed in juxtaposition with the targeted biological material on the side of the biological material. In yet another variation, a sample of biological material is mounted onto a polymer membrane which is then inverted onto a substrate. Targeted biological material is manually or automatically selected and a transfer film is placed in juxtaposition with the targeted biological material on the side of the polymer membrane. Then, an UV laser cuts along a cut path around the targeted portions of biological material in a closed cut path or a substantially closed cut path defining an interior and an exterior portion of the tissue sample. In a substantially closed cut path, bridges are left spanning the interior of the cut path and the exterior of the cut path. An IR laser activates at least a portion of the transfer film such that the transfer film in the vicinity of targeted portion adheres to the biological material interior to the cut path. The transfer film is then removed separating the targeted portions of biological material which are adhered to the transfer film from the remaining portion of the tissue sample. | 08-28-2014 |
20140236496 | Methods and Systems for Visualizing and Evaluating Data - A computer-implemented method of generating a digital polymerase chain reaction (dPCR) result is provided. The method includes detecting a first set of emission data from a plurality of samples, each included in a sample region of a plurality of sample regions, at a first time during an amplification period. The method further includes determining a positive or negative amplification determination for each sample of the plurality of samples based in part on the first set of emission data. A dPCR result is generated based on the positive or negative amplification determinations for the plurality of samples. | 08-21-2014 |
20140235845 | SEQUENCE AMPLIFICATION WITH LOOPABLE PRIMERS - The present disclosure relates to the amplification of target nucleic acid sequences. This can be accomplished via the use of various primers. The use of these primers, as described herein, results in nucleic acid structures that can reduce the amplification of nonspecific hybridization events (such as primer dimerization) while allowing the amplification of the target nucleic acid sequences. | 08-21-2014 |
20140235463 | METHODS AND APPARATUS FOR MEASURING ANALYTES - Methods and apparatus relating to FET arrays including large FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions. | 08-21-2014 |
20140235452 | METHODS AND APPARATUS FOR MEASURING ANALYTES - Methods and apparatus relating to FET arrays including large FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions. | 08-21-2014 |
20140234979 | Rapid Protein Labeling and Analysis - The present invention provides methods and compositions for labeling, separating and analyzing proteins, particularly a specific protein of interest within a cell lysate or in a mixture of proteins. The proteins are labeled with an amine reactive or thiol reactive fluorescent dye, or an amine reactive fluorogenic reagent that becomes fluorescent upon reacting to amine groups located on the protein. Following the labeling step, the proteins within the mixture can be separated and analyzed. In a further embodiment, a tag binding fluorogenic reagent that can bind to a tag on a tagged protein is added to specifically label the protein of interest. | 08-21-2014 |
20140234940 | MUTANT RB69 DNA POLYMERASE - Provided herein are mutant DNA-dependent polymerases which are derived from, or otherwise related to, wild type RB69 DNA polymerase. These mutant polymerases are capable of selectively binding labeled nucleotides. These mutant polymerases are also capable of incorporating a variety of naturally occurring and modified nucleotides, including, for example, terminator nucleotides. | 08-21-2014 |
20140234853 | NUCLEOTIDE TRANSIENT BINDING FOR SEQUENCING METHODS - Provided herein are compositions and systems for use in polymerase-dependent, nucleotide transient-binding methods. The methods are useful for deducing the sequence of a template nucleic acid molecule and single nucleotide polymorphism (SNP) analyses. The methods rely on the fact that the polymerase transient-binding time for a complementary nucleotide is longer compared to that of a non-complementary nucleotide. The labeled nucleotides transiently-binds the polymerase in a template-dependent manner, but does not incorporate. The methods are conducted under any reaction condition that permits transient binding of a complementary or non-complementary nucleotide to a polymerase, and inhibits nucleotide incorporation. | 08-21-2014 |
20140234281 | METHODS FOR ELIMINATING AT LEAST A SUBSTANTIAL PORTION OF A CLONAL ANTIGEN-SPECIFIC MEMORY T CELL SUBPOPULATION - The present invention relates generally to methods for stimulating T cells, and more particularly, to methods to eliminate undesired (e.g., autoreactive, alloreactive, pathogenic) subpopulations of T cells from a mixed population of T cells, thereby restoring the normal immune repertoire of said T cells. The present invention also relates to compositions of cells, including stimulated T cells having restored immune repertoire and uses thereof. | 08-21-2014 |
20140233816 | METHODS AND SYSTEMS FOR BACKGROUND SUBTRACTION IN AN IMAGE - A method for improving image quality is provided. The method includes receiving image data of a substrate, wherein the image data is generated by imaging the substrate, and an image is generated from the image data. The method further includes generating a background representation from a background noise portion of the image, wherein the background portion includes signal information undesired for further processing and generating a background subtracted image by subtracting the background rep resentation from the image. In this way, a separate background image is not needed to subtract the background from the image including the regions-of-interest to improve image quality. | 08-21-2014 |
20140231260 | ELECTROPHORESIS GEL CASSETTE AND COMB - Provided herein is an apparatus for gel electrophoresis comprising a cassette and a comb having at least one wedge-shaped tooth. | 08-21-2014 |
20140222399 | Predictive Model for Use in Sequencing-by-Synthesis - A method of obtaining a more accurate estimate of a signal correction parameter(s) in sequencing-by-synthesis operations, such as incomplete extension rates, carry forward rates, and/or signal droop rates. The sequencing operation produces signal data. A model is constructed to simulate a population of template strands as it undergoes the sequencing process and becomes divided into different phase-states as the sequencing-by-synthesis progresses. For example, the model may be a phase-state model. The output from the model is used to adjust the signal correction parameter(s). For example, the model may be fitted to the signal data. This fitting results in a more accurate estimate of the signal correction parameter(s). In another embodiment, the signal droop rate is modeled as a decaying function and this decaying function is fitted to the signal data to obtain an improved estimate of the signal droop rate. | 08-07-2014 |
20140221254 | Chromosome Conformation Analysis - Disclosed herein are compositions, methods and kits for analyzing three-dimensional chromatin and/or chromosome conformation. Method are also disclosed for using the methods disclosed herein for diagnosing diseases such as cancer. | 08-07-2014 |
20140220697 | CHEMICAL SENSOR WITH CONDUCTIVE CUP-SHAPED SENSOR SURFACE - A system includes a sensor including a sensor pad and a well wall structure defining a well operatively coupled to the sensor pad. The well is further defined by a lower surface disposed over the sensor pad. The well wall structure defines an upper surface and defines a wall surface extending between the upper surface and the lower surface. The system further includes a conductive layer disposed over the lower surface and the wall surface. | 08-07-2014 |
20140220612 | FLUORINATED RESORUFIN COMPOUNDS AND THEIR APPLICATION - The invention provides novel fluorinated resorufin compounds that are of use in a variety of assay formats. Also provided are methods of using the compounds and kits that include a compound of the invention and instructions detailing the use of the compound in one or more assay formats. | 08-07-2014 |
20140220558 | Methods and Systems for Nucleic Acid Sequence Analysis - Disclosed are new and improved methods and systems for nucleic acid sequence analysis that can analyze data indicative of natural by-products of nucleotide incorporation events without the need for exogenous labels or dyes to identify nucleic acid sequences of interest. In particular, the methods and systems of the present teachings can process such data and various forms thereof to align fragments of the nucleic acid(s) of interest, particularly those analyzed using an addition sequencing technique, for example, as occurs with the use of nucleotide flows. | 08-07-2014 |
20140217477 | ELECTRIC FIELD DIRECTED LOADING OF MICROWELL ARRAY - An apparatus includes a device substrate including an array of sensors. Each sensor of the array of sensors can include a electrode structure disposed at a surface of the device substrate. The apparatus further includes a wall structure overlying the surface of the device substrate and defining an array of wells at least partially corresponding with the array of sensors. The well structure including an electrode layer and an insulative layer. | 08-07-2014 |
20140213487 | Systems and Methods for Biological Analysis - A biological analysis system is provided. The system comprises an interchangeable assembly configured to accommodate any one of a plurality of sample holders, each respective sample holder configured to receive a plurality of samples. The system also includes a control system configured to cycle the plurality of samples through a series of temperatures. The system further includes an optical system configured to detect fluorescent signals emitted from the plurality of samples. The optical system, in particular, can comprise a single field lens, an excitation source, an optical sensor, and a plurality of filter components. The excitation source can be one or more light emitting diodes. The field lens can be a bi-convex lens. | 07-31-2014 |
20140209982 | SELF-ALIGNED WELL STRUCTURES FOR LOW-NOISE CHEMICAL SENSORS - In one implementation, a chemical detection device is described. The device includes a chemically-sensitive field effect transistor including a floating gate conductor coupled to a gate dielectric and having an upper surface, and a sensing material on the upper surface. The device also includes a fill material defining a reaction region extending above the sensing material, the reaction region overlying and substantially aligned with the floating gate conductor. | 07-31-2014 |
20140206848 | OLIGOSACCHARIDE MODIFICATION AND LABELING OF PROTEINS - The present invention generally relates to methods of functionalizing proteins, particularly antibodies, at oligosaccharide linkages, methods of humanizing antibodies by modifying glycosylation, as well as to novel antibodies linked to modified oligosaccharides. The invention further relates to kits that may be used to produce the antibodies of the invention. | 07-24-2014 |
20140206577 | COMPOSITIONS 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. | 07-24-2014 |
20140206096 | STABLE INDIUM-CONTAINING SEMICONDUCTOR NANOCRYSTALS - Nanocrystals having an indium-based core and methods for making them and using them to construct core-shell nanocrystals are described. These core-shell nanocrystals are highly stable and provide higher quantum yields than known nanocrystals of similar composition, and they provide special advantages for certain applications because of their small size. | 07-24-2014 |
20140206000 | SEQUENCE AMPLIFICATION WITH LINEAR PRIMERS - The present disclosure relates to the amplification of target nucleic acid sequences for various sequencing and/or identification techniques. The use of these primers, as described herein, allows for the reduction in the amplification of nonspecific hybridization events (such as primer dimerization) while allowing for the amplification of the target nucleic acid sequences. | 07-24-2014 |
20140203169 | Flat-Field Imaging System and Methods of Use - A method of aligning a plurality of targets is provided. The method includes generating a plurality of targets. A third phase includes the plurality of targets. The method further includes combining a first phase, a second phase, and the third phase in a volume. The first phase, the second phase, and the third phase are substantially immiscible, and the third phase is in fluid communication with the first phase and the second phase, and the first phase, the second phase, and the third phase are operable to be in a configuration of the third phase between the first phase and the second phase in the volume. | 07-24-2014 |
20140202883 | APPARATUS AND METHODS FOR PERFORMING ELECTROCHEMICAL REACTIONS - The invention is directed to apparatus and methods for delivering multiple reagents to, and monitoring, a plurality of analytical reactions carried out on a large-scale array of electronic sensors under minimal noise conditions. In one aspect, the invention provides method of improving signal-to-noise ratios of output signals from the electronic sensors sensing analytes or reaction byproducts by subtracting an average of output signals measured from neighboring sensors where analyte or reaction byproducts are absent. In other aspects, the invention provides an array of electronic sensors integrated with a microwell array for confining analytes and/or particles for analytical reactions and a method for identifying microwells containing analytes and/or particles by passing a sensor-active reagent over the array and correlating sensor response times to the presence or absence of analytes or particles. Such detection of analyte- or particle-containing microwells may be used as a step in additional noise reduction methods. | 07-24-2014 |
20140201172 | Using Flow Space Alignment to Distinguish Duplicate Reads - Systems and method for identifying duplicate reads can receive first and second reads, determine if the first and second reads have a same start and end position, determine a binary flow difference, and identify the second read as a duplicate of the first read when the binary flow difference exceeds a threshold. | 07-17-2014 |
20140200148 | Apparatuses, Methods, Computer Program Products, And Kits for Hi-Throughput Glycan Analysis - An apparatus for glycan analysis is disclosed. The apparatus includes a plurality of loading wells adapted to receive a plurality of samples; a plurality of capillaries arranged in correspondence with the loading wells, each of the capillaries including a first portion including a stacking gel and a second portion including a resolving gel; and a plurality of eluting wells arranged in correspondence with the capillaries and adapted to receive a portion of the samples having traversed the capillaries. | 07-17-2014 |
20140199209 | METHODS AND PRODUCTS FOR ANALYZING POLYMERS - Methods and products for analyzing polymers are provided. The methods include methods for determining various other structural properties of the polymers. | 07-17-2014 |
20140194303 | ACTIVE CHEMICALLY-SENSITIVE SENSORS WITH RESET SWITCH - Methods and apparatus relating to FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions. | 07-10-2014 |
20140194302 | ACTIVE CHEMICALLY-SENSITIVE SENSORS WITH CORRELATED DOUBLE SAMPLING - Methods and apparatus relating to FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions. | 07-10-2014 |
20140194301 | ACTIVE CHEMICALLY-SENSITIVE SENSORS WITH IN-SENSOR CURRENT SOURCES - Methods and apparatus relating to FET arrays for monitoring chemical and/or biological reactions such as nucleic acid sequencing-by-synthesis reactions. Some methods provided herein relate to improving signal (and also signal to noise ratio) from released hydrogen ions during nucleic acid sequencing reactions. | 07-10-2014 |
20140194298 | Methods and Apparatus for Detecting Molecular Interactions Using FET Arrays - Methods and apparatuses relating to large scale FET arrays for analyte detection and measurement are provided. 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. | 07-10-2014 |
20140194297 | Methods and Apparatus for Detecting Molecular Interactions Using FET Arrays - Methods and apparatuses relating to large scale FET arrays for analyte detection and measurement are provided. 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. | 07-10-2014 |
20140193938 | CHEMICALLY SENSITIVE SENSOR WITH LIGHTLY DOPED DRAINS - A chemically sensitive sensor with a lightly doped region that affects an overlap capacitance between a gate and an electrode of the chemical sensitive sensor. The lightly doped region extends beneath and adjacent to a gate region of the chemical sensitive sensor. Modifying the gain of the chemically sensitive sensor is achieved by manipulating the lightly doped region under the electrodes. | 07-10-2014 |
20140193926 | PYRENYLOXYSULFONIC ACID FLUORESCENT AGENTS - The invention provides a novel class of reactive fluorescent agents that are based on a pyrene sulfonic acid nucleus. The agents are readily incorporated into conjugates with other species by reacting the reactive group with a group of complementary reactivity on the other species of the conjugate. Also provided are methods of using the compounds of the invention to detect and/or quantify an analyte in a sample. In an exemplary embodiment, the invention provides multi-color assays incorporating the compounds of the invention. | 07-10-2014 |
20140193841 | FLUOROGENIC SEMICONDUCTOR NANOCRYSTALS - Fluorogenic semiconductor nanocrystals and compositions thereof are provided herein, including kits, assay systems and methods for their preparation and use. | 07-10-2014 |
20140191293 | METHODS FOR MANUFACTURING WELL STRUCTURES FOR LOW-NOISE CHEMICAL SENSORS - In one implementation, a method for manufacturing a chemical detection device is described. The method includes forming a chemical sensor having a sensing surface. A dielectric material is deposited on the sensing surface. A first etch process is performed to partially etch the dielectric material to define an opening over the sensing surface and leave remaining dielectric material on the sensing surface. An etch protect material is formed on a sidewall of the opening. A second etch process is then performed to selectively etch the remaining dielectric material using the etch protect material as an etch mask, thereby exposing the sensing surface. | 07-10-2014 |
20140191292 | METHODS AND SYSTEMS FOR POINT OF USE REMOVAL OF SACRIFICIAL MATERIAL - A method of manufacturing a sensor, the method including forming an array of chemically-sensitive field effect transistors (chemFETs), depositing a dielectric layer over the chemFETs in the array, depositing a protective layer over the dielectric layer, etching the dielectric layer and the protective layer to form cavities corresponding to sensing surfaces of the chemFETs, and removing the protective layer. The method further includes, etching the dielectric layer and the protective layer together to form cavities corresponding to sensing surfaces of the chemFETs. The protective layer is at least one of a polymer, photoresist material, noble metal, copper oxide, and zinc oxide. The protective layer is removed using at least one of sodium hydroxide, organic solvent, aqua regia, ammonium carbonate, hydrochloric acid, acetic acid, and phosphoric acid. | 07-10-2014 |
20140187448 | Radio Frequency Identifiers for Use in Biological Science - Provided herein are biological research methods, kits, and products that utilize radio frequency identifier technology. | 07-03-2014 |
20140186831 | Solid Phases Optimized for Chemiluminescent Detection - Solid supports for chemiluminescent assays are provided. The solid support includes a plurality of probes covalently or physically attached to the support surface and a chemiluminescent enhancing moiety incorporated onto the surface or into the bulk of the support. The solid support can be a multi-layered support including an upper probe binding layer (e.g., an azlactone polymer layer or porous functional polyamide layer) adjacent to a cationic microgel layer. The azlactone-functional polymer can be a copolymer of dimethylacrylamide and vinylazlactone crosslinked with ethylenediamine. The cationic microgel layer can be a cross-linked quaternary onium salt containing polymer. A method and a kit for conducting chemiluminescent assays using the solid supports is also provided. The kit comprises a dioxetane substrate, a biopolymer probe-enzyme complex, and a solid support. The solid support can be an azlactone functional polymer layer adjacent to a cationic microgel layer; a porous polyamide functional layer adjacent to a cationic microgel layer; or a quaternized azlactone functional polymer layer. | 07-03-2014 |
20140180859 | SYSTEM AND METHOD FOR OFFERING AND MANAGING ONLINE PURCHASING CARD TRANSACTIONS - A purchase card system configured in accordance with the invention offers purchase card products that facilitate online purchases of life sciences research products and/or services via an e-commerce application. The acquisition and use of such purchase card products complies with mandated procurement, spending, and appropriations rules, regulations, and laws, such as the Federal Acquisition Regulation, the Anti-Deficiency Act, and the Department of Defense “bona fide needs” rule. | 06-26-2014 |
20140179566 | Thermal Cycling Apparatus and Method - A system for holding at least one of sample and reagent for analysis. The system includes a pair of parallel covers, at least one of which is light transmissive, of which pair a light transmissive cover forms a top, and of which pair the other forms a bottom. A frame is disposed between the covers to define, in relation to the covers, an interior volume. The frame and the covers are associated with one another to form a case, the case being substantially tight to liquids. A microfluidic array is disposed in the interior volume. The array includes a sheet of material having a pair of opposed surfaces, a thickness, and a plurality of through-holes running through the thickness between the surfaces, the through-holes containing at least one of sample and reagent. | 06-26-2014 |
20140178888 | METHODS AND COMPOSITIONS FOR EXOSOME ISOLATION - Disclosed are methods, compositions and kits for the isolation of exosomes from biological fluids and tissues. Volume-excluding polymers are used to precipitate exosomes from biological samples thereby allowing exosome isolation by low-speed (benchtop) centrifugation or filtration. Further fractionation of exosomes after precipitation is also described. | 06-26-2014 |
20140175305 | Methods for Detecting Defects in Inorganic-Coated Polymer Surfaces - Lipophilic fluorescent substances can be used to detect surface defects in materials having hydrophilic (e.g., inorganic) coatings. Use of the described methods makes surface defects appear fluorescent, while the remaining surfaces are not labeled. The disclosed methods are inexpensive, rapid, and easy alternatives to existing approaches. | 06-26-2014 |
20140171336 | Methods and Kits Using Extended Rhodamine Dyes - Extended rhodamine compounds exhibiting favorable fluorescence characteristics having the structure | 06-19-2014 |
20140170710 | METHODS AND COMPOSITIONS FOR SEAMLESS CLONING OF NUCLEIC ACID MOLECULES - The present invention is in the fields of biotechnology and molecular biology. More particularly, the present invention relates to cloning or subcloning one or more nucleic acid molecules comprising one or more type IIs restriction enzyme recognition sites. The present invention also embodies cloning such nucleic acid molecules using recombinational cloning methods such as those employing recombination sites and recombination proteins. The present invention also relates to nucleic acid molecules (including RNA and iRNA), as well as proteins, expressed from host cells produced using the methods of the present invention. | 06-19-2014 |
20140170656 | 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. | 06-19-2014 |
20140170653 | CHEMICAL LIGATION - Methods comprising chemical ligation of oligonucleotides are provided. In some embodiments, methods of detecting a polymorphisms in nucleic acids are provided. In some embodiments, methods of detecting at least one analyte are provided. In some embodiments, methods of labeling solid support particles are provided. Kits comprising oligonucleotides with chemically ligatable moieties are also provided. | 06-19-2014 |
20140154675 | Flash and Glow 1,2-Dioxetanes - Compounds having chemiluminescent flash and glow properties. Also disclosed are methods using the compounds to generate light, detect and/or quantify enzymes, antigens, and/or nucleic acids. Also disclosed are kits relating to these compounds. | 06-05-2014 |
20140148345 | NUCLEIC ACID AMPLIFICATION - In some embodiments, the present teachings provide methods for nucleic acid amplification, comprising forming a reaction mixture, and subjecting the reaction mixture to conditions suitable for nucleic acid amplification. In some embodiments, methods for nucleic acid amplification include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, methods for nucleic acid amplification include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the methods for nucleic acid amplification employ an enzyme that catalyzes homologous recombination and a polymerase. In some embodiments, methods for nucleic acid amplification can be conducted in a single reaction vessel. In some embodiments, methods for nucleic acid amplification can be conducted in a single continuous liquid phase of a reaction mixture, without need for compartmentalization of the reaction mixture or immobilization of reaction components. In some embodiments, methods for nucleic acid amplification comprise a amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer. The polymer can include a sieving agent and/or a diffusion-reducing agent. | 05-29-2014 |
20140147860 | Acoustic Cytometry Methods and Protocols - Various embodiments disclosed herein comprise acoustic cytometry based methods, kits, computer software methods and systems to analyze a variety of bioparticles. In one embodiment, a method for analyzing bioparticles comprises: acoustically focusing one or more bioparticles through an interrogation zone; optically exciting the one or more bioparticles in the interrogation zone with an excitation source; detecting an optical signal from the bioparticles; and analyzing the optical signal to characterize at least one quality or quantity parameter of the bioparticles. Properties of biomolecules that may be analyzed include but are not limited to cell proliferation analysis, live/dead cell discrimination, cell cycle analysis, basic phenotyping, immunophenotyping, rare-event detection, apoptosis, phagocytosis, pinocytosis, detection of phosphoproteins, detection of one or more cellular markers, detection of one or more intracellular marker, detection of cancer cells, detection of pathological markers on a cell, microbial cell analysis and/or picophytoplankton analysis. | 05-29-2014 |
20140147852 | NUCLEIC ACID AMPLIFICATION - In some embodiments, the present teachings provide methods for nucleic acid amplification, comprising forming a reaction mixture, and subjecting the reaction mixture to conditions suitable for nucleic acid amplification. In some embodiments, methods for nucleic acid amplification include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, methods for nucleic acid amplification include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the methods for nucleic acid amplification employ an enzyme that catalyzes homologous recombination and a polymerase. In some embodiments, methods for nucleic acid amplification can be conducted in a single reaction vessel. In some embodiments, methods for nucleic acid amplification can be conducted in a single continuous liquid phase of a reaction mixture, without need for compartmentalization of the reaction mixture or immobilization of reaction components. In some embodiments, methods for nucleic acid amplification comprise a amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer. The polymer can include a sieving agent and/or a diffusion-reducing agent. | 05-29-2014 |
20140142290 | COMPOSITIONS AND METHODS FOR PREPARING SHORT RNA MOLECULES AND OTHER NUCLEICACIDS - The invention provides methods of preparing nucleic acids, such as RNA molecules, of a defined size or range of sizes. The invention provides compositions, methods and kits for use in the production and preparation of small RNA molecules (including without limitation micro-RNA, siRNA, d-siRNA and e-siRNA) and other nucleic acids of various sizes. | 05-22-2014 |
20140142254 | Hydrophilic Polymeric Particles and Methods for Making and Using Same - A method of forming a particle includes, in a disperse phase within an aqueous suspension, polymerizing a plurality of mer units of a hydrophilic monomer having a hydrophobic protection group, thereby forming a polymeric particle including a plurality of the hydrophobic protection groups. The method further includes converting the polymeric particle to a hydrophilic particle. | 05-22-2014 |
20140141422 | Fast PCR for STR Genotyping - Disclosed is a method of amplifying a nucleic acid sequence, wherein the method comprises subjecting a reaction mixture to at least one amplification cycle, wherein the reaction mixture comprises a double-stranded nucleic acid and at least two primers capable of annealing to complementary strands of the double-stranded nucleic acid and amplifying at least one short tandem repeat (STR) using a Family A DNA polymerase in a Fast PCR protocol having a two-step amplification cycle in 25 seconds or less. Also disclosed are real-time PCR methods using the two-step protocol and kits for STR profiling using the Fast PCR protocol. | 05-22-2014 |
20140136603 | SYSTEMS AND METHODS FOR LABORATORY ASSAY VALIDATION OR VERIFICATION - Systems and methods are used to generate a protocol for an assay. At least one performance characteristic parameter of an assay and at least one standardized protocol for each assay of a plurality of assays and assay types are stored. A performance characteristic parameter selection and an assay selection are received from a client device of a laboratory. One or more performance characteristic parameters and a standardized protocol are retrieved from the database device. The client device is sent the one or more performance characteristic parameters and one or more study variable values. One or more amendments to the one or more performance characteristic parameters and one or more study variable values are received from the client device. A protocol for the assay is generated based on the one or more amendments. | 05-15-2014 |
20140134624 | METHODS, COMPOSITIONS, AND KITS FOR DETECTING PROTEIN AGGREGATES - The present teachings provide methods, compositions, and kits for detecting the presence of protein aggregates. In some embodiments, the protein aggregate is treated with a labeled precursor, and the labeled precursor is incorporated into the protein aggregate to form a labeled protein aggregate. The labeled protein aggregate is then measured, thus detecting the presence of the protein aggregate. In some embodiments, the labeled protein aggregate is detected by interaction of labeled precursors, for example by a proximity ligation assay. | 05-15-2014 |
20140134615 | DDAO Compounds as Fluorescent Reference Standards - According to the present teachings, methods and compositions are provided that utilize at least one reference dye of formula (I); | 05-15-2014 |
20140134614 | Novel Compositions, Methods and Kits for Enhancing PCR Specificity - The present disclosure provides novel primers and method for the detection of specific nucleic acid sequences. The primers and methods provided herein are useful in a wide variety of molecular biology applications and are particularly useful in allele-specific PCR. | 05-15-2014 |
20140131631 | Preparation of Stable, Bright Luminescent Nanoparticles Having Compositionally Engineered Properties - A method is provided for preparing luminescent semiconductor nanoparticles composed of a first component X, a second component A, and a third component B, wherein X, A, and B are different, by combining B with X and A in an amount such that the molar ratio B:(A+B) is in the range of approximately 0.001 to 0.20 and the molar ratio X:(A+B) is in the range of approximately 0.5:1.0 to 2:1. The characteristics of the thus-prepared nanoparticles can be substantially similar to those of nanoparticles containing only X and B while maintaining many useful properties characteristic of nanoparticles containing only X and A. The nanoparticles so prepared can additionally exhibit emergent properties such as a peak emission energy less than that characteristic of a particle composed of XA or XB alone; this method is particularly applicable to the preparation of stable, bright nanoparticles that emit in the red to infrared regions of the electromagnetic spectrum. Luminescent semiconductor nanoparticles having exemplary properties are also provided. | 05-15-2014 |
20140128291 | OLIGONUCLEOTIDES AND METHODS FOR THE PREPARATION OF RNA LIBRARIES - Disclosed are compositions and methods for the preparation of RNA libraries for sequencing, gene expression profiling, microarray and other uses and for simplification of the library preparation process. The disclosure provides blocking oligonucleotides which bind to byproduct nucleic acid molecules formed during the ligation of adapters to nucleic acid segments prior to sequencing and inhibit or block amplification of the byproduct nucleic acid molecules in subsequent amplification reactions. Methods for library preparation using blocking oligonucleotides are also provided. | 05-08-2014 |
20140128269 | SCAFFOLDED NUCLEIC ACID POLYMER PARTICLES 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. | 05-08-2014 |
20140127781 | ENZYMATIC NUCLEIC ACID SYNTHESIS: COMPOSITIONS AND METHODS FOR INHIBITING PYROPHOSPHOROLYSIS - Nucleotide triphosphate probes containing a molecular and/or atomic tag on a γ and/or β phosphate group and/or a base moiety having a detectable property are disclosed, and kits and method for using the tagged nucleotides in sequencing reactions and various assay. Also, phosphate and polyphosphate molecular fidelity altering agents are disclosed. | 05-08-2014 |
20140127702 | POLYMERIZATION OF NUCLEIC ACIDS USING PROTEINS HAVING LOW ISOELECTRIC POINTS - This disclosure relates to the use of one or more proteins (e.g., globular proteins) having a low isoelectric point and/or a limited number (e.g., zero) of modifying groups in nucleic acid polymerization and/or amplification reactions such as polymerase chain reaction (PCR). | 05-08-2014 |
20140127698 | REITERATIVE OLIGONUCLEOTIDE SYNTHESIS - In some embodiments, the disclosure relates generally to methods, as well as related compositions, systems, and kits, for nucleotide polymerization, oligonucleotide synthesis, detecting nucleotide polymerization, detecting the presence of a nucleic acid, oligonucleotide amplification and detection of oligonucleotide amplification, which can be conducted via an abortive transcription initiation reaction. In some embodiments, abortive transcription initiation reactions can generate multiple copies of an oligonucleotide which can be used to detect the presence of a nucleic acid or macromolecule. In some embodiments, generation of multiple copies of an oligonucleotide can be detected via a sensor that senses the presence of byproducts from a nucleotide incorporation or a nucleotide polymerization reaction. In some embodiments, the byproducts include pyrophosphate, hydrogen ion, charge transfer, and heat. In some embodiments, a abortive transcription initiation reaction can be conducted on a support that can be in contact with or capacitively coupled to at least one sensor. Optionally, the sensor comprises a field-effect transistor (FET). | 05-08-2014 |
20140127679 | Chemical probe compounds that become fluorescent upon reduction, and methods for their use - Chemical stain compounds containing a fluorophore and a reducible quenching unit are disclosed. The reducible quenching unit quenches the fluorophore while in its oxidized state. Upon reduction, the quenching properties of the quenching unit are diminished or eliminated. The chemical compounds can be used in a variety of applications, including the detection of bacterial cells, monitoring the electron transport chain function of bacterial cells, monitoring the oxidation state of non-biological systems, and assaying the effectiveness of antibacterial or antimicrobial agents. | 05-08-2014 |
20140120529 | COMPOSITIONS, METHODS, SYSTEMS AND KITS FOR TARGET NUCLEIC ACID ENRICHMENT - The present invention provides methods, compositions, kits, systems and apparatus that are useful for isolating nucleic acid molecules from a sample. In particular, the methods generally relate to normalizing the concentration of target nucleic acid molecules from a sample. In one aspect, the invention relates to purifying a primer extension product from a primer extension reaction mixture. In some aspects, nucleic acid molecules obtained using the disclosed methods, kits, systems and apparatuses can be used in various downstream processes including nucleic acid sequencing. | 05-01-2014 |
20140113303 | Chemical Coating of Microwell for Electrochemical Detection Device - The described embodiments may provide a method of fabricating a chemical detection device. The method may comprise forming a microwell above a CMOS device. The microwell may comprise a bottom surface and sidewalls. The method may further comprise applying a first chemical to be selectively attached to the bottom surface of the microwell, forming a metal oxide layer on the sidewalls of the microwell, and applying a second chemical to be selectively attached to the sidewalls of the microwell. The second chemical may lack an affinity to the first chemical. | 04-24-2014 |
20140113281 | Methods, Systems, and Computer Readable Media for Repeat Sequencing - A method for sequencing a nucleic acid template includes: (a) performing a first sequencing process including flowing nucleotides and/or reagents to the nucleic acid template according to a first predetermined ordering of nucleotides and/or reagents to obtain a first sequencing result; (b) after the first sequencing process, performing a second sequencing process including flowing nucleotides and/or reagents to the nucleic acid template according to a second predetermined ordering of nucleotides and/or reagents to obtain a second sequencing result, the second predetermined ordering of nucleotides and/or reagents being different from the first predetermined ordering of nucleotides and/or reagents and at least one of the first and second predetermined orderings of nucleotides and/or reagents being designed for repeat sequencing; and (c) determining a sequence of bases corresponding to at least a portion of the nucleic acid template using both the first sequencing result and the second sequencing result. | 04-24-2014 |
20140100122 | METHODS, COMPOSITIONS AND SYSTEMS FOR SAMPLE DEPOSITION - Methods, compositions, systems, apparatus, and kits are provided for depositing samples onto surfaces. The samples can include one or more particles, and the surface can include one or more reaction chambers. In some embodiments, the depositing can include the use of companion particles in combination with sample particles. | 04-10-2014 |
20140099645 | CHEMICALLY-ENHANCED PRIMER COMPOSITIONS, METHODS AND KITS - A composition is provided comprising a negatively charged group, an oligonucleotide sequence and at least none or one nuclease-resistant linkage group to form a chemically-enhanced primer. The chemically-enhanced primer can be used for sequencing and fragment analysis. Methods for synthesizing the primer as well as a method of preparing DNA for sequencing and a method of sequencing DNA and kits containing the chemically-enhanced primer are also provided. The method of sequencing DNA can comprise contacting amplification reaction products with the composition under conditions in which excess amplification primer is degraded by the nuclease and the chemically-enhanced primer is essentially non-degraded. | 04-10-2014 |
20140097086 | METHODS FOR PRODUCTION OF PROTEINS - The current invention provides methods for producing a polypeptide as inclusion bodies in bacterial host cells. The present methods are carried out by forming a gene construct comprising the genetic sequence encoding a polypeptide operatively linked to that of an inclusion partner protein, such that host cells comprising the gene construct produce the polypeptide as intracellular inclusion bodies thereby facilitating rapid isolation and purification of recombinant proteins. The invention further provides methods for producing protein molecular weight ladders for us in protein gel electrophoresis, as well as proteins and protein molecular weight ladders produced by these methods. | 04-10-2014 |
20140094608 | MODIFIED CARBOCYANINE DYES AND THEIR CONJUGATES - Chemically reactive carbocyanine dyes incorporating an indolium ring moiety that is substituted at the 3-position by a reactive group or by a conjugated substance, and their uses, are described. Conjugation through this position results in spectral properties that are uniformly superior to those of conjugates of spectrally similar dyes wherein attachment is at a different position. The invention includes derivative compounds having one or more benzo nitrogens. | 04-03-2014 |
20140093881 | Methods and Computer Program Products for Compression of Sequencing Data - A compression method includes: measuring a waveform associated with a chemical event occurring on a sensor array, wherein the waveform comprises a plurality of measured values and the chemical event is indicative of a number of nucleotide incorporations in a genetic sequencing reaction; applying a first compression process to the waveform, the first compression process including a truncating of data corresponding to a portion of the waveform that is not related to nucleotide incorporations in the genetic sequencing reaction; and applying a second compression process to the waveform, the second compression process including a data substitution process that replaces at least a portion of the waveform with a plurality of coefficients representative of the portion of the waveform. | 04-03-2014 |
20140091901 | SYSTEM AND METHOD FOR CONTROLLING ACCESS TO A LOCAL INVENTORY STORAGE SYSTEM VIA A REMOTE E-COMMERCE APPLICATION - A local inventory control system according to the invention can be remotely regulated by a centralized server architecture. The local inventory control system contains product offered by a business entity, and the same business entity can control unlocking of the local inventory control system using the centralized server architecture. In a practical implementation, the inventory control features are integrated with e-commerce features such that the local inventory control system can be automatically unlocked subsequent to the completion of online purchase transactions initiated at the local site. The inventory control system is well-suited as part of a supply program to manage vendor inventories of life science research products. | 04-03-2014 |
20140088880 | Systems and Methods for Versioning Hosted Software - Systems and methods for performing a validated analysis can include access to first and second versions of an analysis engine. The first version of the analysis engine can be used to perform a previously validated analysis. After the second version is made available, the first version can be continued to be used while the second version undergoes validation. The user can initiate a migration from the first version to the second version when the validation is complete. Access to both versions can be maintained for a period of time to allow users to migrate on their own schedule, and a common login interface can direct the user to a default version or allow the user to select an alternate version. | 03-27-2014 |
20140087962 | Identification of Linkage Using Multiplex Digital PCR - This specification generally relates to methods of detecting the linkage between two or more targets in a sample using digital multiplex PCR. A method of identifying physical linkage between two or more nucleic acid targets in a sample is provided. The method includes diluting the sample via limiting dilution and aliquoting the diluted sample into wells. The method further includes performing multiplex PCR in each chamber, where a first dye is used for the first target and a second dye is used for the second target. The method includes identifying the presence of the first and second dyes in the wells, wherein a non-random distribution of the dyes identifies the targets as linked. | 03-27-2014 |
20140080966 | Hydrophobic Diacrylamide Compound - A silyl protected diacrylamide compound is described. A method of forming such a compound includes mixing a silylation reagent with a hydroxylated diamine compound under first reactive conditions to form a product in a first solution, separating the product from the first solution, and mixing the product with acryloyl chloride under second reactive conditions in a second solution to form a silyl protected diacrylamide compound. | 03-20-2014 |
20140080719 | METHODS AND APPARATUS FOR DETECTING MOLECULAR INTERACTIONS USING FET ARRAYS - Methods and apparatuses relating to large scale FET arrays for analyte detection and measurement are provided. 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. | 03-20-2014 |
20140080718 | Systems and Methods for Identifying Sequence Variation Associated with Genetic Diseases - Systems and method for identifying variants associated with a genetic disease can include obtaining calls for a plurality of individuals for a list of variant positions. The calls can be compared to identify variants that are found in affected individuals and absent in non-affected individuals. Such variants can include loss of heterozygosity, trans-phased compound heterozygotes, increased frequency mitochondrial variants, homozygous recessive variants, de novo variants, sex-linked variants, and combinations thereof. | 03-20-2014 |
20140080717 | NUCLEIC ACID AMPLIFICATION - In some embodiments, the present teachings provide methods for nucleic acid amplification, comprising forming a reaction mixture, and subjecting the reaction mixture to conditions suitable for nucleic acid amplification. In some embodiments, methods for nucleic acid amplification include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, methods for nucleic acid amplification include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the methods for nucleic acid amplification employ an enzyme that catalyzes homologous recombination and a polymerase. In some embodiments, methods for nucleic acid amplification can be conducted in a single reaction vessel. In some embodiments, methods for nucleic acid amplification can be conducted in a single continuous liquid phase of a reaction mixture, without need for compartmentalization of the reaction mixture or immobilization of reaction components. In some embodiments, methods for nucleic acid amplification comprise a amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer. The polymer can include a sieving agent and/or a diffusion-reducing agent. | 03-20-2014 |
20140080130 | COMPOSITIONS AND METHODS FOR DETECTION OF SALMONELLA SPECIES - Described are compositions, methods and kits for detection and/or differential detection of serovars of | 03-20-2014 |
20140076726 | Detection of Immobilized Nucleic Acid - The present invention provides methods for determining the presence of immobilized nucleic acid employing unsymmetrical cyanine dyes that are derivatives of thiazole orange, a staining solution and select fluorogenic compounds that are characterized as being essentially non-genotoxic. The methods comprise immobilizing nucleic acid, single or double stranded DNA, RNA or a combination thereof, on a solid or semi solid support, contacting the immobilized nucleic acid with an unsymmetrical cyanine dye compound and then illuminating the immobilized nucleic acid with an appropriate wavelength whereby the presence of the nucleic acid is determined. The cyanine dye compounds are typically present in an aqueous staining solution comprising the dye compound and a tris acetate or tris borate buffer wherein the solution facilitates the contact of the dye compound and the immobilized nucleic acid. | 03-20-2014 |
20140073756 | Hydrophobic Diacrylamide Compound - A silyl protected diacrylamide compound is described. A method of forming such a compound includes mixing a silylation reagent with a hydroxylated diamine compound under first reactive conditions to form a product in a first solution, separating the product from the first solution, and mixing the product with acryloyl chloride under second reactive conditions in a second solution to form a silyl protected diacrylamide compound. | 03-13-2014 |
20140073738 | Hydrophilic Polymeric Particles and Methods for Making and Using Same - A method of forming a particle includes, in a disperse phase within an aqueous suspension, polymerizing a plurality of mer units of a hydrophilic monomer having a hydrophobic protection group, thereby forming a polymeric particle including a plurality of the hydrophobic protection groups. The method further includes converting the polymeric particle to a hydrophilic particle. | 03-13-2014 |
20140073715 | Hydrophilic Polymeric Particles and Methods for Making and Using Same - A method of forming a particle includes, in a disperse phase within an aqueous suspension, polymerizing a plurality of mer units of a hydrophilic monomer having a hydrophobic protection group, thereby forming a polymeric particle including a plurality of the hydrophobic protection groups. The method further includes converting the polymeric particle to a hydrophilic particle. | 03-13-2014 |
20140067345 | Methods for the Analysis of Dissociation Melt Curve Data - Methods are provided that operate on raw dissociation data and dissociation curves to generate calibrations of the detected data and to further improve analysis of the data. The data can be taken from each support region of a multi-region platform, for example, from each well of a multi-well plate. Each support region can be loaded with portions of the same sample. In some embodiments, a dissociation curve correction can be calibrated for the sample, prior to a run of an experiment using such sample. In some embodiments, a method is provided for generating a melting transition region of dissociation curves that show the melting characteristics of the sample. In some embodiments, dye temperature dependence correction can be performed on the dissociation curve data to further improve analysis. In some embodiments, a feature vector can be derived from the melt data, and the feature vector can be used to further improve genotyping analysis of the dissociation curves. | 03-06-2014 |
20140066612 | METHOD FOR DEBLOCKING OF LABELED OLIGONUCLEOTIDES - The invention relates to a process for deblocking substantially a blocked, detectably labeled oligonucleotide by contacting the blocked detectably labeled oligonucleotide with an effective amount of a nucleophilic amino compound under conditions that result in substantial deblocking of the oligonucleotide, thereby giving the substantially deblocked oligonucleotide. | 03-06-2014 |
20140065613 | Multiplex Y-STR Analysis - Novel Y-STR multiplex analysis designs, primer design, allelic ladders, methods of use and kits are disclosed, including the use of primer sets designed to provide amplicons for at least 11 Y-STR loci having a base pair size of less than about 220 bp, as well as the use of primer sets designed to provide amplicons for at least 22 Y-STR loci including at least 5 rapidly mutating loci. | 03-06-2014 |
20140065605 | METHODS AND COMPOSITIONS FOR LABELING NUCLEIC ACIDS - The present invention relates to methods for the labeling of nucleic acid polymers in vitro and in vivo. Certain methods are provided that include a [3+2] cycloaddition between a nucleotide analogue incorporated into a nucleic acid polymer and a reagent attached to a label. Other methods are provided that include a Staudinger ligation between a nucleotide analogue incorporated into a nucleic acid polymer and a reagent comprising a substituted triarylphosphine attached to a label. Such methods do not require fixation and denaturation and therefore can be applied to the labeling of nucleic acid polymers in living cells and in organisms. Also provided are methods for measuring cellular proliferation. In these methods, the amount of label incorporated into the DNA is measured as an indication of cellular proliferation. The methods of the invention can be used in a wide variety of applications including clinical diagnosis of diseases and disorders in which cellular proliferation is involved, toxicity assays, and as a tool for the study of chromosomes' ultrastructures. | 03-06-2014 |
20140064838 | EXPANDING CAM LOCK FOR SEALING SLAB GELS IN AN ELECTROPHORESIS APPARATUS - An expanding cam lock for use with an electrophoresis system is disclosed herein. The cam lock allows the simultaneous use of multiple slab gel cassettes in first and second buffer core assemblies in an electrophoresis system while maintaining the necessary compressive force to create a liquid-tight seal between the anode and cathode buffer solutions. In one example embodiment, the expanding cam lock includes a base plate with a first surface adapted to engage the first buffer core assembly and a follower plate having second surface adapted to engage the second buffer core assembly, buffer dam or buffer displacement dam. The base plate and the follower plate are slidably coupled together and are designed for insertion between the first buffer core assembly and the second buffer core assembly, buffer dam or buffer displacement dam in the electrophoresis container. A cam is positioned between and moveably coupled with the base plate and the follower plate. The cam is movable from a first position to a second position to urge the first and second surfaces to secure the gel cassette to the first and second buffer core assemblies. Also provided herein is a buffer displacement dam. Also provided herein are kits and assemblies which incorporate the expanding cam and buffer displacement dam described herein. | 03-06-2014 |
20140061416 | VERTICAL CLAMP DEVICE - A vertical clamping device is provided that supports a flow cell component in a vertical configuration in which the flow cell is on an opposite side of the vertical support from the electronic interface. The clamp includes a vertical setting to receive the flow cell component and provides an electronic interface on a vertical surface of the vertical setting. A block supports the fluidics interface and can move in a horizontal direction bringing the fluidics interface into contact with the flow cell component. | 03-06-2014 |
20140061050 | SYSTEM FOR RAPID HIGH-RESOLUTION GEL ELECTROPHORESIS - Electrophoretic systems, formulations and methods are described which allow a user to perform electrophoresis experiments under conditions of high voltage and with reduced run time. An electrophoretic system, formulation or method may be run at 50% higher field strength than comparable systems already in use in the art. The presently described systems and formulations may be run at voltages above 225 V, above 250 V, above 275 V, above 300 V, above 325 V or above 350 V. The time required for performing an electrophoresis experiment may be reduced to less than about 30 minutes, less than about 20 minutes, less than about 15 minutes or less than about 12 minutes. | 03-06-2014 |
20140057335 | CULTURE MEDIUM FOR CELL GROWTH AND TRANSFECTION - The present invention is directed generally to cell culture media useful for introducing macromolecules and compounds (e.g., nucleic acid molecules) into cells (e.g., eukaryotic cells in the presence of said media. Cells containing introduced materials can be further cultured in the media. In particular, the invention allows introduction of nucleic acid molecules (e.g., vectors) into cells (particularly eukaryotic cells) and expression of proteins encoded by the nucleic acid molecules in the cells. The invention obviates the need to change the cell culture medium each time a different procedure is performed with the cells (e.g., culturing cells vs. transfecting cells). The invention thus provides efficient and high throughput methods to transform/transfect culture and cells avoiding the need for multiple manipulations and transfers of cells during transfection and expression studies. | 02-27-2014 |
20140057109 | POLYMER PARTICLES AND METHODS OF MAKING AND USING SAME - A method of making polymer particles includes making an aqueous gel reaction mixture; forming an emulsion comprising dispersed aqueous phase micelles of gel reaction mixture in a continuous phase at a temperature less than about 10° C.; and performing a polymerization reaction in the micelles. Further, the emulsion comprises at least one polymerization initiator in the micelles of gel reaction mixture. The gel reaction mixture can be maintained at a temperature less than about 10° C. when it comprises the polymerization initiator. | 02-27-2014 |
20140053095 | Visualization Tool for qPCR Genotyping Data - Systems and methods are used to display data obtained from a qPCR instrument. Each of two or more samples is probed with a first labeling probe and a second labeling probe. A first data set is received from a qPCR instrument at a first cycle number that includes for each sample a first labeling probe intensity, and a second labeling probe intensity. A second data set is received at a second cycle number that includes for each sample a first labeling probe intensity and a second labeling probe intensity. A first plot of first labeling probe intensity as a function of second labeling probe intensity is created using the first data set. A second plot of first labeling probe intensity as a function of second labeling probe intensity is created using the second data set. The first plot and the second plot are displayed in response to user defined input to provide dynamic and real-time analysis of genotyping data. | 02-20-2014 |
20140052381 | Systems and Methods for Detecting Homopolymer Insertions/Deletions - Systems and method for determining variants can receive mapped reads and determine a distribution of matched-filter residuals distribution from a plurality of reads at a homopolymer region. The distribution of matched-filter residuals can be fit to uni-modal and bi-modal models. Based on the model that best fits the distribution of matched-filter residuals, the heterozygosity of the sample and the absence or presence of an insertion/deletion in the homopolymer can be determined. | 02-20-2014 |
20140051843 | METHODS AND COMPOSITIONS FOR DETECTING PROMOTER ACTIVITY AND EXPRESSING FUSION PROTEINS - The present invention provides nucleic acid molecules comprising one or more nucleic acid sequences encoding a polypeptide having a detectable activity. The present invention also provides methods of joining such nucleic acid molecules to nucleic acid molecules to be assayed for promoter activity. The present invention also relates to methods of preparing fusion proteins comprising a polypeptide of interest and a polypeptide having a detectable activity. | 02-20-2014 |
20140051584 | Methods and Apparatuses for Estimating Parameters in a Predictive Model for Use in Sequencing-by-Synthesis - A method of estimating a parameter related to sequencing of a sample nucleic acid template includes: receiving signal data relating to nucleotide incorporation events resulting from a series of flows of nucleotides onto an array of wells including (i) a first well containing the sample nucleic acid template and (ii) a plurality of other sample-containing wells; determining sequence information for the sample nucleic acid template using signal data from the first well; and constructing a phase-state model for a set of nucleotide flows that contributed at least in part to the sequence information, wherein the model includes a signal correction parameter that is determined using signal data from the plurality of other sample-containing wells. | 02-20-2014 |
20140051154 | SYSTEMS AND METHODS TO DETECT COPY NUMBER VARIATION - In one aspect, a system for implementing a copy number variation analysis method, is disclosed. The system can include a nucleic acid sequencer and a computing device in communications with the nucleic acid sequencer. The nucleic acid sequencer can be configured to interrogate a sample to produce a nucleic acid sequence data file containing a plurality of nucleic acid sequence reads. In various embodiments, the computing device can be a workstation, mainframe computer, personal computer, mobile device, etc. | 02-20-2014 |
20140045171 | BENZOXAZOLE-BASED FLUORESCENT METAL ION INDICATORS - Disclosed are benzoxazole-based compounds, kits, and methods of producing and using the described compounds in fluorescence-based detection of analytes (e.g., metal ions). Also disclosed are uses of benzoxazole-based compounds as ratiometric metal ion indicators. | 02-13-2014 |
20140038856 | Site-specific labeling of affinity tags in fusion proteins - The present invention provides methods and fluorescent compounds that facilitate detecting and labeling of a fusion protein by being capable of selectively binding to an affinity tag. The fluorescent compounds have the general formula A(B)n, wherein A is a fluorophore, B is a binding domain that is a charged chemical moiety, a protein or fragment thereof and n is an integer from 1-6 with the proviso that the protein or fragment thereof not be an antibody or generated from an antibody. The present invention provides specific fluorescent compounds and methods used to detect and label fusion proteins that contain a poly-histidine affinity tag. These compounds have the general formula A(L)m(B)n wherein A is a fluorophore, L is a linker, B is an acetic acid binding domain, m is an integer from 1 to 4 and n is an integer from 1 to 6. The acetic acid groups interact directly with the positively charged histidine residues of the affinity tag to effectively label and detect a fusion protein containing such an affinity tag when present in an acidic or neutral environment. | 02-06-2014 |
20140034500 | COMPOSITIONS AND METHODS FOR IMPROVING RESOLUTION OF BIOMOLECULES SEPARATED ON POLYACRYLAMIDE GELS - Gels, such as polyacrylamide gels, are provided that include linear polyacrylamide in the stacking gel. Native gels that include linear polyacrylamide in the stacker can be used to separate biomolecular complexes, such as protein complexes. Gel cassettes in which the gap width between front and back plates does not vary by more than 5% at the upper edge of the cassette are also provided. The gel cassettes can be used for electrophoretic separation of proteins and protein complexes on native gels, such as native gels that include linear polyacrylamide in the stacker. The native gels can have multiple wells for electrophoresing at least one sample and/or at least one molecular weight standard. | 02-06-2014 |
20140031262 | Nanoliter Array Loading - An interface is provided for storing microfluidic samples in a nanoliter sample chip. A fluid access structure provides a fluid access region to a selected subset of sample wells from an array of sample wells. A fluid introduction mechanism introduces a sample fluid to the fluid access region so that the sample wells in the selected subset are populated with the sample fluid without the unselected sample wells being populated with the sample fluid. | 01-30-2014 |
20140031238 | ALTERNATIVE NUCLEOTIDE FLOWS IN SEQUENCING-BY-SYNTHESIS METHODS - A method for sequencing a polynucleotide strand by using sequencing-by-synthesis techniques. To address the problem of incomplete extension (IE) and/or carry forward (CF) errors that can occur in sequencing-by-synthesis reactions, an alternative flow ordering of dNTPs is used. In contrast to conventional flow orderings, the dNTPs are flowed in an ordering that is not a continuous repeat of an ordering of the four different dNTPs. This alternate flow ordering may reduce the loss of phasic synchrony in the population of template polynucleotide strands that result from IE and/or CF errors. | 01-30-2014 |
20140024040 | METHODS AND KITS FOR BREAKING EMULSIONS - The disclosure relates generally to methods, systems, compositions and kits for breaking a water-in-oil emulsion including one or more biomolecules dispersed in an aqueous phase of the water-in-oil emulsion. In some embodiments, the disclosure relates to obtaining a first emulsion including a continuous hydrophobic fraction and a discontinuous aqueous fraction, the aqueous fraction having one or more biomolecules dispersed therein, breaking the first emulsion by contacting the first emulsion with a breaking solution including a second emulsion, where the second emulsion includes a discontinuous phase of organic extraction solvent dispersed in a continuous aqueous phase, and centrifuging to separate the phases of the resulting mixture. In some embodiments, the disclosure relates generally to methods, kits and systems for extracting biomolecules from a water-in-oil emulsion, including breaking a water-in-oil emulsion comprising a plurality of aqueous droplets in a continuous hydrophobic fraction using a breaking solution to produce a resulting reaction mixture containing one or more biomolecules and manipulating the resulting reaction mixture to form at least two phases, where one of the phases includes an aqueous phase containing the one or more biomolecules. | 01-23-2014 |
20140021048 | Method and Apparatus for Detecting Nucleotides - A system and method employing at least one semiconductor device, or an arrangement of insulating and metal layers, having at least one detecting region which can include, for example, a recess or opening therein, for detecting a charge representative of a component of a polymer, such as a nucleic acid strand proximate to the detecting region, and a method for manufacturing such a semiconductor device. The system and method can thus be used for sequencing individual nucleotides or bases of ribonucleic acid (RNA) or deoxyribonucleic acid (DNA). The semiconductor device includes at least two doped regions, such as two n-typed regions implanted in a p-typed semiconductor layer or two p-typed regions implanted in an n-typed semiconductor layer. The detecting region permits a current to pass between the two doped regions in response to the presence of the component of the polymer, such as a base of a DNA or RNA strand. The current has characteristics representative of the component of the polymer, such as characteristics representative of the detected base of the DNA or RNA strand. | 01-23-2014 |
20140017148 | Systems and Methods for Transfer of Liquid Samples - A system for preparing biological sample contains a body including a proximal side and a distal side, a plurality of mandrels, a plurality of resilient elements, a plurality of fluid dispensers, and one or more samples. The mandrels are moveably positioned within the body, where each resilient element engages a respective one of the mandrels. Each of the fluid dispensers is configured to engage a distal end of a corresponding one of the mandrels. Each sample comprises a solution containing one or more nucleic acid sequences contained within at least one of the fluid dispensers. | 01-16-2014 |
20140011895 | BIOMARKERS FOR SYSTEMIC LUPUS ERYTHEMATOSUS - The disclosure provides novel SLE biomarkers. The disclosure further provides kits and methods of diagnosing, prognosing, and stratifying subjects with the disease by utilizing the novel SLE biomarkers. | 01-09-2014 |
20140011255 | Biotin Derivatives - Biotin derivatives, methods of using the biotin derivatives and kits comprising the biotin derivatives. | 01-09-2014 |
20140011191 | DEVICE AND METHODS FOR QUANTIFYING ANALYTES - The present invention relates to devices and methods for measuring the quantity of multiple analytes in a sample. The device is designed such that each of the analyte sensing elements is configured to measure the quantity of a predetermined analyte and where the machine executable instructions are configured to select the proper analyte sensing element corresponding to the analyte to be measured. | 01-09-2014 |
20140005061 | COMPOSITIONS AND METHODS FOR DETECTION OF MULTIPLE MICROORGANISMS | 01-02-2014 |
20140004567 | RECOMBINATIONAL CLONING USING NUCLEIC ACIDS HAVING RECOMBINATION SITES | 01-02-2014 |
20140001436 | NANOCRYSTALS WITH HIGH EXTINCTION COEFFICIENTS AND METHODS OF MAKING AND USING SUCH NANOCRYSTALS | 01-02-2014 |
20130345066 | SYSTEMS AND METHODS FOR IDENTIFYING SEQUENCE VARIATION - Systems and method for determining variants can receive mapped reads, align flow space information to a flow space representation of a corresponding portion of the reference. Reads spanning a position with a potential variant can be evaluated in a context specific manner. A list of probable variants can be provided. | 12-26-2013 |
20130344561 | LINKING METHODS, COMPOSITIONS, SYSTEMS, KITS AND APPARATUSES - In some embodiments, the disclosure relates generally to methods as well as related compositions, systems, kits and apparatus comprising linking proteins to target compounds and/or to locations of interest using tethers. For example, the tether can used to link the protein to a target compound, for example, to link an enzyme to a substrate. Similarly, the tether can be used to link the protein at or near a desired location on a surface. In one group of embodiments, the tether includes a polynucleotide and the target compound or location on the surface includes another polynucleotide that is capable of hybridizing to the tether. In such bodiments, the tether can be used to link the protein to the target compound or location using nucleic acid hybridization. | 12-26-2013 |
20130344491 | Random-Primed Transcriptase In-Vitro Transcription Method for RNA Amplification - A random-primed reverse transcriptase-in vitro transcription method of linearly amplifying RNA is provided. According to the methods of the invention, source RNA (or other single-stranded nucleic acid), preferably, mRNA, is converted to double-stranded cDNA using two random primers, one of which comprises a RNA polymerase promoter sequence (“promoter-primer”), to yield a double-stranded cDNA that comprises a RNA polymerase promoter that is recognized by a RNA polymerase. Preferably, the primer for first-strand cDNA synthesis is a promoter-primer and the primer for second-strand cDNA synthesis is not a promoter-primer. The double-stranded cDNA is then transcribed into RNA by the RNA polymerase, optimally in the presence of a reverse transcriptase that is rendered incapable of RNA-dependent DNA polymerase activity during this transcription step. The subject methods produce linearly amplified RNA with little or no 3′ bias in the sequences of the nucleic acid population amplified. | 12-26-2013 |
20130338245 | ISOLATION OF NUCLEIC ACIDS - A method for extracting nucleic acids from a biological material such as blood comprises contacting the mixture with a material at a pH such that the material is positively charged and will bind negatively charged nucleic acids and then eluting the nucleic acids at a pH when the said materials possess a neutral or negative charge to release the nucleic acids. The nucleic acids can be removed under mildly alkaline conditions to the maintain integrity of the nucleic acids and to allow retrieval of the nucleic acids in reagents that are immediately compatible with either storage or analytical testing. | 12-19-2013 |
20130337536 | Labeling Reagents and Methods of Their Use - The present disclosure is directed to a reactive ester agent capable of conjugating a reporter molecule to a carrier molecule or solid support. The reactive ester agent has the general formula: | 12-19-2013 |
20130331992 | SYSTEMS AND METHODS FOR RUN-TIME SEQUENCING RUN QUALITY MONITORING - Systems and methods of providing run-time quality control and monitoring of a single or multiple sequencing runs are provided herein. In some embodiments, the run-time system includes or is in communication with a processor capable of determining various types of run-time information relating to the quality, progress, etc. of various sequencing runs. In some embodiments, the system can also be in communication with a user interface, for example, a GUI, capable of representing and communicating various types of information to a user regarding the quality of the individual or multiple runs, the functioning of the instrument, an error event, etc. Additionally, the system can capable of receiving actionable information from a user via the GUI thereby allowing the user to terminate or repeat various sequencing steps in a particular run, terminate a entire run, terminate all runs, allow a run to proceed, etc. | 12-12-2013 |
20130331276 | METHODS OF BEAD MANIPULATION AND FORMING BEAD ARRAYS - According to various embodiments, a method is provided that comprises washing an array of DNA-coated beads on a substrate, with a wash solution to remove stacked beads from the substrate. The wash solution can include inert solid beads in a carrier. The DNA-coated beads can have an average diameter and the solid beads in the wash solution can have an average diameter that is at least twice the diameter of the DNA-coated beads. The washing can form dislodged DNA-coated beads and a monolayer of DNA-coated beads. In some embodiments, first beads for forming an array are contacted with a poly(ethylene glycol) (PEG) solution comprising a PEG having a molecular weight of about 350 Da or less. In some embodiments, slides for forming bead arrays are provided as are systems for imaging the same. | 12-12-2013 |
20130325666 | Collections of Matched Biological Reagents and Methods for Identifying Matched Reagents - Provided herein are collections of matched biological reagents selected from a larger collection of biological reagents, wherein the collection of matched biological reagents relate to a biological element. Also provided are methods for selling an isolated biomolecule or biological research reagent in a collection of matched biological reagents, and methods for selecting an isolated biomolecule or biological research reagent from a collection of biological reagents. | 12-05-2013 |
20130324421 | METHODS 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 the concentration of inorganic pyrophosphate (PPi), hydrogen ions, and nucleotide triphosphates. | 12-05-2013 |
20130323837 | DEFINED SYSTEMS FOR EPITHELIAL CELL CULTURE AND USE THEREOF - The present invention provides cell culture media formulations which support the in vitro cultivation of animal epithelial cells. The media comprise at least one fibroblast growth factor (FGF) and at least one agent that induces increased intracellular cAMP levels, and optionally comprise ascorbic acid. The present invention also provides methods of cultivating animal epithelial cells in vitro using these cell culture media formulations, kits comprising the media, cell culture compositions comprising the culture media and an animal epithelial cell, and compositions that may be used as replacements for organ or gland extracts in animal cell culture media. | 12-05-2013 |
20130323796 | METHODS AND COMPOSITIONS FOR SYNTHESIS OF NUCLEIC ACID MOLECULES USING MULTIPLERECOGNITION SITES - The present invention provides compositions and methods for recombinational cloning. The compositions include vectors having multiple recombination .sites and/or multiple topoisomerase recognition sites. 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. The invention also provides host cells comprising nucleic acid molecules of the invention or prepared according to the methods of the invention, and also provides kits comprising the compositions, host cells and nucleic acid molecules of the invention, which may be used to synthesize nucleic acid molecules according to the methods of the invention. | 12-05-2013 |
20130323794 | RECOMBINATIONAL CLONING USING ENGINEERED RECOMBINATION SITES - Recombinational cloning is provided by the use of nucleic acids, vectors and methods, in vitro and in vivo, for moving or exchanging segments of DNA molecules using engineered recombination sites and recombination proteins to provide chimeric DNA molecules that have the desired characteristic(s) and/or DNA segment(s). | 12-05-2013 |
20130323770 | SUBSTRATES AND METHODS FOR STAINING LIVE STEM CELLS - The invention relates to novel substrates and methods for staining live stem cells. The stain may be used to identify induced pluripotent stem cell colonies during the process of somatic cell reprogramming. | 12-05-2013 |
20130321044 | SYSTEM FOR REDUCING NOISE IN A CHEMICAL SENSOR ARRAY - A system including a power supply and a clock circuitry to generate a plurality of clock signals. Each clock signal is synchronous with a primary clock signal. First, second, and third clock signals of the plurality of clock signals are asynchronous to each other. The system further includes a plurality of switches. Each switch of the plurality of switches is communicatively coupled to the power supply and the clock circuitry. A first switch of the plurality of switches receives the first clock signal, a second switch of the plurality of switches receives the second clock signal, and a third switch of the plurality of switches receives the third clock signal. | 12-05-2013 |
20130319863 | METHODS, COMPOSITIONS, AND KITS FOR PROTEIN CRYSTALLIZATION - The present invention provides methods, compositions, and kits for protein crystallization. The present invention involves electrophoretically focusing at least a first protein species within a matrix comprising at least 2 regions of different pH, the protein being present in amount sufficient to permit crystallization within said pH gradient. | 12-05-2013 |
20130316918 | MODEL-BASED RESIDUAL CORRECTION OF INTENSITIES - A method for improving color calls or base calls utilizes current and prior cycle multi-channel intensity data from a sequencing run to model residual cycle buildup. The model is applied to correct the multi-cycle channel intensity for the current cycle. The corrected multi-cycle channel intensity is used for color calls or base calls for the current cycle. | 11-28-2013 |
20130316400 | HIGH YIELD TRANSIENT EXPRESSION IN MAMMALIAN CELLS USING UNIQUE PAIRING OF HIGH DENSITY GROWTH AND TRANSFECTION MEDIUM AND EXPRESSION ENHANCERS - The present invention is directed generally to cell culture media (particularly serum free, non animal derived, and/or chemically defined media) which are useful for introducing macromolecules and compounds (e.g., nucleic acid molecules) into cells (e.g., eukaryotic cells). According to the invention, such introduction can take place in the presence of said medium. Cells containing such introduced materials can then be cultured in the medium and the effect of the introduced materials on the cells can be measured or determined. In particular, the invention allows introduction of nucleic acid molecules (e.g., vectors) into cells (particularly eukaryotic cells) and expression of proteins encoded by the nucleic acid molecules in the cells. The invention obviates the need to change the cell culture medium each time a different procedure is performed with the cells (e.g., culturing cells vs. transfecting cells). The invention also relates to compositions and kits useful for culturing and transforming/transfecting cells. | 11-28-2013 |
20130316350 | NUCLEIC ACID MOLECULES CONTAINING RECOMBINATION SITES AND METHODS OF USING THE SAME - The present invention relates to the fields of biotechnology and molecular biology. In particular, the present invention relates to the construction and use of nucleic acid molecules comprising cloning sites which differ in nucleotide sequence. In particular embodiments, the present invention relates to nucleic acid molecules which contain recombination sites with different primer binding sites. These different primer binding sites may be used to sequence different ends of nucleic acid segments located between the two recombination sites. | 11-28-2013 |