05 - Pharmaceutical, veterinary and sanitary products
Goods & Services
Reagents for medical diagnostic use in polymerase chain
reaction (PCR) to detect and analyze nucleic acids in
laboratories, hospitals, point-of-care, and direct consumer
applications, and the associated accessory products, namely,
medical diagnostic test media in the form of test plates and
96 well plates for use in polymerase chain reaction (PCR) to
detect and analyze nucleic acids in laboratories, hospitals,
point-of-care and direct consumer applications for use in
medical genetic testing.
A filter bag assembly includes: a flexible first sheet; a flexible second sheet overlying and secured to the first sheet so that a compartment is formed therebetween; a porous filter sheet disposed between the first sheet and the second sheet so as to divide the compartment into a first compartment and a second compartment; a first port secured to the second sheet so as to communicate directly with the first compartment; and a second port secured to the second sheet so as to communicate directly with the second compartment, the second port being spaced apart from the first port. The porous filter sheet is disposed so that fluid entering the first compartment through the first port must pass through the filter sheet before entering the second compartment or exiting through the second port.
A sensor component includes a sensor including a sensor surface and a reaction site in cooperation with the sensor and exposing the sensor surface. The reaction site including a reaction site surface. A surface agent is bound to the reaction site surface or the sensor surface. The surface agent includes a surface active functional group reactive with Bronsted base or Lewis acid functionality on the reaction site surface or the sensor surface and including distal functionality that does not have a donor electron pair.
Methods and systems for data distribution are described herein. In one aspect, a method can include receiving, by at least one worker node (WN) 110 of a plurality of WNs of a data distribution system, a job definition from a job manager, wherein the job definition comprises a set of processes to be performed on a set of data request; sending, by the WN 110 and to an extended binary access manager (BAMEx) 140, a request for the data; receiving, by the WN 110 and from the BAMEx 140, the data based on the request for the data; performing, by the WN 110, one or more processes according to the job definition; generating, by the WN 110, a set of results files comprising results of at least one of the performed one or more processes; and sending, by the WN 110, the set of results files to the BAMEx 140.
The present invention provides methods, compositions, kits, systems and apparatus that are useful for multiplex PCR of one or more nucleic acids present in a sample. In particular, various target-specific primers are provided that allow for the selective amplification of one or more target sequences. In one aspect, the invention relates to target-specific primers useful for the selective amplification of one or more target sequences associated with cancer or inherited disease. In some aspects, amplified target sequences obtained using the disclosed methods, kits, systems and apparatuses can be used in various downstream processes including nucleic acid sequencing and used to detect the presence of genetic variants.
C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
C12Q 1/6886 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
A reagent solution includes water, a nucleotide, and tris(2-carboxyethyl)phosphine in a range of 0.5 μM to 1000 μM. The reagent solution can further include a non-ionic surfactant in an amount of 0.001% to 1% or a biocidal agent in an amount of 0.001% to 1%. The reagent solution can include salts, such as sodium chloride or magnesium sulfate.
A method, composition and kit for determining the presence or absence of Salmonella sp., Shigella sp./Enteroinvasive Escherichia coli (EIEC), and Campylobacter sp. in a sample, comprising producing an amplicon by subjecting a reaction mixture including the sample and five primer pairs to reaction conditions suitable to amplify targeted nucleic acids. The five primer pairs include primer pair A that specifically hybridizes with a portion of Campylobacter coli genome, primer pair B that specifically hybridizes with a portion of Campylobacter jejuni genome, primer pair C that specifically hybridizes with a portion of Campylobacter upsaliensis genome, primer pair D that specifically hybridizes with a portion of Salmonella sp. genome, and primer pair E that specifically hybridizes with a portion of Shigella sp./EIEC genome; and determining the presence or absence of Campylobacter sp., Salmonella sp., and/or Shigella sp./Enteroinvasive Escherichia coli (EIEC) in the sample based on the amplicon.
C12Q 1/689 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
C12Q 1/6883 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
The present disclosure provides for compounds of Formula (I),
its corresponding compounds of Formula (II)
or salts thereof and their use as fluorogenic pH sensors.
Methods and system are described for normalizing and creating correction factors for measurements in a fluorometer. To ensure that measurements across multiple channels can be properly compared, some kind of calibration must be done. The same calibrant can be run across all the channels and fluorescence measured. The fluorescence of one channel can be chosen as a reference. A correction factor can be calculated for each channel and used for an extended period of time, possibly even the lifetime of the instrument.
14.
DIBENZOXANTHENE QUENCHERS, USES, AND METHODS OF PREPARATION
The present disclosure relates to dibenzoxanthene compounds that are efficient quenchers of fluorescence, for example in the far red and near infrared spectrum. Applications using the dibenzoxanthene quenching compounds and methods of making same are also described.
An aseptic cell culture system including a cell culture device is disclosed. The cell culture device includes an interior chamber having a first opening extending through a wall defining a part of the interior chamber, and a first aseptic port. The first aseptic port includes a first coupling end and a second coupling end, the first coupling end extending through the first opening and integrated with the wall. Further, the first aseptic port includes a fluid pathway in fluid communication with the interior chamber and extends between the first coupling end and the second coupling end. The second coupling end includes a connecting component configured to allow one or more of a fluid line and a filter to be connected to the first aseptic port.
Methods for determining genotypes of structural variants in a sample genome, may include: amplifying nucleic acid sequences at targeted locations in the sample genome by a panel targeting a plurality of structural variant marker to generate sequence reads; mapping the sequence reads to a modified reference genome to produce aligned sequence reads, wherein the modified reference genome includes a wild-type target region and a structural variant target region; for each structural variant marker, determining a read count for a wild-type allele and a read count for a structural variant allele; determining a probability for each possible genotype, wherein the possible genotypes include a homozygous wild-type genotype, a heterozygous genotype and a homozygous structural variant genotype; and selecting the genotype with a maximum probability value to provide an estimated genotype corresponding to the structural variant marker of the sample.
Provided herein are compositions, methods and uses that relate to an easy, accurate and reliable dual or duplex assay that determines both protein and nucleic acid amounts in a viral preparation in a single container and further determines full versus empty virion content.
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
18.
HIGH EFFICIENCY, SMALL VOLUME NUCLEIC ACID SYNTHESIS
The disclosure generally relates to compositions and methods for the production of nucleic acid molecules. In some aspects, the invention allows for the microscale generation of nucleic acid molecules, optionally followed by assembly of these nucleic acid molecules into larger molecules. In some aspects, the invention allows for efficient production of nucleic acid molecules (e.g., large nucleic acid molecules such as genomes).
The present disclosure provides compositions, methods, kits, systems and apparatus that are useful for nucleic acid polymerization. In particular, recombinant polymerases and biologically active fragments thereof are provided that allow for nucleic acid amplification. In some aspects, the disclosure provides recombinant polymerases that yield lower systematic error rates and/or improved accuracy, when used in sequencing by synthesis reactions as compared to a control polymerase. In one aspect, the disclosure relates to recombinant polymerases useful for nucleic acid sequencing, genotyping, copy number variation analysis, paired-end sequencing and other forms of genetic analysis. In another aspect, the recombinant polymerases are useful for the amplification of nucleic acid templates during PCR, emPCR, isothermal amplification, recombinase polymerase amplification, rolling circle amplification, strand displacement amplification and proximity ligation amplification. In some aspects, the disclosure relates to recombinant polymerases useful for the generation of nucleic acid libraries and/or nucleic acid templates.
LIFE TECHNOLOGIES HOLDINGS PTE LIMITED (Singapore)
LIFE TECHNOLOGIES CORPORATION (USA)
Inventor
Wei, Han
Chan, Chee Wai
Liaw, Wui Khen
Dong, Shan Hua
Goh, See Chen
Yeo, Huei Steven
Sicat, Jr., Harmon Cosme
Ling, Mio Xiu Lu
Mead, Josh M.
Makinen, Mikko
Lim, Beng Heng
Boo, Kuan Moon
Bong, Justina Linkai
Ng, Chye Sin
Lee, Wee Liam
Lim, Li Yang
Lee, Way Xuang
Abstract
An electroporation system including one or more of a pipette, a pipette tip, a pipette docking assembly, and a pulse generator. The pipette docking assembly includes a pipette station, a pipette station guard, and a reservoir (e.g., a buffer tube). A method for transfecting a cell with a payload including providing an electroporation system, providing the cell, providing the payload, introducing the cell and the payload into a pipette tip, and electroporating the cell within the pipette tip by operating the electroporation system.
In some embodiments, the disclosure relates generally to compositions, comprising a single reaction mixture containing a plurality of different populations of discrete supports, and a plurality of different populations of target nucleic acids. The single reaction mixture can contain a first population of beads; a second population of beads; a first population of target nucleic acids, where at least two different target nucleic acids in the first population of target nucleic acids can bind to a bead in the first population of beads; and a second population of target nucleic acids, where at least two different target nucleic acids in the second population of target nucleic acids can bind to a bead in the second population of beads. The single reaction mixture can be employed to monoclonally amplify the first target nucleic acids on the first beads, and monoclonally amplify the second target nucleic acids on the second beads.
The present disclosure describes oligonucleotide-tethered nucleotides, methods of making them, and methods of using them. The oligonucleotide-tethered nucleotides comprise, in some embodiments, a nucleotide linked to an oligonucleotide of from about 3 to about 100 nucleotides in length. These oligonucleotide-tethered nucleotides can be used to label a plurality of different types of nucleic acids in a plurality of different situations with a known oligonucleotide, which can serve as a barcode in some embodiments. The resulting oligonucleotide-labeled nucleic acids oligo-nucleotides can be used in a variety of nucleic acid sequencing methods.
A method for determining a genotype of a sample of a polyploid organism, may include: amplifying nucleic acid sequences at targeted locations in a sample genome by a panel targeting a plurality of SNP markers to generate sequence reads; mapping the sequence reads to a reference genome for the polyploid organism; detecting variants in the aligned sequence reads to produce detected variants, wherein the detected variants include detected SNP's corresponding to the SNP markers; determining a probability for each alternate allele dosage of a plurality of possible allele dosages for a corresponding detected SNP, wherein the number of possible allele dosages is equal to a ploidy of the SNP marker plus one; and selecting the alternate allele dosage with a maximum probability value to provide an estimated allele dosage corresponding to the SNP marker, wherein the estimated allele dosage is indicative of the genotype for the SNP marker.
Provided are systems and methods that allow for brightfield imaging in a flow cytometer, allowing for collection of fluorescence and high-quality image date. The disclosed technology also gives rise to an illumination pattern that allows a user to create different oblique or structured illumination profiles within a static system. With the disclosed approach, a user can illuminate a sample from a first direction (e.g., with laser illumination configured to give rise to one or more of fluorescence information and scattering information), collect scattering information from a second direction, collect fluorescence information from a third direction, and capture an image of the sample from a fourth direction. (Two or more of the foregoing can be accomplished simultaneously.) Also as described elsewhere herein, an illumination used to illuminate the sample for visual image capture can be communicated to the same through a lens that also collects fluorescence from the sample.
A bioreactor pod includes a pod base; a dual mode bioreactor operable in static and dynamic modes and insertable into the pod base; one or more portable and arrangeable pod modules; a stand for mounting pod components; a display including a user interface for transmitting user inputs and receiving outputs associated with the dual mode bioreactor, pod modules; and a controller for controlling the bioreactor and pod modules.
Apparatus and instruments for clinical and medical diagnosis, namely, nucleic acid sequencers and synthesizers, genetic analyzers, and instruments for the preparation of nucleic acid samples
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.
C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
G01N 27/27 - Association of two or more measuring systems or cells, each measuring a different parameter, where the measurement results may be either used independently, the systems or cells being physically associated, or combined to produce a value for a furthe
34.
COMPOSITIONS, KITS AND METHODS FOR DETECTION OF VIRAL VARIANT SEQUENCES
Disclosed are compositions, assays, methods, diagnostic methods, kits and diagnostic kits for the specific and differential detection of SARS-CoV-2, including SARS-CoV-2 variants, or other coronaviruses from samples including veterinary samples, clinical samples, food samples, forensic sample, an environmental sample (e.g., soil, dirt, garbage, sewage, air, or water), including food processing and manufacturing surfaces, or a biological sample.
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
35.
COMPOSITIONS AND METHODS FOR CULTURING AND EXPANDING CELLS
Provided herein are, inter alia, compositions, systems, kits, and methods for culturing and expanding cells (such as T cells, diploid or non-diploid cells), as well as methods for treating disorders (e.g., with T cells), and methods for producing biological molecules and compositions (e.g., proteins, viruses, viral particles or fragments thereof, etc.), including vaccines.
The present disclosure provides methods, compositions, kits and systems for nucleic acid amplification. In some embodiments, nucleic acid amplification methods include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, nucleic acid amplification methods include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the nucleic acid amplification method employs 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 and/or 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 amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer which can include a sieving agent and/or a diffusion-reducing agent.
The present disclosure provides compositions, methods, kits, systems and apparatus that are useful for nucleic acid polymerization. In particular, modified polymerases and biologically active fragments thereof are provided that allow for nucleic acid amplification. In some aspects, the disclosure provides modified polymerases having lower systematic error as compared to a reference polymerase. In one aspect, the disclosure relates to modified polymerases useful for nucleic acid sequencing, genotyping, copy number variation analysis, paired-end sequencing and other forms of genetic analysis. In some aspects, the disclosure relates to modified polymerases useful for the generation of nucleic acid libraries or nucleic acid templates. In some aspects, the disclosure relates to the identification of homologous amino acid mutations that can be transferred across classes or families of polymerases to provide novel polymerases with altered properties.
Systems and methods for measuring a foam layer in a fluid processing system are disclosed. The system includes a container having a chamber for containing a liquid and the foam layer. The system includes a first sensor positioned adjacent a top portion of the chamber. The first sensor is configured to measure a first distance between a top foam surface of the foam layer and the first sensor. The system includes a second sensor coupled to the container, the second sensor configured to measure a mass of the liquid. The system also includes a processor configured to perform the operations of calculating a thickness of the foam layer based on dimensions of the chamber of the container, the measured first distance between the top foam surface of the foam layer and the first sensor, and the mass of the liquid as measured by the second sensor.
G01F 17/00 - Methods or apparatus for determining the capacity of containers or cavities, or the volume of solid bodies
G01F 1/34 - Measuring the volume flow or mass flow of fluid or fluent solid material wherein the fluid passes through a meter in a continuous flow by using mechanical effects by measuring pressure or differential pressure
Various embodiments of a compression collar expander assembly for expanding a tubular compression collar are described. For example, the compression collar expander assembly can include a guide plate, a spindle plate, and a plurality of carriages movably disposed on a top surface of the guide plate. Each of the plurality of carriages can include a body, a guide projecting from the body, and a die set comprising a plurality of dies. Each die can include a base coupled to a corresponding one of the plurality of carriages and a prong upstanding from the base. In some embodiments, a tapered expander is configured to assist with expanding the plurality of dies.
Energy transfer dye pairs including a donor dye covalently attached to an acceptor dye through a linker, uses of the energy transfer dye pairs, for example, in conjugates of an energy transfer dye pair covalently attached to a quencher and an analyte (e.g., an oligonucleotide), for biological applications including, for example, amplification assays such as quantitative polymerase chain reaction (qPCR) and digital PCR (dPCR).
C09B 62/343 - Reactive dyes, i.e. dyes which form covalent bonds with the substrates or which polymerise with themselves with the reactive group directly attached to a heterocyclic ring to a five-membered ring
Disclosed is an integrated biocontainment cell sorter that isolates portions of the cell sorter that can create contamination. Two containment systems are utilized. A main cabinet containment system contains input samples. An aerosol management containment area includes a nozzle chamber with a nozzle and a sort chamber with sort plates and collection media that collect a droplet stream from the nozzle. The main cabinet is maintained at a first low pressure and clean air is recirculated under a positive pressure. The aerosol management containment area is kept at a second low pressure, which is lower than the first pressure, so that contamination does not leak from the aerosol management containment area into the main cabinet containment area. A sliding sash window is located over an access opening in the main cabinet and can be moved to access different portions of the main cabinet without changing the substantially constant first low pressure in the main cabinet.
This disclosure relates to the field of fluorescent dyes, and in particular, compositions and methods for increasing fluorescent signals and the reduction of fluorescent quenching.
A coupling assembly includes: a tubular compression collar having a tubular body made of a resiliently flexible polymeric material and having an interior surface and an opposing exterior surface; an end of a tube disposed within a throughway of the compression collar; and a tube fitting disposed within the passageway of the tube. The tube fitting includes: a tubular stem; a flange radially outwardly projecting from an exterior surface of the stem; and an annular barb encircling and radially outwardly projecting from the exterior surface of the stem, the annular barb including a frustoconical outside face that extends along and outwardly slopes away from the stem as the outside face extends toward the flange. The compression collar radially inwardly compresses the tube against the annular barb of the tube fitting so that a liquid tight seal is formed between the tube and the tube fitting.
F16L 33/207 - Undivided rings, sleeves, or like members contracted on the hose or expanded inside the hose by means of tools; Arrangements using such members only a sleeve being contracted on the hose
F16L 33/22 - Arrangements for connecting hoses to rigid members; Rigid hose-connectors, i.e. single members engaging both hoses with means not mentioned in the preceding groups for gripping the hose between inner and outer parts
B29C 65/00 - Joining of preformed parts; Apparatus therefor
B29C 65/68 - Joining of preformed parts; Apparatus therefor by liberation of internal stresses, e.g. shrinking of one of the parts to be joined using auxiliary shrinkable element
B29C 65/56 - Joining of preformed parts; Apparatus therefor using mechanical means
A61M 39/12 - Tube connectors or tube couplings for joining a flexible tube to a rigid attachment
Provided herein are ionizable lipids, compositions comprising the ionizable lipids, and methods of making and using the same. The ionizable lipids provided herein can be formulated in lipid compositions for the delivery of macromolecules, such as nucleic acids, in vitro, ex vivo, or in vivo.
C07D 265/30 - 1,4-Oxazines; Hydrogenated 1,4-oxazines not condensed with other rings
C07D 279/12 - 1,4-Thiazines; Hydrogenated 1,4-thiazines not condensed with other rings
C07D 295/145 - Heterocyclic compounds containing polymethylene-imine rings with at least five ring members, 3-azabicyclo [3.2.2] nonane, piperazine, morpholine or thiomorpholine rings, having only hydrogen atoms directly attached to the ring carbon atoms with substituted hydrocarbon radicals attached to ring nitrogen atoms substituted by carbon atoms having three bonds to hetero atoms with at the most one bond to halogen, e.g. ester or nitrile radicals with the ring nitrogen atoms and the carbon atoms with three bonds to hetero atoms attached to the same carbon chain, which is not interrupted by carbocyclic rings
A61K 48/00 - Medicinal preparations containing genetic material which is inserted into cells of the living body to treat genetic diseases; Gene therapy
47.
COMPOSITIONS, KITS, AND METHODS FOR DETECTION OF VARIANT STRAINS OF AFRICAN SWINE FEVER VIRUS
Disclosed are compositions, methods, systems, and kits for the detection of African swine fever virus (ASFV) in a test sample, and in particular for distinguishing between wild/reference type ASFV and mutant/variant strains of ASFV. A variant ASFV assay includes a first set of primers and a first probe that correspond to a first ASFV target, and a second set of primers and a second probe that correspond to a second ASFV target. The first and second probes are differentially labelled. The first ASFV target is a MGF360 gene and the second ASFV target is the CD2v gene. Absence of these targets, in conjunction with a positive determination for another generic ASFV target such as the p72 gene, is indicative of a vaccine-associated variant strain of ASFV.
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
Provided herein, inter alia, are chemically defined components and compositions that substitute or partially substitute for albumin in cell culture media. The components and compositions may support cell cultures, protect cells, or enhance viability of cultured cells. Further provided are chemically defined culture media supplements for use in cell culture media containing albumin. The chemically defined culture media supplements may rescue cells from albumin-induced toxicity.
A method for coupling a tube to a tube fitting includes radially outwardly expanding a tubular compression collar from a constricted state to an expanded state, the compression collar having a throughway extending there through and being made of a resiliently flexible material. An end of the tube is inserted within the throughway of the expanded compression collar, the tube bounding a passage. A tube fitting is inserted within the passage of the tube. The compression collar is allowed to resiliently rebound back towards the constricted state so that the compression collar pushes the tube against the tube fitting.
F16L 33/207 - Undivided rings, sleeves, or like members contracted on the hose or expanded inside the hose by means of tools; Arrangements using such members only a sleeve being contracted on the hose
F16L 33/22 - Arrangements for connecting hoses to rigid members; Rigid hose-connectors, i.e. single members engaging both hoses with means not mentioned in the preceding groups for gripping the hose between inner and outer parts
B29C 65/00 - Joining of preformed parts; Apparatus therefor
B29C 65/68 - Joining of preformed parts; Apparatus therefor by liberation of internal stresses, e.g. shrinking of one of the parts to be joined using auxiliary shrinkable element
B29C 65/56 - Joining of preformed parts; Apparatus therefor using mechanical means
A61M 39/12 - Tube connectors or tube couplings for joining a flexible tube to a rigid attachment
50.
CYCLE THRESHOLDS IN MACHINE LEARNING FOR FORECASTING INFECTION COUNTS
Methods for forecasting case counts for a future date in one or more geographic areas of persons infected by a disease is disclosed. The presence of the disease in a biological sample is testable by a polymerase chain reaction (PCR) test. A load of one or more pathogens associated with the disease correlates with a PCR cycle which indicates presence of the one or more pathogens, and is referred to as a threshold cycle (Ct). Data relevant to forecasting the case counts including Ct data and other data is received. The Ct data comprises Ct values from PCR tests of biological samples from persons within the one or more geographic areas. Arrays of feature data for processing by a trained machine learning model are generated, comprising Ct features and other features obtained from the data. A forecasted number of infected persons are generated by processing the arrays using machine learning.
G16H 50/50 - ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for simulation or modelling of medical disorders
G16H 50/80 - ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for detecting, monitoring or modelling epidemics or pandemics, e.g. flu
51.
METHODS AND SYSTEMS TO DETECT LARGE REARRANGEMENTS IN BRCA1/2
A method for detecting large rearrangements in BRCA1 and BRCA2 genes includes amplifying a nucleic acid sample in the presence of a primer pool to produce amplicons, where the primer pool includes target specific primers targeting regions of exons of the BRCA1 and BRCA2 genes. The method further includes sequencing the amplicons to generate a plurality of reads, mapping the reads to a reference sequence, determining a number of reads per amplicon for the amplicons associated with the exons of the BRCA and the BRCA2 genes, determining exon copy numbers for the exons of the BRCA1 and BRCA2 genes based on the number of reads per amplicon, detecting an exon deletion or duplication based on the exon copy numbers, and detecting a whole gene deletion of the BRCA1 or BRCA2 gene based on the number of reads per amplicon associated with the exons of the BRCA1 and BRCA2 genes.
C12Q 1/6886 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
G16B 40/00 - ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
The present disclosure generally relates to compositions and methods for the synthesis of nucleic acid molecules with low error rates. Provided, as examples, are compositions and methods for high throughput synthesis and assembly of nucleic acid molecules, in many instances, with high sequence fidelity. In many instances, thermostable mismatch recognition proteins (e.g., thermostable mismatch binding protein, thermostable mismatch endonucleases) will be present in compositions and use methods provided.
C07H 21/00 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
A method of modeling a background signal when sequencing a polynucleotide strand using sequencing-by-synthesis includes: flowing a series of nucleotide flows onto a reactor array having multiple reaction confinement regions, one or more copies of the polynucleotide strand being located in a loaded reaction confinement region of the reactor array, the loaded reaction confinement region being located in a vicinity of one or more neighboring reaction confinement regions that may or may not be loaded; receiving output signals from the reactor array; and modeling a background signal for the loaded reaction confinement region using the received output signals and a model adapted to account at least for an exchange of ions between the one or more neighboring reaction confinement regions and a headspace adjacent the loaded reaction confinement region and the one or more neighboring reaction confinement regions.
G16B 5/00 - ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
G16B 25/00 - ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
55.
TEMPERATURE INSULATED PACKAGING SYSTEMS AND RELATED METHODS
A temperature insulated packaging system includes a container having interior surface bounding an interior volume and a liner disposed within the interior volume and at least partially bounding a compartment configured to receive an item for temperature insulated shipping. The liner includes a first sleeve made of cellulose material and at least partially bounds a channel. The first sleeve has an outside wall disposed adjacent to the container and an opposing inside wall disposed adjacent to the compartment configured to receive the item for shipping, the channel being disposed between the inside wall and the outside wall. At least one insulation sheet is disposed within the channel of the first sleeve, the at least one insulation sheet being made of a cellulose material and having a plurality of recesses formed thereon.
B65D 81/38 - Containers, packaging elements, or packages, for contents presenting particular transport or storage problems, or adapted to be used for non-packaging purposes after removal of contents with thermal insulation
Methods for forecasting case counts for a future date in one or more geographic areas of persons infected by a disease is disclosed. The presence of the disease in a biological sample is testable by a polymerase chain reaction (PCR) test. A load of one or more pathogens associated with the disease correlates with a PCR cycle which indicates presence of the one or more pathogens, and is referred to as a threshold cycle (Ct). Data relevant to forecasting the case counts including Ct data and other data is received. The Ct data comprises Ct values from PCR tests of biological samples from persons within the one or more geographic areas. Arrays of feature data for processing by a trained machine learning model are generated, comprising Ct features and other features obtained from the data. A forecasted number of infected persons are generated by processing the arrays using machine learning.
G16H 50/80 - ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for detecting, monitoring or modelling epidemics or pandemics, e.g. flu
G16H 50/20 - ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for computer-aided diagnosis, e.g. based on medical expert systems
A chromatography system includes a first chromatography column and a panel having a top face and an opposing bottom face, a first cavity being formed on the panel so as to pass through the top face and be encircled by an inner surface. The panel bounds an inlet fluid channel having an end terminating at an inlet opening formed on the inner surface encircling the first cavity so that the inlet fluid channel communicates with the first cavity. The panel also bounds a plurality of first outlet fluid channels each having an end terminating at an outlet opening formed on the inner surface encircling the first cavity so that each of the plurality of first outlet fluid channels communicate with the first cavity, a first one of the plurality of first outlet fluid channels being in fluid communication with the first chromatography column. A first valve is rotatably disposed within the first cavity.
B01D 15/18 - Selective adsorption, e.g. chromatography characterised by constructional or operational features relating to flow patterns
B01D 15/14 - Selective adsorption, e.g. chromatography characterised by constructional or operational features relating to the introduction of the feed to the apparatus
Described herein are various methods and embodiments of a fluid processing system and foam breaker devices for at least reducing foam formation in a container of the fluid processing system. In some embodiments, the foam breaker device includes a mounting hub extending along a longitudinal axis of the foam breaker device. The mounting hub can include a coupling feature for coupling the foam breaker device to a drive shaft of the fluid processing system. The foam breaker device can also include a wall structure extending circumferentially from the mounting hub at an angle relative to the longitudinal axis of the foam breaker device. The wall structure can cause a reduction in the foam volume as a result of at least a part of the wall structure contacting the foam volume.
C12M 1/00 - Apparatus for enzymology or microbiology
B01D 45/00 - Separating dispersed particles from gases or vapours by gravity, inertia, or centrifugal forces
B01F 27/90 - Mixers with rotary stirring devices in fixed receptacles; Kneaders with stirrers rotating about a substantially vertical axis with paddles or arms
59.
SYSTEMS AND METHODS FOR IDENTIFYING SEQUENCE VARIATION
Systems and method for determining variants can receive mapped reads, and call variants. In embodiments, flow space information for the reads can be aligned to a flow space representation of a corresponding portion of the reference. Reads spanning a position with a potential variant can be grouped and a score can be calculated for the variant. Based on the scores, a list of probable variants can be provided. In various embodiments, low frequency variants can be identified where multiple potential variants are present at a position.
C08B 37/00 - Preparation of polysaccharides not provided for in groups ; Derivatives thereof
G01N 33/532 - Production of labelled immunochemicals
G01N 33/543 - Immunoassay; Biospecific binding assay; Materials therefor with an insoluble carrier for immobilising immunochemicals
B01D 15/38 - Selective adsorption, e.g. chromatography characterised by the separation mechanism involving specific interaction not covered by one or more of groups , e.g. affinity, ligand exchange or chiral chromatography
G01N 33/554 - Immunoassay; Biospecific binding assay; Materials therefor with an insoluble carrier for immobilising immunochemicals the carrier being a biological cell or cell fragment, e.g. bacteria, yeast cells
G01N 33/569 - Immunoassay; Biospecific binding assay; Materials therefor for microorganisms, e.g. protozoa, bacteria, viruses
C07K 16/00 - Immunoglobulins, e.g. monoclonal or polyclonal antibodies
G01N 33/58 - Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving labelled substances
C07D 403/12 - Heterocyclic compounds containing two or more hetero rings, having nitrogen atoms as the only ring hetero atoms, not provided for by group containing two hetero rings linked by a chain containing hetero atoms as chain links
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.
A61J 1/14 - Containers specially adapted for medical or pharmaceutical purposes - Details; Accessories therefor
B65B 3/00 - Packaging plastic material, semiliquids, liquids or mixed solids and liquids, in individual containers or receptacles, e.g. bags, sacks, boxes, cartons, cans or jars
B65B 31/04 - Evacuating, pressurising or gasifying filled containers or wrappers by means of nozzles through which air or other gas, e.g. an inert gas, is withdrawn or supplied
B65D 8/00 - Containers having a curved cross-section formed by interconnecting or uniting two or more rigid, or substantially rigid, components made wholly or mainly of metal, plastics, wood or substitutes therefor
C12N 9/00 - Enzymes, e.g. ligases (6.); Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating, or purifying enzymes
C12Q 1/6876 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
Provided herein, are compositions, methods and kits for inducing an immune response in a subject. In aspects, a lipid composition is described, which includes at least one ionizable lipid comprising a charge (N), at least one peptide, and a nucleic acid molecule comprising a charge (P). In aspects, methods are provided for delivery of a payload to an immune cell using a lipid composition comprising at least one ionizable lipid, at least one endosomal release peptide, and a payload.
A61K 47/69 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the conjugate being characterised by physical or galenical forms, e.g. emulsion, particle, inclusion complex, stent or kit
A61K 47/58 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an organic macromolecular compound, e.g. an oligomeric, polymeric or dendrimeric molecule obtained by reactions only involving carbon-to-carbon unsaturated bonds, e.g. poly[meth]acrylate, polyacrylamide, polystyrene, polyvinylpyrrolidone, polyvinylalcohol or polystyrene sulfonic acid resin
An in vitro method, composition and kit for determining the presence or absence of adenovirus, metapneumovirus, rhinovirus/enterovirus, and parainfluenza in a sample, including providing a reaction mixture containing the sample and at least one primer pair set. The primer pair set includes at least one primer pair A that specifically amplifies a portion of adenovirus genome; at least one primer pair B that specifically amplifies a portion of metapneumovirus genome; at least one primer pair C that specifically amplifies a portion of rhinovirus/enterovirus genome; and at least one primer pair D that specifically amplifies a portion of parainfluenza genome. The reaction mixture is subjected to reaction conditions suitable to amplify targeted nucleic acids, thereby generating at least one amplicon; wherein the presence or absence of at least one amplicon in the sample indicates the presence or absence of adenovirus, metapneumovirus, rhinovirus/enterovirus, and/or parainfluenza in the sample.
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
Methods for assessing genomic instability (GI) may include selectively amplifying nucleic acid sequences at targeted locations in a tumor sample genome by a targeted panel with a low sample input to generate a plurality of nucleic acid sequence reads; dividing the genome into segments having homogeneous copy numbers using log odds of heterozygous SNPs and CNV log ratios determined for the nucleic acid sequence reads; applying a threshold count to squared allelic log odds of each segment in autosomes of the genome to identify unbalanced copy number (UCN) segments; adding numbers of bases in the UCN segments to produce a sum of UCN bases; and dividing the sum of UCN bases by the total number of bases in all the segments identified in the autosomes of the sample genome to produce a ratio indicative of genomic instability. The ratio may be expressed as a percent to give a GI score.
C12Q 1/6886 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
Disclosed are compositions, kits, and methods that enable intra-channel multiplexing by enabling determination of separate detectable signals, each associated with a different assay target, within the same detection channel. The multiple detectable signals can be separately resolved and independently analyzed to enable detection and/or quantification of each respective target. Enabling multiple targets to be assayed within the same detection channel increases the plexy of multiplex assays without relying on additional dyes and concomitant issues of increased spectral overlap.
Provided herein, are compositions, methods and kits for inducing an immune response in a subject. In aspects, a lipid composition is described, which includes at least one ionizable lipid comprising a charge (N), at least one peptide, and a nucleic acid molecule comprising a charge (P). In aspects, methods are provided for delivery of a payload to an immune cell using a lipid composition comprising at least one ionizable lipid, at least one endosomal release peptide, and a payload.
A61K 47/64 - Drug-peptide, drug-protein or drug-polyamino acid conjugates, i.e. the modifying agent being a peptide, protein or polyamino acid which is covalently bonded or complexed to a therapeutically active agent
A61K 47/54 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an organic compound
C07K 7/08 - Linear peptides containing only normal peptide links having 12 to 20 amino acids
C12N 15/87 - Introduction of foreign genetic material using processes not otherwise provided for, e.g. co-transformation
Systems, methods, software and computer-usable media for annotating biomolecule-related data are disclosed. In certain exemplified embodiments, the biomolecules can be nucleic acids and the data can be sequence-related data. In various embodiments, systems can include one or more public or private biological attributes (e.g., annotation information databases, data storage devices and systems, etc.) sources, one or more genomic features data sources (e.g., genomic variant tools, genomic variant databases, genomic variant data storage devices and systems, etc.), a computing device (e.g., workstation, server, personal computer, mobile device, etc.) hosting an annotations module and/or a reporting module, and a client terminal.
G16B 40/00 - ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
G16B 50/00 - ICT programming tools or database systems specially adapted for bioinformatics
Methods for assessing genomic instability (GI) may include selectively amplifying nucleic acid sequences at targeted locations in a tumor sample genome by a targeted panel with a low sample input to generate a plurality of nucleic acid sequence reads; dividing the genome into segments having homogeneous copy numbers using log odds of heterozygous SNPs and CNV log ratios determined for the nucleic acid sequence reads; applying a threshold count to squared allelic log odds of each segment in autosomes of the genome to identify unbalanced copy number (UCN) segments; adding numbers of bases in the UCN segments to produce a sum of UCN bases; and dividing the sum of UCN bases by the total number of bases in all the segments identified in the autosomes of the sample genome to produce a ratio indicative of genomic instability. The ratio may be expressed as a percent to give a GI score.
Systems and methods that enable analyte detection in a multiplexed amplification process can include obtaining, at multiple time points during the amplification process, composite emission signal data associated with a composite emission signal from at least a first probe type comprising a first label configured to generate a first emission signal and a second probe type comprising a second label configured to generate a second emission signal which has spectrally similar characteristics as said first emission signal, the first probe type and the second probe type differing in thermal and/or temporal properties; and determining, based at least partially on the composite emission signal data, emission signal data associated with a emission signal from a given probe type of the first probe type or the second probe type during the amplification process.
The present disclosure provides apparatuses, systems, and methods for performing particle analysis through flow cytometry at comparatively high event rates and for gathering high resolution images of particles.
LIFE TECHNOLOGIES HOLDINGS PTE LIMITED (Singapore)
LIFE TECHNOLOGIES CORPORATION (USA)
Inventor
Chen, Ming Song
Chong, Chee Woei
Loh, Wuh Ken
Foo, Wern Yuh
Boo, Kuan Moon
Leclerc, Norbert
Uhlendorf, Kristina
Koellner, Reiner
Fuchs, Torsten
Breitfelder, Stefan
Abstract
A biological analysis system can include an excitation module and an emission module. The excitation module can include a collimator element for receiving excitation light from the excitation light source and transmitting collimated excitation light in a first direction, and a plurality of excitation mirrors arrayed along the excitation light path, each excitation mirror disposed at an acute angle relative to the first direction and configured to reflect collimated excitation light along a second direction. The emission module can be positioned to receive excitation light transmitted along the second direction and can include a sample block comprising a plurality of sample receptacles positioned to receive a beam of collimated excitation light, and a plurality of photodetectors configured to receive emission light transmitted from a respective sample receptacle in a direction transverse to the second direction of the excitation light path.
The present disclosure provides methods, compositions, kits, and systems useful in the determination and evaluation of the immune repertoire. In one aspect, target-specific primer panels provide for the effective amplification of sequences of B cell receptor heavy and light chains in a single assay, with improved sequencing accuracy and resolution over the repertoire. Variable regions associated with the immune cell receptor are resolved to effectively portray clonal diversity of a biological sample and/or differences associated with the immune cell repertoire of a biological sample.
C12Q 1/6883 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
76.
Apparatuses, Systems And Methods For Imaging Flow Cytometry
The present disclosure provides apparatuses, systems, and methods for performing particle analysis through flow cytometry at comparatively high event rates and for gathering high resolution images of particles.
A method for processing a fluid includes removably securing a retention member to a vessel that bounds a chamber; inserting a collapsible bag within the chamber of the vessel; securing the bag to the retention member so that the bag is supported within the chamber of the vessel; and dispensing a fluid into a compartment of the collapsible bag supported within the chamber of the vessel. The fluid can be mixed within bag while the bag is disposed within the vessel.
B01F 27/88 - Mixers with rotary stirring devices in fixed receptacles; Kneaders with stirrers rotating about a substantially vertical axis with a separate receptacle-stirrer unit that is adapted to be coupled to a drive mechanism
C12M 1/00 - Apparatus for enzymology or microbiology
C12M 1/06 - Apparatus for enzymology or microbiology with gas introduction means with agitator, e.g. impeller
B01F 23/233 - Mixing gases with liquids by introducing gases into liquid media, e.g. for producing aerated liquids using driven stirrers with completely immersed stirring elements
B01F 23/231 - Mixing gases with liquids by introducing gases into liquid media, e.g. for producing aerated liquids by bubbling
B01F 27/91 - Mixers with rotary stirring devices in fixed receptacles; Kneaders with stirrers rotating about a substantially vertical axis with propellers
B01F 27/213 - Mixers with rotary stirring devices in fixed receptacles; Kneaders characterised by their rotating shafts characterised by the connection with the drive
B01F 27/2121 - Mixers with rotary stirring devices in fixed receptacles; Kneaders characterised by their rotating shafts composed of interconnected parts
B01F 33/00 - Other mixers; Mixing plants; Combinations of mixers
B01F 33/501 - Movable mixing devices, i.e. readily shifted or displaced from one place to another, e.g. portable during use
B01F 35/41 - Mounting or supporting stirrer shafts or stirrer units on receptacles
B01F 35/45 - Closures or doors specially adapted for mixing receptacles; Operating mechanisms therefor
B01F 35/513 - Flexible receptacles, e.g. bags supported by rigid containers
B65B 1/02 - Machines characterised by the incorporation of means for making the containers or receptacles
78.
CENTRIFUGAL SEPARATORS AND SKID FOR SEPARATING BIOCOMPONENTS AND METHODS OF USE
A skid (700) for use in separating biocomponents includes a housing (701) bounding a compartment (708), the compartment being partially bounding by a mounting platform (709); and a loading assembly (800) secured to the housing so as to communicate with the compartment. The loading assembly (800) includes an alignment plate (808) having a top surface with cavity (814) recessed therein, the cavity communicating with the compartment; a drive rotor (15) rotatably disposed below the alignment plate and at least partially encircling the cavity, the drive rotor including one or more magnets; a motor (169) coupled to the drive rotor for selectively rotating the drive rotor about the cavity; and a mount at least partially encircling the drive rotor and communicating with the compartment, the mount including a mounting plate having one or more mounting elements upstanding therefrom, the mount being movable between a raised position wherein the mounting plate is aligned with the alignment plate and a second lowered position wherein the mounting plate is disposed at an elevation lower than the alignment plate.
A method for labeling sequence reads includes retrieving a sequence read having an associated flow measurement and an associated flow order; matching a sequence selected from a plurality of sequences with the sequence read, the sequence having a position within the sequence that has more than one acceptable variants; determining which variant of the more than one acceptable variants matches the sequence; generating a predicted flow measurement based on the matched sequence, the variant, and a flow order; and labeling the sequence read and associated flow measurement with the predicted flow measurement.
A method of conjugating a substrate includes exchanging a counter ion associated with a biomolecule with a lipophilic counter ion to form a biomolecule complex, dispersing the biomolecule complex in a nonaqueous solvent, and coupling the biomolecule complex to a substrate in the presence of the nonaqueous solvent.
A system facilitating parallel laboratory operations which includes a plurality of labware components, and a plurality of processing heads configured to interact with the plurality of labware components is described. The system further includes a first set of actuators coupled to the plurality of processing heads and configured to actuate the plurality of processing heads along a first directional axis. The system further includes a second set of actuators configured to translate the plurality of labware components along at least a second directional axis and a third directional axis. The second set of actuators may include one or more magnetic levitation systems configured to cause movement of the plurality of labware components along the second directional axis and the third directional axis.
A computer-implemented method for classifying alignments of paired nucleic acid sequence reads is disclosed. A plurality of paired nucleic acid sequence reads is received, wherein each read is comprised of a first tag and a second tag separated by an insert region. Potential alignments for the first and second tags of each read to a reference sequence is determined, wherein the potential alignments satisfies a minimum threshold mismatch constraint. Potential paired alignments of the first and second tags of each read are identified, wherein a distance between the first and second tags of each potential paired alignment is within an estimated insert size range. An alignment score is calculated for each potential paired alignment based on a distance between the first and second tags and a total number of mismatches for each tag.
G16B 40/00 - ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
The present set of embodiments relate to a system, method, and apparatus for culturing cells within a cell culture vessel having a mixing element. The cell culture system includes a flexible portion and a mixing element disposed therein. The mixing element includes a suspended foldable portion. The system is configured to reduce shear stress on cells without compromising mixing efficiency. This reduction is accomplished by using a mixing element having a large surface area allowing for reduced rotational speeds. The system is collapsible for ease of transport and disposal. The flexible portion collapses and the foldable portion folds to minimize the volume of the system while not in operation.
C12M 1/06 - Apparatus for enzymology or microbiology with gas introduction means with agitator, e.g. impeller
C12M 1/00 - Apparatus for enzymology or microbiology
B01F 27/054 - Deformable stirrers, e.g. deformed by a centrifugal force applied during operation
B01F 27/072 - Stirrers characterised by their mounting on the shaft characterised by the disposition of the stirrers with respect to the rotating axis
B01F 27/2124 - Shafts with adjustable length, e.g. telescopic shafts
B01F 27/1125 - Stirrers characterised by the configuration of the stirrers with arms, paddles, vanes or blades with vanes or blades extending parallel or oblique to the stirrer axis
B01F 35/513 - Flexible receptacles, e.g. bags supported by rigid containers
01 - Chemical and biological materials for industrial, scientific and agricultural use
Goods & Services
Cell culture media, mammalian cells, stem cell reagents,
cryopreservation reagents, cell culture reagents, cell
culture assays, transfection reagents, all the
aforementioned for research use only.
A system and method of selecting genes for a gene panel, includes retrieving gene-disease associations of genes associated with diseases at a given level in the disease hierarchy from a disease association database. The disease association database stores disease information, gene information, phenotype information, associations between diseases in the disease hierarchy, gene-disease associations and strength parameters related to the gene-disease associations. For each gene associated with the diseases at the given level, the strength parameters are weighted and combined to determine a rank score for the each gene. The genes are ranked based on the rank scores to provide ranked gene information. The ranked gene information is linked with diseases at the higher levels of the disease hierarchy based on hierarchical relationships. The ranked gene information for gene-disease associations can be used to select genes for a gene panel design.
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.
Systems and method for identifying variants associated with a genetic disease can include obtaining sequencing reads for a plurality of individuals for a list of variant positions. The reads 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.
Apparatus, methods, and systems including a syringe for delivering a fluid. The syringe includes a syringe body, a piston, an insert, and a removable plunger. The piston is located in a lumen of the syringe body such that a bottom of the piston together with interior walls of the syringe define a working volume. The piston comprising a cavity. The insert is located at a desired position in the lumen. The insert narrowing the lumen and being configured to prevent retraction of the piston beyond the desired position. The removable plunger is configured to removably couple to the piston. The removable plunger includes a tip configured to couple with the cavity of the piston and move the piston when a force is applied at the plunger, and to decouple from the piston when the piston engages the insert at the desired position.
A61M 5/315 - Pistons; Piston-rods; Guiding, blocking or restricting the movement of the rod; Appliances on the rod for facilitating dosing
A61M 5/00 - Devices for bringing media into the body in a subcutaneous, intra-vascular or intramuscular way; Accessories therefor, e.g. filling or cleaning devices, arm rests
A61M 39/12 - Tube connectors or tube couplings for joining a flexible tube to a rigid attachment
A quality control system for a qPCR receives signals resulting from operation of the qPCR system on an assay, and applies labeled data sets to a Support Vector Machine (SVM) to generate classifications for the signals to generate classifications that are utilized as operational feedback to the qPCR system.
42 - Scientific, technological and industrial services, research and design
Goods & Services
Providing an interactive website featuring technology that enables users to complete customer surveys and access customized information about products in the field of scientific research
93.
DEVICE AND METHODS FOR QUANTIFYING ANALYTES INTRODUCTION
Devices and methods for measuring the quantity of multiple analytes in a sample can include a device designed such that each of the analyte sensing elements is configured to measure the quantity of a predetermined analyte and machine executable instructions configured to select the proper analyte sensing element corresponding to the analyte to be measured.
Efficient methods for production of targeted libraries from complex samples is desirable for a variety of nucleic acid analyses. Provided are methods of selectively blocking abundant targets present in a sample for preparing libraries of target nucleic acid sequences, thereby allowing for rapid production of highly multiplexed targeted libraries and analysis of low frequency sequences, including sequencing applications. Methods optionally include use of unique tag sequences. Methods comprise contacting a nucleic acid sample with a plurality of target specific primers or adapters capable of amplification of one or more target nucleic acid sequences under conditions wherein the target nucleic acid(s) undergo a first amplification; digesting the resulting first amplification products; ligating the digested target amplicons or repairing the digested target amplicons; and amplifying the ligated or repaired products in a second amplification, thereby producing a library of target nucleic acid sequence. Each of the reactions further comprise target specific primers that are not capable of completely processing the workflow, resulting in non-useful amplicon production and thereby blocking selected target sequences, e.g., those present in high abundance in the sample. Provided methods may be carried out in a single, addition only workflow reaction, allowing for rapid production of highly multiplexed targeted libraries, optionally including unique tag sequences, which are optimized for detection of low frequency target sequences.
Provided are methods and compositions for preparing a library of target nucleic acid sequences that are useful for assessing gene mutations for oncology biomarker profiling of samples. In particular, a target-specific primer panel is provided that allows for selective amplification of oncology biomarker target sequences in a sample. In one aspect, the invention relates to target-specific primers useful for selective amplification of one or more target sequences associated with oncology biomarkers from two or more sample types. In some aspects, amplified target sequences obtained using the disclosed methods, and compositions can be used in various processes including nucleic acid sequencing and used to detect the presence of genetic variants of one or more targeted sequences associated with oncology.
C12Q 1/6886 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
Cell culture media, concentrated media and feeds, methods of manufacturing cell culture media and feeds, and methods of culturing cells are provided. One or more small peptides, including dipeptides are added to the cell culture media to provide improved stability and improved conditions for culturing cells.
A method for correcting signal measurements comprises an artificial neural network (ANN). The ANN receives a plurality of signal measurements in a channel of an input layer. The ANN is applied to the signal measurements and produces a plurality of signal correction values. The signal correction values may be subtracted from the signal measurements to form corrected signal measurements. The corrected signal measurements may be provided to a base caller to produce a sequence of base calls. The ANN may comprise a convolutional neural network (CNN). The CNN may have a U-NET architecture that includes an encoder and a decoder. The U-NET may include a Convolutional Block Attention Module (CBAM). The CBAM may applied to the outputs of a last pooling layer of the encoder and provides refined feature maps to a first layer of the decoder. The input signal measurements may be generated by a nucleic acid sequencing instrument.
Provided are systems and methods for line volume calibration, and measurement of fluid samples delivered to an interrogation point. In various embodiments, a known fluid volume comprising a sample line fluid and a secondary fluid is delivered to a fluid boundary sensor. The fluid boundary sensor assists in determining the position of the boundaries between the various fluids, and the positions of these boundaries are used to determine the sample line fluid volume.
G01F 25/17 - Testing or calibration of apparatus for measuring volume, volume flow or liquid level or for metering by volume of flowmeters using calibrated reservoirs
G01F 15/00 - MEASURING VOLUME, VOLUME FLOW, MASS FLOW, OR LIQUID LEVEL; METERING BY VOLUME - Details of, or accessories for, apparatus of groups insofar as such details or appliances are not adapted to particular types of such apparatus
G01N 29/22 - Investigating or analysing materials by the use of ultrasonic, sonic or infrasonic waves; Visualisation of the interior of objects by transmitting ultrasonic or sonic waves through the object - Details
99.
METHODS FOR DEEP ARTIFICIAL NEURAL NETWORKS FOR SIGNAL ERROR CORRECTION
A method for correcting signal measurements comprises an artificial neural network (ANN). The ANN receives a plurality of signal measurements in a channel of an input layer. The ANN is applied to the signal measurements and produces a plurality of signal correction values. The signal correction values may be subtracted from the signal measurements to form corrected signal measurements. The corrected signal measurements may be provided to a base caller to produce a sequence of base calls. The ANN may comprise a convolutional neural network (CNN). The CNN may have a U-NET architecture that includes an encoder and a decoder. The U-NET may include a Convolutional Block Attention Module (CBAM). The CBAM may applied to the outputs of a last pooling layer of the encoder and provides refined feature maps to a first layer of the decoder. The input signal measurements may be generated by a nucleic acid sequencing instrument.
A method comprises receiving an ensemble of sequencing reads based on measurements from a plurality of microwells of a sensor array; assigning measured values to the ensemble of sequencing reads; calculating model-predicted values utilizing a predictive model of nucleotide incorporations resulting from flows of nucleotide species according to a predetermined order; modifying at least some model-predicted values using a first bias for forward strands and a second bias for reverse strands, the modifying based on variations between model-predicted values for different hypothesized sequences obtained using the predictive model of nucleotide incorporations resulting from the flows of nucleotide species according to the predetermined order; calculating a measurement confidence value for each read in the ensemble of sequencing reads, the confidence value representing variations between the measured values and the modified model-predicted values; and identifying a plurality of reads in the ensemble as corresponding to a variant sequence.
G16B 20/20 - Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
G16B 40/00 - ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
