A method of loading beads on a sensor substrate includes applying a suspension including beads to a flow cell defined over a sensor substrate. The sensor substrate includes a plurality of wells. The beads at least partially deposit into the plurality of wells. The method also includes removing liquid from the flow cell, evaporating liquid from the flow cell, for example, by drawing air through the flow cell; and applying a hydrating solution to the flow cell.
C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
C07K 5/02 - Peptides having up to four amino acids in a fully defined sequenceDerivatives thereof containing at least one abnormal peptide link
3.
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.
A high data rate integrated circuit, such as an integrated circuit including a large sensor array, may be implemented using clock multipliers in individual power domains, coupled to sets of transmitters, including a transmitter pair configuration. Reference clock distribution circuitry on the integrated circuit distributes a relatively low speed reference clock. In a transmitter pair configuration, each pair comprises a first transmitter and a second transmitter in a transmitter power domain. Also, each pair of transmitters includes a clock multiplier connected to the reference clock distribution circuitry, and disposed between the first and second transmitters, which produces a local transmit clock.
Disclosed are compositions, kits, and methods for use in applications involving electrophoretic separation of nucleic acids, including capillary electrophoresis applications in which nucleic acid samples are labelled with dyes, size-separated, and subjected to short tandem repeat (STR) analysis. A sample containing DNA is mixed with a composition that includes at least one set of primers that target an STR region of the sample nucleic acid, a set of short quantification primers (QS primers) that target a first multi-copy sequence (QS sequence) of the sample nucleic acid, and a set of long quantification primers (QL primers) that target a second multi-copy sequence (QL sequence) of the sample nucleic acid, wherein the QS sequence is shorter than the QL sequence.
Life Technologies Holdings PTE Limited (Singapore)
Inventor
Murakami, Marie
Bulloch, Kyle
Olson, Neil
Winnick, Ross
Teo, Wei Fuh
Thacker, Michael
Abstract
The present disclosure provides systems for gel electrophoresis and electrotransfer comprising one or more chambers that can removably and interchangeably receive either an electrophoresis cassette, or an electrotransfer cassette, and provides an electrical interface for both electrophoresis and electrotransfer of biomolecules. The present disclosure also provides electrophoresis devices including clamps and electrotransfer cassettes and related devices. Methods for electrophoresis and electrotransfer using the systems and devices of the disclosure are also provided.
The present disclosure relates to methods, kits, and compositions for improving the efficiency of homologous recombination. In particular, the disclosure relates to methods for introducing a nucleic acid cutting entity for DNA editing into cells that are difficult to transfect. Generally, the nucleic acid cutting entity is introduced into the cell without the use of viral vectors. The disclosure also relates to cloning DNA molecules directly into a genome with the combined use of promoter trapping and short homology arms, nuclear localization signal, and/or binding one or more DNA binding agents (TAL effector domain or truncated guide RNA bound by Cas9) to specific sites thereby displacing or restructuring chromatin at the target locus, and/or it increasing the accessibility of the target locus to further enzymatic modifications. The methods and compositions provided herein are, inter alia, useful for genome editing and enhancing enzymatic processes involved therein.
Methods, systems and non-transitory machine-readable storage medium are provided to mitigate insertion errors and deletion errors in STR sequences and improve accuracy in determination of the number of repeats. A method includes determining one or more optimum clusters for a set of flow space signal measurements, wherein at least one of the optimum clusters is associated with a homopolymer length, modifying a base call at the position in the repeat region sequence to the homopolymer length associated with the optimum cluster to produce a corrected repeat region sequence, thereby correcting an insertion error or a deletion error. The method may further include detecting variations in the flanks associating those variations with the length of the STR.
G16B 5/00 - ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
G16B 40/00 - ICT specially adapted for biostatisticsICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
The present set of embodiments relate to a bioproduction system, method, and apparatus for creating a scalable bioreactor system. Specifically, the present set of embodiments enable the determination of bioreaction performance characteristics of a commercial scale by matching operational parameters between a small test scale bioreaction to that of a commercial scale bioreaction. The system and methods do not rely on simply making bioreactor apparatuses across scales the same dimensionally which would not account for differences in fluid dynamic properties between very small to very large volumes, but requires tuning of a variety of systems (mixing assembly, sparger system, and headspace airflow system) in conjunction with one another to achieve predictive outcomes.
C12M 1/42 - Apparatus for the treatment of microorganisms or enzymes with electrical or wave energy, e.g. magnetism, sonic wave
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 27/054 - Deformable stirrers, e.g. deformed by a centrifugal force applied during operation
B01F 27/114 - Helically shaped stirrers, i.e. stirrers comprising a helically shaped band or helically shaped band sections
B01F 27/213 - Mixers with rotary stirring devices in fixed receptaclesKneaders characterised by their rotating shafts characterised by the connection with the drive
B01F 27/90 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with paddles or arms
B01F 27/92 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with helices or screws
A targeted panel with low sample input requirements from a tumor only sample may be processed to estimate mutation load in a tumor sample. The method may include detecting variants in nucleic acid sequence reads corresponding to targeted locations in the tumor sample genome; annotating detected variants with an annotation information from a population database; filtering the detected variants, wherein the filtering rule set retains the somatic variants and removes germ-line variants; counting the identified somatic variants to give a number of somatic variants; determining a number of bases in covered regions of the targeted locations in the tumor sample genome; and calculating a number of somatic variants per megabase, provides an estimate of the mutation load per megabase in the tumor sample genome.
A lentiviral vector production system comprises (a) a lentiviral culture supplement to control cell growth, (b) a transfection reagent comprising DHDMS, DOPE, and cholesterol to increase transfection efficiency, (c) a lentiviral production enhancer comprising sodium propionate, sodium butyrate, and caffeine to boost lentiviral production, wherein the lentiviral vector production system is serum-free. A method of lentiviral vector production comprises using the lentiviral production system. Another method for lentiviral vector production comprises (a) culturing eukaryotic cells in a serum-free medium, (b) providing a lentiviral culture supplement to control cell growth, (c) transfecting the cells with a lentiviral vector using a transfection reagent comprising DHDMS, DOPE, and cholesterol to increase transfection efficiency, and (d) providing a lentiviral production using a lentiviral production enhancer comprising sodium propionate, sodium butyrate capable of boosting lentiviral production.
THERMO SCIENTIFIC PORTABLE ANALYTICAL INSTRUMENTS INC. (USA)
LIFE TECHNOLOGIES CORPORATION (USA)
Inventor
Doherty, Walter
Lee, Lisa
Fisher, Brandon
Benson, Katelyn
Abstract
A modular accessory for orienting a light path at different angles to an optical axis of a spectrometer is described. The modular accessory includes an attachment module configured to couple to a Raman spectrometer. The attachment module attaches to a base module which includes a visible light imager. An objective module couples to the base module and includes an objective configured to provide an optical path for the sample light beam travelling from a sample along a light path to an objective lens of the objective, through the objective, and to the input for the sample light beam of the base module. The modules can provide tilt and swivel angles to orient the light path at different angles. Portable Raman systems including the modular accessory and a Raman spectrometer are also described as well as methods for using the systems.
Systems and methods for a tubing disconnect assembly are disclosed. In an embodiment the system includes a first bioprocessing unit, a second bioprocessing unit, a flexible tubing in fluid communication with the first and second bioprocessing unit, and a tubular collar having a middle portion sandwiched between a first and second swaged end portions, and secured around at least a portion of the tubing, the collar configured to be disconnected by a disconnecting device in the middle region extending between the first and second swaged end portions.
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 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.
A method of mixing a fluid includes at least partially unfolding a collapsible bag bounding a compartment, the collapsible bag containing in the compartment at least a portion of an elongated drive line or drive shaft and an impeller secured to the drive line or drive shaft, the impeller including a plurality of impeller blades that are pivotable relative to the drive line or drive shaft, at least one of the plurality of impeller blades being in a collapsed position. A fluid is delivered into the compartment of the collapsible bag. The drive line or drive shaft is then rotated so as to rotate the impeller within the compartment and mix the fluid therein, the at least one of the plurality of impeller blades pivoting from the collapsed position to an expanded position as the impeller is rotated within the compartment.
B01F 27/21 - Mixers with rotary stirring devices in fixed receptaclesKneaders characterised by their rotating shafts
B01F 27/054 - Deformable stirrers, e.g. deformed by a centrifugal force applied during operation
B01F 27/07 - Stirrers characterised by their mounting on the shaft
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 27/1125 - 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 27/191 - Stirrers with two or more mixing elements mounted in sequence on the same axis with similar elements
B01F 27/88 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with a separate receptacle-stirrer unit that is adapted to be coupled to a drive mechanism
B01F 27/906 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with paddles or arms with fixed axis
B01F 35/41 - Mounting or supporting stirrer shafts or stirrer units on receptacles
B01F 35/513 - Flexible receptacles, e.g. bags supported by rigid containers
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
16.
Magnetic Particle Separation System with Flexible Bioprocessing Container
A magnetic particle separation system includes a magnetic field generating device having an upper surface with a receiving area formed thereon; and a magnetic field generating element disposed beneath the upper surface, the magnetic field generating element being configured to produce a magnetic field above the upper surface. A container assembly is disposed on the upper surface and includes: a flexible container having an outer wall with an interior surface that at least partially bounds an internal compartment, the outer wall having a front side and an opposing back side with the internal compartment disposed therebetween; a fluid inlet extending through the outer wall at the front side; a fluid outlet extending through the outer wall at the front side; and a first partition projecting into the internal compartment from the front side between the fluid inlet and the fluid outlet.
B03C 1/30 - Combinations with other devices, not otherwise provided for
C07K 16/28 - Immunoglobulins, e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
C12M 1/00 - Apparatus for enzymology or microbiology
C12M 1/12 - Apparatus for enzymology or microbiology with sterilisation, filtration, or dialysis means
The disclosure generally relates to systems, methods, and apparatuses for magnetic bead loading. An example embodiment of the disclosure relates to an apparatus including a vertically oriented plate having a first major surface and a second major surface opposite the first major surface; a magnet holder securing a magnet in proximity to the first major surface of the vertically oriented plate; a drive mechanism coupled to the magnet holder and operable to move the magnet holder and magnet in parallel to the first major surface of the vertically oriented plate; and a substrate holder to receive a substrate and hold the substrate in a vertical orientation against the surface of the vertically oriented plate.
The present disclosure provides freeze-dried eukaryotic cell culture media, feeds, and supplement formulations that have enhanced stability when stored refrigerated or at room temperature. The present disclosure contemplates freeze-dried eukaryotic cell culture media and supplement compositions having reduced moisture content and enhanced stability when compared to non-freeze-dried eukaryotic cell culture media, feed, and supplement compositions. Additional aspects include methods of freeze-drying eukaryotic cell culture media and supplement compositions to enhance stability. Further encompassed are methods for stabilizing eukaryotic cell culture media, feed, or supplement compositions by freeze-drying. Still further aspects include freeze-dried eukaryotic cell culture media, feed, and supplement compositions that are agglomerated or powered media compositions.
A method for sequencing a polynucleotide sample having a barcode sequence includes: introducing a series of nucleotides to the polynucleotide sample according to a predetermined order of nucleotide flows; obtaining a series of signals resulting from the introducing of nucleotides to the polynucleotide sample; and resolving the series of signals over the barcode sequence to render a flowspace string, wherein the flowspace string is a codeword of an error-correcting code that is (i) designed based on and adapted for use with the predetermined order of nucleotide flows, and (ii) capable of distinguishing any codeword in the error-correcting code from the other codewords in the error-correcting code in the presence of zero, one, and two errors.
C40B 20/04 - Identifying library members by means of a tag, label, or other readable or detectable entity associated with the library members, e.g. decoding processes
C40B 50/16 - Solid phase synthesis, i.e. wherein one or more library building blocks are bound to a solid support during library creationParticular methods of cleavage from the solid support involving encoding steps
C40B 70/00 - Tags or labels specially adapted for combinatorial chemistry or libraries, e.g. fluorescent tags or barcodes
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
An improved amebocyte lysate-based method for the detection of endotoxin is described. The method requires only a single incubation step and permits the use of various sample input volumes, allowing for greater flexibility while maintaining sensitive detection of endotoxin at concentrations ranging from 0.01 to 10 endotoxin units (EU)/mL. Kits for performing the endotoxin detection method are also described.
Methods for determining an arm aneuploidy score in a tumor sample genome include selectively amplifying nucleic acid sequences at specific locations in the tumor genome using a targeted panel to generate sequence reads. Next, divide the genome locations into segments with homogeneous copy numbers based on log odds of heterozygous SNPs and CNV log ratios of the sequence reads. Identify gain and loss segments relative to a reference copy number and intersecting respective chromosome arms. Compare the cellularities of these segments to a minimum threshold. Retain the longest segment for the arm that meets the minimum cellularity and sum its total bases. Divide this total by the number of bases in the arm to yield a fraction. If this fraction meets a minimum threshold, filter the segment based on fold changes and determine gains or losses. Count the arms with called gains or losses to generate the arm aneuploidy 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
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving virus or bacteriophage
C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
Methods and systems for improving the scalability and associated efficacy of continuous transfection processes, such as continuous transient transfection processes. The continuous transfection system includes at least a first input line and a second input line, wherein the first input line and the second input line are configured for sterile, fluid connection to a first reagent housing and a second reagent housing, respectively, a mixing chamber that is fluidly connected to the at least first and second input lines, a delivery line fluidly connected to the mixing chamber, wherein the delivery line is configured for sterile, fluid connection to a cell culture vessel, and a flow rate control component, such as a pump operable to control flow rate of liquid into the at least first and second input lines, throughout the mixing chamber, and into the cell culture vessel.
A method of biological sample analysis includes subjecting a biological sample comprising nucleic acid to an amplification reaction conducted in the presence of a detector probe and a calibrator probe, wherein the detector probe is configured to specifically interact with a first region of a wild type target nucleic acid sequence and emit a first emission signal in response to the interaction, and wherein the calibrator probe is configured to specifically interact with a second region of the wild type target nucleic acid sequence and emit a second emission signal in response to the interaction, the first region and the second region differing from each other. The method further includes calculating a ratio of the change in the first emission signal to the change of the second emission signal at a point in time of the amplification reaction.
Provided herein is a method of sequentially isolating DNA and RNA from a sample, the method comprising: contacting the sample with a solid support comprising surface silanol groups in the presence of an aqueous nucleic acid purification buffer to provide a DNA-bound solid support; removing the DNA-bound solid support from the sample; contacting the sample with a solid support comprising surface carboxyl groups in the presence of the aqueous nucleic acid purification buffer to provide an RNA-bound solid support; and removing the RNA-bound solid support from the fluid sample, wherein the aqueous nucleic acid purification buffer comprises a polar aprotic solvent. Also provided is a kit comprising said purification buffer and solid supports, the use of said kit in an automated nucleic acid analysis platform, and a nucleic acid analysis apparatus, comprising an automated nucleic acid analysis platform; and the aforementioned kit.
Various cell analysis systems of the present teachings can measure the electrical and metabolic activity of single, living cells with subcellular addressability and simultaneous data acquisition for between about 10 cells to about 500,000 cells in a single analysis. Various sensor array devices of the present teachings can have sensor arrays with between 20 million to 660 million ChemFET sensors built into a massively paralleled array and can provide for simultaneous measurement of cells with data acquisition rates in the kilohertz (kHz) range. As various ChemFET sensor arrays of the present teachings can detect chemical analytes as well detect changes in cell membrane potential, various cell analysis systems of the present teachings also provide for the controlled chemical and electrical interrogation of cells.
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
C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
The present invention is directed to non-naturally occurring peptides containing a membrane-penetrating amino acid sequence and further at least one polycationic moiety or peptide sequence. The peptides are suitable for use in delivery a cargo to the interior of a cell. Suitable cargo includes nucleic acid molecules (including DNA, RNA or PNA), polypeptides, or other biologically active molecules. The present invention is further directed to transfection complexes containing the non-naturally occurring peptides of the present invention in non-covalent association with at least one cationic lipid and a cargo to be delivered to the interior of a cell. The invention further relates to methods for the preparation and use of the non-naturally occurring peptides for the formation of transfection complexes and the delivery of a cargo to the interior of a cell in culture, an animal or a human. The invention also relates to compositions and kits useful for transfecting cells.
C12N 15/88 - Introduction of foreign genetic material using processes not otherwise provided for, e.g. co-transformation using microencapsulation, e.g. using liposome vesicle
A61K 47/54 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additivesTargeting 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
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
C07K 14/00 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof
32.
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. Also disclosed is a method of detecting or quantifying a target nucleic acid molecule in a sample by polymerase chain reaction (PCR). The compounds have the following formula (I).
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. Also disclosed is a method of detecting or quantifying a target nucleic acid molecule in a sample by polymerase chain reaction (PCR). The compounds have the following formula (I).
09 - Scientific and electric apparatus and instruments
Goods & Services
Downloadable computer software used for analysis of scientific data and information for use in analyzing cells and particles using reflective and fluorescent properties produced by a flow cytometer apparatus or device
Devices, systems, and methods for measuring an analyte are disclosed. A device, system, or method can include a radiofrequency sensor comprising a radiofrequency transmitter and a radiofrequency receiver. A device, system, or method can be configured to transmit a radiofrequency signal from the transmitter to the receiver through a culture medium comprising the analyte. In some embodiments, a device, system, or method can include a controller configured to determine a concentration of the analyte based on a resultant signal produced at the receiver. A device, system, or method can comprise a radiofrequency sensor introducer. An introducer of a device, system, or method can comprise a first sensor sheath configured to receive a radiofrequency transmitter and a second sensor sheath configured to receive a radiofrequency receiver. In some implementations, an introducer of a device, system, or method can be configured to maintain a separation between the transmitter and receiver.
G01N 22/00 - Investigating or analysing materials by the use of microwaves or radio waves, i.e. electromagnetic waves with a wavelength of one millimetre or more
C12M 1/34 - Measuring or testing with condition measuring or sensing means, e.g. colony counters
C12M 3/00 - Tissue, human, animal or plant cell, or virus culture apparatus
36.
METHODS FOR PARTNER AGNOSTIC GENE FUSION DETECTION
A method for detecting a gene fusion includes amplifying a nucleic acid sample in the presence of primer pool to produce a plurality of amplicons. The primer pool includes primers targeting a plurality of exon-exon junctions of a driver gene. The amplicons correspond to the exon-exon junctions. The amplicons are sequenced and aligned to a reference sequence. The number of reads corresponding to each amplicon is normalized to give a normalized read count. A baseline correction is applied to the normalized read counts for the amplicons to form corrected read counts. A binary segmentation score is calculated for each corrected read count. A predicted breakpoint for the gene fusion is determined based on the amplicon index corresponding to the maximum absolute binary segmentation score. Gene fusion events may be detected in a partner agnostic manner, i.e. without prior knowledge of the specific fusion partner genes or specific breakpoint information.
The present set of embodiments relate to a system, method, and apparatus for forming a sanitary connection between two pipes or tubes. The apparatus may include two clamp members capable of closing around the ends of two adjoining pipes. Attachment regions may serve as a connection or pivot point and closure regions may lock the two clamp members in place. Systems and methods to prevent damage to the pipes or tubes are disclosed as well as systems and methods to bring the clamp members from an open configuration to a closed and secure configuration.
The present disclosure relates to new and useful azaindole cyanine (pyrrolo pyridine cyanine) compounds. Use of the compounds as dyes that operate in the far-red and near-IR spectral region in biological imaging, and methods of making the compounds are also disclosed herein. The azaindole cyanine (pyrrolo pyridine cyanine) compounds have formulas (I) and (II).
The present disclosure relates to new and useful azaindole cyanine (pyrrolo pyridine cyanine) compounds. Use of the compounds as dyes that operate in the far-red and near-IR spectral region in biological imaging, and methods of making the compounds are also disclosed herein. The azaindole cyanine (pyrrolo pyridine cyanine) compounds have formulas (I) and (II).
C09B 23/08 - Methine or polymethine dyes, e.g. cyanine dyes characterised by the methine chain containing an odd number of CH groups more than three CH groups, e.g. polycarbocyanines
G01N 33/533 - Production of labelled immunochemicals with fluorescent label
01 - Chemical and biological materials for industrial, scientific and agricultural use
Goods & Services
Kits consisting primarily of antibody derivatives and
reagents relating to the use and preparation of labeled
antibody conjugates for use in life sciences and biomedical
research, namely, for use in scientific or research use, but
excluding water quality, water filtration, and water
treatment.
01 - Chemical and biological materials for industrial, scientific and agricultural use
Goods & Services
Biochemical reagents for use in scientific, environmental,
food, and forensic research; reagent kits comprised of
biochemical reagents for use in scientific, environmental,
food and forensic research; biochemical reagents for use in
a scientific apparatus for chemical or biological analysis;
reagent kits comprised of biochemical reagents for use in a
scientific apparatus for chemical or biological analysis.
Disclosed herein are aspects of a composition, typically comprising a functionalized magnetic particle with an outer surface comprising a ligand on the outer surface, wherein the ligand is bound to a permeabilized cell comprising a nucleic acid for generating a nucleic acid library. Also disclosed are a method of tagging a nucleic acid within at least one cell, a method of generating a nucleic acid library, systems configured for processing disclosed compositions and implementing disclosed methods, and kits comprising a composition or compositions for use with disclosed method aspects.
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
01 - Chemical and biological materials for industrial, scientific and agricultural use
09 - Scientific and electric apparatus and instruments
Goods & Services
Kits consisting primarily of reagents and laboratory equipment, namely, microarrays sold as a unit for scientific research use Laboratory equipment, namely, microarrays
52.
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.
Cell analysis systems and instruments provide an end user with time-course graphic and imaging data of individual cellular responses as elicited by perturbations in the cellular microenvironment and monitored by ChemFET sensors. Imaging data of cellular responses can be presented as an electroscopic image, which is an image taken at a defined sampling interval of cellular response from sensors covering a cell footprint or an image of cellular response for sensors detecting cellular effluent. Electroscopic imaging can be compared to optical imaging to provide an additional dimension of information regarding cell analysis. For example, comparing optical imaging of immunocytochemical studies using known marker panels provides a functional and phenotypic signature of data obtained for each cell analyzed using a ChemFET-based cell analysis system.
An artificial neural network is applied to a plurality of flow predictor features to generate a flow space probability of error for a base call. A base quality value for the base call is determined based on the flow space probability of error. The base call and flow predictor features are based on the flow space signal measurements generated in response to the nucleotide flow to the reaction confinement region. For an array of reaction confinement regions, a plurality of parallel neural networks is applied to produce a probability of error for each reaction confinement region. A given neural network of the parallel neural networks is applied to the plurality of flow predictor features corresponding to a given reaction confinement region in the array to provide the flow space probability of error for the given reaction confinement region.
A method for nucleic acid sequencing includes: receiving a signal comprising measurements of a parameter measured in response to a plurality of nucleotide flows flowed in a space comprising a sample nucleic acid; normalizing the signal to obtain a normalized signal; adaptively normalizing the normalized signal to obtain an adaptively normalized signal; and predicting a sequence of base calls corresponding to the sample nucleic acid using the adaptively normalized signal.
G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
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 further parameter
G01N 27/414 - Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS
G16B 25/00 - ICT specially adapted for hybridisationICT specially adapted for gene or protein expression
Sample preparation methods for in situ RNA or DNA analysis, methods and compositions used in such methods are provided. Methods provided herein allow DNA or RNA preparation and downstream analysis to be carried out in the same tube or on an aliquot of the prepared sample without centrifugation or further purification. The compositions and methods provided herein can advantageously be used on a variety of samples, including cultures of cell lines and/or primary cells. The preparation process is amenable to high throughput processing using manual or robotic platforms.
A method for user guided initiating of an instrument includes receiving a run plan via a user interface of the instrument; indicating on the user interface, based on the run plan, a consumable to be provided to the instrument; detecting the presence of the consumable using a vision system; and indicating the presence of the consumable via the user interface.
Ionizable lipids are provided that are useful for delivering macromolecules, such as nucleic acids, into eukaryotic cells. The lipids can be used alone, in combination with other lipids and/or in combination with other transfection enhancing reagents to prepare transfection complexes.
C07C 215/28 - Compounds containing amino and hydroxy groups bound to the same carbon skeleton having hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being unsaturated and containing six-membered aromatic rings
C07C 217/42 - Compounds containing amino and etherified hydroxy groups bound to the same carbon skeleton having etherified hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having etherified hydroxy groups and at least two amino groups bound to the carbon skeleton
C07C 219/06 - Compounds containing amino and esterified hydroxy groups bound to the same carbon skeleton having esterified hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having the hydroxy groups esterified by carboxylic acids having the esterifying carboxyl groups bound to hydrogen atoms or to acyclic carbon atoms of an acyclic saturated carbon skeleton
C07C 219/08 - Compounds containing amino and esterified hydroxy groups bound to the same carbon skeleton having esterified hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having at least one of the hydroxy groups esterified by a carboxylic acid having the esterifying carboxyl group bound to an acyclic carbon atom of an acyclic unsaturated carbon skeleton
C07C 229/12 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having only one amino and one carboxyl group bound to the carbon skeleton the nitrogen atom of the amino group being further bound to acyclic carbon atoms or to carbon atoms of rings other than six-membered aromatic rings to carbon atoms of acyclic carbon skeletons
C07C 229/22 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated the carbon skeleton being further substituted by oxygen atoms
C07C 229/26 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having more than one amino group bound to the carbon skeleton, e.g. lysine
C07C 229/36 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton containing six-membered aromatic rings with at least one amino group and one carboxyl group bound to the same carbon atom of the carbon skeleton
C07C 323/25 - Thiols, sulfides, hydropolysulfides or polysulfides substituted by halogen, oxygen or nitrogen atoms, or by sulfur atoms not being part of thio groups containing thio groups and nitrogen atoms, not being part of nitro or nitroso groups, bound to the same carbon skeleton having the sulfur atoms of the thio groups bound to acyclic carbon atoms of the carbon skeleton the carbon skeleton being acyclic and saturated
C07D 209/20 - Radicals substituted by carbon atoms having three bonds to hetero atoms with at the most one bond to halogen, e.g. ester or nitrile radicals substituted additionally by nitrogen atoms, e.g. tryptophane
C07D 233/61 - Heterocyclic compounds containing 1,3-diazole or hydrogenated 1,3-diazole rings, not condensed with other rings having two double bonds between ring members or between ring members and non-ring members with only hydrogen atoms or radicals containing only hydrogen and carbon atoms, attached to ring carbon atoms with hydrocarbon radicals, substituted by nitrogen atoms not forming part of a nitro radical, attached to ring nitrogen atoms
C07C 215/14 - Compounds containing amino and hydroxy groups bound to the same carbon skeleton having hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being saturated and acyclic the nitrogen atom of the amino group being further bound to hydrocarbon groups substituted by amino groups
A61K 9/127 - Synthetic bilayered vehicles, e.g. liposomes or liposomes with cholesterol as the only non-phosphatidyl surfactant
C07C 279/14 - Derivatives of guanidine, i.e. compounds containing the group the singly-bound nitrogen atoms not being part of nitro or nitroso groups having nitrogen atoms of guanidine groups bound to acyclic carbon atoms of a carbon skeleton being further substituted by carboxyl groups
Ionizable lipids are provided that are useful for delivering macromolecules, such as nucleic acids, into eukaryotic cells. The lipids can be used alone, in combination with other lipids and/or in combination with other transfection enhancing reagents to prepare transfection complexes.
A61K 31/164 - Amides, e.g. hydroxamic acids of a carboxylic acid with an aminoalcohol, e.g. ceramides
A61K 48/00 - Medicinal preparations containing genetic material which is inserted into cells of the living body to treat genetic diseasesGene therapy
C07C 217/42 - Compounds containing amino and etherified hydroxy groups bound to the same carbon skeleton having etherified hydroxy groups and amino groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated having etherified hydroxy groups and at least two amino groups bound to the carbon skeleton
C07C 229/04 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being acyclic and saturated
C07C 229/28 - Compounds containing amino and carboxyl groups bound to the same carbon skeleton having amino and carboxyl groups bound to acyclic carbon atoms of the same carbon skeleton the carbon skeleton being saturated and containing rings
A61P 37/00 - Drugs for immunological or allergic disorders
The present invention provides mutant DNA polymerases, polynucleotides encoding the polymerases, cassettes and vectors including such polynucleotides, and cells containing the polymerases, polynucleotides, cassettes, and/or vectors of the invention. The present invention also provides methods for synthesizing polynucleotides and kits including a DNA polymerase of the invention.
A detection system that operates with reduced sample waste and dead volume, the system including: a module configured to introduce a sample spacer into a sample; at least one light source, wherein the light source illuminates the sample spacer and the sample, wherein illumination of the sample spacer produces scattered light; and a detection device configured to initiate acquisition of data related to the sample in response to scattered light detected by the detection device.
Examples described herein provide systems and methods for quantifying cells. An example method includes receiving at least one image, improving a contrast of the at least one image to generate a contrast image, and performing a fit operation on the contrast image to generate a processed image. The method includes applying a filter to the processed image to generate a filtered image, identifying cells within the filtered image, and providing an output image including an indication of the cells.
A detection system that operates with reduced sample waste and dead volume, the system including: a module configured to introduce a sample spacer into a sample; at least one light source, wherein the light source illuminates the sample spacer and the sample, wherein illumination of the sample spacer produces scattered light; and a detection device configured to initiate acquisition of data related to the sample in response to scattered light detected by the detection device.
A sensor apparatus includes a substrate, a semiconductor device disposed over the substrate, the semiconductor device having a surface electrode structure, and a saccharide coating formed over the surface electrode structure. The saccharide coating can be removed prior to use. The semiconductor device can further include a well and optionally a bead disposed in the well.
Examples described herein provide systems and methods for quantifying cells. An example method includes receiving at least one image, improving a contrast of the at least one image to generate a contrast image, and performing a fit operation on the contrast image to generate a processed image. The method includes applying a filter to the processed image to generate a filtered image, identifying cells within the filtered image, and providing an output image including an indication of the cells.
G06V 10/50 - Extraction of image or video features by performing operations within image blocksExtraction of image or video features by using histograms, e.g. histogram of oriented gradients [HoG]Extraction of image or video features by summing image-intensity valuesProjection analysis
G06V 20/69 - Microscopic objects, e.g. biological cells or cellular parts
01 - Chemical and biological materials for industrial, scientific and agricultural use
Goods & Services
(1) Biochemical reagents for use in scientific, environmental, food, and forensic research; reagent kits comprised of biochemical reagents for use in scientific, environmental, food and forensic research; biochemical reagents for use in a scientific apparatus for chemical or biological analysis; reagent kits comprised of biochemical reagents for use in a scientific apparatus for chemical or biological analysis.
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.
Campylobacter spSalmonella spShigellasp./Enteroinvasive Escherichia coli (EIEC)Escherichia coli Escherichia coliEscherichia coli stx2/Shiga toxin B. Other embodiments include methods and kits for detecting diarrhea causing pathogens.
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
A61K 39/40 - AntibodiesImmunoglobulinsImmune serum, e.g. antilymphocytic serum bacterial
76.
METHODS FOR GAS FILTRATION IN FLUID PROCESSING SYSTEMS
A method for filtering a gas comprises passing a gas through a compartment of a filter assembly, the filter assembly comprising: an inlet opening; a first outlet opening; a casing comprising polymeric film and bounding the compartment, the compartment communicating with the inlet opening and the first outlet opening; and a first filter at least partially disposed within the compartment. The method further comprising forming a first seal across a first section of the casing at a location between the inlet opening and the first filter to form a first sub-compartment within the casing and severing the casing at a first location.
B01D 46/58 - Filters or filtering processes specially modified for separating dispersed particles from gases or vapours with multiple filtering elements, characterised by their mutual disposition connected in parallel
B01D 46/00 - Filters or filtering processes specially modified for separating dispersed particles from gases or vapours
B01F 23/231 - Mixing gases with liquids by introducing gases into liquid media, e.g. for producing aerated liquids by bubbling
B01F 27/2121 - Mixers with rotary stirring devices in fixed receptaclesKneaders characterised by their rotating shafts composed of interconnected parts
B01F 27/88 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with a separate receptacle-stirrer unit that is adapted to be coupled to a drive mechanism
B01F 27/90 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with paddles or arms
An instrument for processing and/or measuring a biological process comprises a sample processing system and an excitation source exhibiting a spectral function of output power or intensity verses wavelength of output power or intensity. The spectral function has a minima wavelength corresponding to a local minima value of the output power or intensity; a first maxima wavelength corresponding to a first local maxima of output power or intensity, the output power or intensity at the first local maxima being greater than the output power or intensity at any wavelength less than the minima wavelength; a second maxima wavelength corresponding to a second local maxima of output power or intensity, the output power or intensity at the second local maxima being greater than the output at any wavelength greater than the minima wavelength; the minima wavelength is between the first maxima wavelength and the second maxima wavelength.
G01N 21/27 - ColourSpectral properties, i.e. comparison of effect of material on the light at two or more different wavelengths or wavelength bands using photo-electric detection
78.
PURIFICATION CHEMISTRIES AND FORMATS FOR SANGER DNA SEQUENCING REACTIONS ON A MICRO-FLUIDICS DEVICE
According to various embodiments described herein, a microfluidics-chip based purification device and system for Sanger-sequencing reactions is provided. The device and system allow for the introduction into a sequencing system of a cartridge containing purification technologies specific to the sequencing contaminants or sequencing method where the simplified purification solution of a cartridge allows automation of the sample purification process, reduced consumption of purification reagents, and consistency in sampling by reducing the sampling errors and artifacts. These various embodiments therefore solve the need for a microfluidics-chip-based, Sanger-sequencing reaction purification system for CE devices. The microfluidic chips described can be used as a PCR chip by reorganizing the on-chip reagents, reaction wells and work flow steps.
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 T cell receptor and/or B cell receptor chains 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 1/6876 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
C12Q 1/6881 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for tissue or cell typing, e.g. human leukocyte antigen [HLA] probes
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
80.
COMPOSITIONS AND METHODS FOR REDUCING MASTER MIX CONTAMINATION
This disclosure describes master mix compositions, nucleic acid amplification kits, methods of manufacturing master mix compositions, and methods of using master mix compositions that minimize or eliminate the negative effects of contaminant nucleic acids. Conventional master mix compositions often include contaminant nucleic acids.
C12Q 1/6848 - Nucleic acid amplification reactions characterised by the means for preventing contamination or increasing the specificity or sensitivity of an amplification reaction
The charging stand kit for assembling a charging stand (1) for electrical pipettes (10) comprises a charging module (2) configured to hold an electrical pipette (10) to be charged, the charging module (2) comprising first and second sets of electrical contacts (7, 8) on first and second sides for connecting the charging module (2) electrically to adjacent parts (2, 3) of the charging stand (1), a first leg (3) having an upper end con- figured to be attached to the first side of the charging module (2) and comprising a set of electrical contacts (9) configured to contact the first set of electrical contacts (7) of the charging module (2), and a second leg (4) having an upper end config- ured to be attached to the second side of the charging module (2).
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.
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.
01 - Chemical and biological materials for industrial, scientific and agricultural use
Goods & Services
Chemicals for use in industry and science; diagnostic preparations for scientific or research use; diagnostic preparations for clinical or medical laboratory use; DNA polymerase, reagents and reagent kits comprising generic DNA circle, DNA polymerase and buffers for scientific, medical or veterinary research use; DNA polymerase, reagents and reagent kits comprising generic DNA circle, DNA primers, DNA polymerase and buffers for use in the biotechnology field
88.
LIBRARY PREPARATION METHODS AND COMPOSITIONS AND USES THEREFOR
Provided are methods for preparing a library of target nucleic acid sequences, as well as compositions and uses therefor. Methods comprise contacting a nucleic acid sample with a plurality of adaptors 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; repairing the digested target amplicons; and amplifying the repaired products in a second amplification, thereby producing a library of target nucleic acid sequence. Each of the plurality of adaptor compositions comprise a handle and a targeted nucleic acid sequence and optionally one or more tag sequences. 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. Resulting library compositions are useful for a variety of applications, including sequencing applications.
C40B 20/04 - Identifying library members by means of a tag, label, or other readable or detectable entity associated with the library members, e.g. decoding processes
C40B 40/06 - Libraries containing nucleotides or polynucleotides, or derivatives thereof
C40B 50/06 - Biochemical methods, e.g. using enzymes or whole viable microorganisms
89.
FLUID MIXING SYSTEMS WITH MODULAR IMPELLERS AND RELATED METHODS
A mixing system for mixing a liquid includes a first impeller segment having a first mount and a first mixing blade secured to the first mount and a second impeller segment having a second mount and a first mixing blade secured to the second mount, the second impeller segment being separate and discrete from the first impeller segment. One or more drive members are secured to the first impeller segment and the second impeller segment for concurrently rotating the first impeller segment and the second impeller segment about a rotational axis. The first impeller segment and the second impeller segment are secured to the one or more drive members so that a plane extending normal to the axis of rotation intersects with the first mixing blade of the first impeller segment and the first mixing blade of the second impeller segment.
B01F 27/191 - Stirrers with two or more mixing elements mounted in sequence on the same axis with similar elements
B01F 27/07 - Stirrers characterised by their mounting on the shaft
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 27/113 - Propeller-shaped stirrers for producing an axial flow, e.g. shaped like a ship or aircraft propeller
B01F 27/91 - Mixers with rotary stirring devices in fixed receptaclesKneaders with stirrers rotating about a substantially vertical axis with propellers
B01F 35/513 - Flexible receptacles, e.g. bags supported by rigid containers
B01F 101/44 - Mixing of ingredients for microbiology, enzymology, in vitro culture or genetic manipulation
C12M 1/06 - Apparatus for enzymology or microbiology with gas introduction means with agitator, e.g. impeller
90.
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.
C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
G16B 5/00 - ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
Provided herein is an aqueous nucleic acid purification buffer comprising a polar aprotic solvent. Also provided is use of such a purification buffer to precipitate a nucleic acid from solution to a solid support, thereby providing a nucleic acid bound solid support. A method of processing a nucleic acid is also provided, comprising exposing a sample comprising the nucleic acid to an aqueous medium comprising a polar aprotic solvent in the presence of a solid support; and precipitating the nucleic acid to the solid support, thereby providing a nucleic acid bound solid support. Further provided are kits and compositions comprising such an aqueous nucleic acid purification buffer, as well as related nucleic acid analysis apparatus, and use of said kits.
A method for reducing spectral crosstalk in a multiplexed assay is provided. The method includes receiving filter signal data from a multiplexed fluorescence assay and an initial dye matrix including calibrated spectral dye data. The method further includes generating an updated dye matrix based on the initial dye matrix and estimated crosstalk proxies, and then adjusting the updated dye matrix to meet a calculated optimization value. The calculated optimization value is calculated based on at least the estimated crosstalk proxies and the filter signal data. The calculated optimization value may be further calculated based on each adjustment of the updated dye matrix, and a cross-correlation between dyes used in the assay. The method further includes generating an improved dye matrix based on the adjusted updated dye matrix, and then generating spectral adjusted data based on the improved dye matrix.
A system for sample holder scanning is provided. The system includes a light source, a multiband excitation filter configured to select at least two excitation bands of light for fluorescent dyes used in the sample holder. The system further includes a multiband dichroic filter configured to reflect the at least two excitation bands of light, a multiband emission filter configured to transmit at least two bands of fluorescent emission light from each reaction site of the sample holder. The multiband dichroic filter is further configured to transmit the at least two bands of fluorescent emission light. The system also includes an optical sensor configured to detect the at least two bands of fluorescent emission light to generate an image of a sample holder.
Assemblies, methods, and systems for delivering a fluid into a fluidic flow. An assembly includes: a dispenser body having an interior wall defining a lumen having a longitudinal axis and a diameter; a cap configured to traverse the diameter of the lumen, the cap having an upper surface and a lower surface; a piston disposed within the lumen, the piston having a top surface and a bottom surface, the top surface together with the interior wall and the lower surface of the cap defining a working volume of the lumen, wherein the piston is movable along the longitudinal axis to change the working volume; an outlet in fluid connection with the working volume; and a fluid conduit extending between a first portion of the fluid conduit and a second portion of the fluid conduit, the fluid conduit being in fluid connection with the working volume via the outlet between the first and second portions of the fluid conduit.
A61M 39/00 - Tubes, tube connectors, tube couplings, valves, access sites or the like, specially adapted for medical use
B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
C12M 1/00 - Apparatus for enzymology or microbiology
A61J 1/05 - Containers specially adapted for medical or pharmaceutical purposes for collecting, storing or administering blood, plasma or medical fluids
A61M 5/168 - Means for controlling media flow to the body or for metering media to the body, e.g. drip meters, counters
A61M 5/145 - Pressure infusion, e.g. using pumps using pressurised reservoirs, e.g. by means of pistons
A61M 39/20 - Closure caps or plugs for connectors or open ends of tubes
95.
SYSTEMS AND METHODS OF CELL SORTING IMPLEMENTING ARTIFICIAL INTELLIGENCE
Disclosed herein are apparatuses, systems, as well as related methods, computing devices, and computer-readable media related to real time cell sorter cell sorting using embeddings. For example, in some embodiments a method may comprise receiving first cell sorter data. The first cell sorter data may include cell sorter data including microscopy data, hyperspectral imaging data, high-dimensional vector data, or one or more combinations thereof. In some embodiments, the cell sorter data may include quantitative fluorescence data expressed as one or more of antibodies bound per cell, antibody binding capacity (ABC), molecules of equivalent soluble fluorochrome (MESF), one or more other quantitative indicators of fluorescence, or one or more combinations thereof. In some embodiments, the quantitative fluorescence data includes one or more fluorescence signals from: one or more fluorescent proteins, one or more fluorescent dyes, one or more fluorescently conjugate antibodies, or one or more combinations thereof.
Disclosed herein are dual-expression polynucleotide vectors including a first polynucleotide sequence including, in the 5' to 3' direction, a bacteriophage promoter sequence operatively linked to a sequence encoding a plurality of first RNA hairpin structures, a multiple cloning site sequence, a sequence encoding a plurality of second RNA hairpin structures, and a transcription terminator sequence; and a second polynucleotide sequence including, in the 5' to 3' direction, a bacteriophage promoter sequence operatively linked to a ribosome binding site sequence, a viral coat protein sequence, and the transcription terminator sequence. RNA detection and/or quantification standards or controls produced from these dual-expression vectors, along with methods for producing the RNA detection and/or quantification standards or controls, and methods of detecting the presence or quantity of nucleic acid using the RNA detection and/or quantification standards, are also disclosed.
The present disclosure is directed to compositions, methods and kits useful for the synthesis of nucleic acid molecules. More specifically, compositions, methods and kits are provided for the amplification of nucleic acid molecules in an one-step qPCR or RT-qPCR procedure comprising a reverse transcriptase, a DNA polymerase, at least one dNTP, and at least one stabilizing agent, wherein said at least one stabilizing agent increases stability of an assembled polymerase chain reaction.
C12Q 1/6848 - Nucleic acid amplification reactions characterised by the means for preventing contamination or increasing the specificity or sensitivity of an amplification reaction
Disclosed are compositions, kits, and methods for amplifying and quantifying a target nucleic acid from a sample. Compositions, kits, and methods enable the quantification of a target nucleic acid from a sample using an internal quantification standard disposed in the same reaction volume as the target nucleic acid, thereby eliminating the need for additional amplification reactions and processing to generate a standard curve. Compositions, kits, and methods also enable the comparison of target nucleic acid loads between two or more test samples by normalizing measured levels of the target nucleic acid in each sample according to relative levels of endogenous nucleic acid in each test sample.
C12Q 1/70 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving virus or bacteriophage
99.
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 hydrogen ion concentration (pH), changes in other analyte concentration, and/or binding events associated with chemical processes relating to DNA synthesis.
G01N 27/414 - Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS
C12Q 1/6818 - Hybridisation assays characterised by the detection means involving interaction of two or more labels, e.g. resonant energy transfer
C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals
H01L 27/088 - Devices consisting of a plurality of semiconductor or other solid-state components formed in or on a common substrate including integrated passive circuit elements with at least one potential-jump barrier or surface barrier the substrate being a semiconductor body including only semiconductor components of a single kind including field-effect components only the components being field-effect transistors with insulated gate
H01L 29/423 - Electrodes characterised by their shape, relative sizes or dispositions not carrying the current to be rectified, amplified or switched
H01L 29/78 - Field-effect transistors with field effect produced by an insulated gate
100.
METHODS FOR CONTEXT BASED COMPRESSION OF GENOMIC DATA FOR IMMUNO-ONCOLOGY BIOMARKERS
The method includes compressing numbers of reads data for targeted genes of a gene expression assay performed on a test sample. The targeted genes are organized into categories. Each category represents a functional context associated with the targeted genes in that category. The numbers of reads corresponding to targeted genes each category is compressed to form a compressed value for the category. The compressed value is compared to a baseline value for the category to determine an enrichment or a loss of a signature corresponding to the functional context of the category. The method may include analyzing information from multiple assays performed on the test sample, assigning a score value to each assay result and predicting a response to immune-oncology treatment based on the assigned scores.
