Provided herein are methods of size selecting nucleic acid molecules that include contacting a sample that includes nucleic acid fragments with a mixture of nucleic acid binding compounds under conditions sufficient to produce a set of nucleic acid fragment-bound compounds, contacting the set of nucleic acid fragment-bound compounds with a set of capture reagents that are attached to solid supports and/or to charge modulation compounds under conditions sufficient to produce captured nucleic acid fragment-bound compounds, and separating the captured nucleic acid fragment-bound compounds from other nucleic acid fragments in the sample. Related systems, devices, compositions, and kits are also provided.
Methods, substrates, devices and systems related to substrates having localized regions with a single molecule of interest or with groups of molecules of interest attached and other regions having few or no molecules of interest attached are provided. In particular, the invention relates to nanoscale wells and arrays of nanoscale wells in which the nanoscale wells have a bottom surface comprising a group 4-5 transition metal oxide and sidewalls comprising silicon dioxide or aluminum oxide. The nanoscale wells of the invention can be selectively functionalized with surface modifying agents for the selective attachment of molecules of interest. The invention also includes substrates with selectively functionalized regions comprising a plurality of active regions that each comprise a group 4-5 transition metal oxide that are separated by surrounding regions comprising silicon dioxide or aluminum oxide.
Arrays of integrated analytical devices and their methods for production are provided. The arrays are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices allow the highly sensitive discrimination of optical signals using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices include an integrated diffractive beam shaping element that provides for the spatial separation of light emitted from the optical reactions.
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 21/78 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique produisant un changement de couleur
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
G02B 6/132 - Circuits optiques intégrés caractérisés par le procédé de fabrication par le dépôt de couches minces
G02B 6/136 - Circuits optiques intégrés caractérisés par le procédé de fabrication par gravure
H10F 39/00 - Dispositifs intégrés, ou ensembles de plusieurs dispositifs, comprenant au moins un élément couvert par le groupe , p. ex. détecteurs de rayonnement comportant une matrice de photodiodes
4.
Recombinant Polymerases for Incorporation of Protein Shield Nucleotide Analogs
Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing or nucleic acid amplification. Such properties include enhanced performance with large nucleotide analogs, increased stability, increased readlength, and improved detection of modified bases, and can also include resistance to photodamage, enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased accuracy, altered speed, increased cosolvent resistance, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
Provided is an analytical system comprising: a plurality of biosensor elements configured to generate sensor data, and a data selection module. The data selection module comprises: a data input array configured to receive sensor data from the plurality of biosensor elements; and a data output array connectable to a downstream data processing module for analyzing the sensor data. The data selection module is for selectively providing the sensor data from the input array to the output array and is configured to: receive sensor mask information, the sensor mask information indicating an identified subset of the plurality of biosensor elements from which sensor data are sought; and selectively provide the identified sensor data from the identified biosensor elements to the data output array.
G16B 20/00 - TIC spécialement adaptées à la génomique ou protéomique fonctionnelle, p. ex. corrélations génotype-phénotype
B01L 3/00 - Récipients ou ustensiles pour laboratoires, p. ex. verrerie de laboratoireCompte-gouttes
G01N 21/00 - Recherche ou analyse des matériaux par l'utilisation de moyens optiques, c.-à-d. en utilisant des ondes submillimétriques, de la lumière infrarouge, visible ou ultraviolette
G16B 30/00 - TIC spécialement adaptées à l’analyse de séquences impliquant des nucléotides ou des aminoacides
G16B 40/00 - TIC spécialement adaptées aux biostatistiquesTIC spécialement adaptées à l’apprentissage automatique ou à l’exploration de données liées à la bio-informatique, p. ex. extraction de connaissances ou détection de motifs
G01N 33/00 - Recherche ou analyse des matériaux par des méthodes spécifiques non couvertes par les groupes
G05B 19/04 - Commande à programme autre que la commande numérique, c.-à-d. dans des automatismes à séquence ou dans des automates à logique
Methods, compositions, and systems for distributing nucleic acids into array regions are provided. The methods, compositions, and systems utilize nucleic acid condensing agents to increase efficiency of distribution of the nucleic acids into the array regions. Various methods for facilitating distribution of the nucleic acids to the array regions are provided.
05 - Produits pharmaceutiques, vétérinaires et hygièniques
10 - Appareils et instruments médicaux
Produits et services
assays and reagents for medical diagnosis medical diagnostic instruments for clinical medical genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA and RNA samples; analytical array chips for clinical medical genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA and RNA samples
Optical analytical devices and their methods of use are provided. The devices are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices include optical waveguides for illumination of the optical reactions. The devices further provide for the efficient coupling of optical excitation energy from the waveguides to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices of the invention are well suited for miniaturization and high throughput.
F21V 8/00 - Utilisation de guides de lumière, p. ex. dispositifs à fibres optiques, dans les dispositifs ou systèmes d'éclairage
B82Y 15/00 - Nanotechnologie pour l’interaction, la détection ou l'actionnement, p. ex. points quantiques comme marqueurs en dosages protéiques ou moteurs moléculaires
B82Y 20/00 - Nano-optique, p. ex. optique quantique ou cristaux photoniques
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G02B 6/024 - Fibres optiques avec revêtement avec des propriétés maintenant la polarisation
G02B 6/10 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
G02B 23/24 - Instruments pour regarder l'intérieur de corps creux, p. ex. endoscopes à fibres
G02F 1/365 - Optique non linéaire dans une structure de guide d'ondes optique
9.
PROCESS FOR COGNATE NUCLEOTIDE DETECTION IN A NUCLEIC ACID SEQUENCING WORKFLOW
Method and composition for identifying cognate nucleotides in a Sequencing By Binding™ procedure, wherein one or more labeled nucleotides are detected in ternary complexes but never incorporated. Labeled nucleotides can be incorporable nucleotides that contact preformed blocked primed template nucleic acids. Alternatively, labeled nucleotides are labeled non-incorporable nucleotides. Labeled nucleotides, including labeled non-incorporable nucleotides, can be detected in ternary complexes in the same reaction mixture that incorporates a reversible terminator nucleotide to create a blocked primed template nucleic acid. Detection of ternary complexes can take place in the presence of a catalytic metal ion.
C07H 21/02 - Composés contenant au moins deux unités mononucléotide comportant chacune des groupes phosphate ou polyphosphate distincts liés aux radicaux saccharide des groupes nucléoside, p. ex. acides nucléiques avec le ribosyle comme radical saccharide
C07H 21/04 - Composés contenant au moins deux unités mononucléotide comportant chacune des groupes phosphate ou polyphosphate distincts liés aux radicaux saccharide des groupes nucléoside, p. ex. acides nucléiques avec le désoxyribosyle comme radical saccharide
C07H 99/00 - Matière non prévue dans les autres groupes de la présente sous-classe
C12N 9/12 - Transférases (2.) transférant des groupes contenant du phosphore, p. ex. kinases (2.7)
C12Q 1/6806 - Préparation d’acides nucléiques pour analyse, p. ex. pour test de réaction en chaîne par polymérase [PCR]
C12Q 1/6874 - Méthodes de séquençage faisant intervenir des réseaux d’acides nucléiques, p. ex. séquençage par hybridation [SBH]
Provided includes methods, compositions and systems for circularizing single-stranded nucleic acids and for performing rolling circle amplification reaction with the circularized nucleic acids. The circularization of single-stranded nucleic acids is carried out in the presence of a helicase and optionally a DNA binding protein.
05 - Produits pharmaceutiques, vétérinaires et hygièniques
10 - Appareils et instruments médicaux
Produits et services
Medical diagnostic assays and reagents, namely, medical diagnostic reagents and assays for use in genetic sequencing and biochemical analysis used to diagnose medical diseases and conditions and to measure and monitor medical treatments Medical instruments and medical analytical array chips, namely, medical diagnostic optical detectors for genetic sequencing, biochemical analysis and the analysis of genes, molecules, DNA and RNA samples, all for medical diagnostic purposes, and medical diagnostic array chips for genetic sequencing, biochemical analysis and for the analysis of genes, molecules, DNA and RNA samples
Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
C07H 21/04 - Composés contenant au moins deux unités mononucléotide comportant chacune des groupes phosphate ou polyphosphate distincts liés aux radicaux saccharide des groupes nucléoside, p. ex. acides nucléiques avec le désoxyribosyle comme radical saccharide
C09B 23/06 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH trois groupes CH, p. ex. carbocyanines
C09B 23/08 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH plus de trois groupes CH, p. ex. polycarbocyanines
C09B 69/00 - Colorants non prévus par un seul groupe de la présente sous-classe
C12Q 1/6876 - Produits d’acides nucléiques utilisés dans l’analyse d’acides nucléiques, p. ex. amorces ou sondes
13.
HIGH SPEED SCANNING SYSTEM WITH ACCELERATION TRACKING
Disclosed herein is a high throughput optical scanning device and methods of use. The optical scanning device and methods of use provided herein can allow high throughput scanning of a continuously moving object with a high resolution despite fluctuations in stage velocity. This can aid in high throughput scanning of a substrate, such as a biological chip comprising fluorophores. Also provided herein are improved optical relay systems and scanning optics.
G02B 27/64 - Systèmes pour donner des images utilisant des éléments optiques pour la stabilisation latérale et angulaire de l'image
G01D 5/347 - Moyens mécaniques pour le transfert de la grandeur de sortie d'un organe sensibleMoyens pour convertir la grandeur de sortie d'un organe sensible en une autre variable, lorsque la forme ou la nature de l'organe sensible n'imposent pas un moyen de conversion déterminéTransducteurs non spécialement adaptés à une variable particulière utilisant des moyens optiques, c.-à-d. utilisant de la lumière infrarouge, visible ou ultraviolette avec atténuation ou obturation complète ou partielle des rayons lumineux les rayons lumineux étant détectés par des cellules photo-électriques en utilisant le déplacement d'échelles de codage
H04N 3/08 - Détails des dispositifs de balayage des systèmes de télévisionLeur combinaison avec la production des tensions d'alimentation par des moyens optiques-mécaniques uniquement comportant un réflecteur mobile
H04N 23/60 - Commande des caméras ou des modules de caméras
H04N 23/68 - Commande des caméras ou des modules de caméras pour une prise de vue stable de la scène, p. ex. en compensant les vibrations du boîtier de l'appareil photo
An analytical device including an optically opaque cladding, a sequencing layer including a substrate disposed below the cladding, and a waveguide assembly for receiving optical illumination and introducing illumination into the device. The illumination may be received from a top, a side edge, and a bottom of the device. The waveguide assembly may include a nanoscale aperture disposed in the substrate and extending through the cladding. The aperture defines a reaction cell for receiving a set of reactants. In various aspects, the device includes a sensor element and the illumination pathway is through the sensor element. Waveguides and illumination devices, such as plasmonic illumination devices, are also disclosed. Methods for forming and operating the devices are also disclosed.
G01N 21/75 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
15.
METHODS AND COMPOSITIONS FOR CAPPING NUCLEIC ACIDS
A method for identifying a nucleic acid template that include (a) providing a plurality of primer-template hybrids, wherein a first hybrid of the plurality includes a first template hybridized to a first primer, and wherein a second hybrid of the plurality includes a second template hybridized to a second primer, the second primer having a ternary complex inhibitor moiety at the 3′ end; (b) delivering polymerases and nucleotides to the plurality, whereby the first hybrid binds a polymerase and nucleotide to form a stabilized ternary complex and whereby the second hybrid does not bind a polymerase and nucleotide to form a stabilized ternary complex; and (c) detecting the stabilized ternary complex to identify the first template.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; reagent
kits comprised of buffers, enzymes, reagents, nucleotides,
chemical preparations and/or biological compounds for use in
the preparation or performance of ensemble or bulk assays
for scientific or research use; reagent kits comprising
components, namely, buffers, enzymes, reagents, nucleotides,
chemical preparations and/or biological compounds, for
single molecule assays for scientific or research use. Laboratory instruments for scientific research, namely,
optical detectors for genetic sequencing and biochemical
analysis; analytical array chips for genetic sequencing and
biochemical analysis; optical array chips for genetic
sequencing and biochemical analysis; downloadable computer
software for the analysis of biological data.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; reagent
kits comprised of buffers, enzymes, reagents, nucleotides,
chemical preparations and/or biological compounds for use in
the preparation or performance of ensemble or bulk assays
for scientific or research use; reagent kits comprising
components, namely, buffers, enzymes, reagents, nucleotides,
chemical preparations and/or biological compounds, for
single molecule assays for scientific or research use. Analytical array chips for genetic sequencing and
biochemical analysis; optical array chips for genetic
sequencing and biochemical analysis; downloadable computer
software for the analysis of biological data.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
(1) Assays and reagents for scientific or research use; reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use.
(2) Laboratory instruments for scientific research, namely, optical detectors for genetic sequencing and biochemical analysis; analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data; none of the aforementioned goods for use in relation to laboratory robots and surgical robots.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
(1) Assays and reagents for scientific or research use; reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use.
(2) Analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data.
Optics collection and detection systems are provided for measuring optical signals from an array of optical sources over time. Methods of using the optics collection and detection systems are also described.
G01N 21/75 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; Reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; Reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use Analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data
Methods, compositions, and systems are provided for the detection of 5-methyl cytosine modifications in nucleic acid, particularly DNA, samples. A template or plurality of templates is sequenced using single molecule real time sequencing. Feature vectors are produced using specific features. In some aspects, a feature vector having a reduced feature set is provided and these feature vectors are input into a deep learning model.
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. There have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy or polynucleotide sequencing applications.
Methods, compositions, and systems are provided for the detection of 5-methylcytosine modifications in nucleic acid, particularly DNA, samples. A template or plurality of templates is sequenced using single molecule real time sequencing. Feature vectors are produced using specific features. In some aspects, a feature vector having a reduced feature set is provided and these feature vectors are input into a deep learning model.
This invention provides analytical devices for use in various applications, including detection of single-molecule analytical reactions. Methods for propagating optical energy within a substrate are provided. Devices comprising waveguide substrates, dielectric omnidirectional reflectors, and optical couplers are provided. Waveguide substrates with improved uniformity of optical energy intensity across one or more waveguides and enhanced waveguide illumination efficiency within an analytic detection region of the arrays are provided.
C12Q 1/6874 - Méthodes de séquençage faisant intervenir des réseaux d’acides nucléiques, p. ex. séquençage par hybridation [SBH]
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C12Q 1/6825 - Détecteurs faisant intervenir la détection d’acides nucléiques
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
Assays and reagents for scientific or research use; reagent
kits for preparation or performance of single molecule
assays for scientific or research use; buffers, enzymes,
reagents, nucleotides, chemical preparations and biological
compounds, each of which is for use in preparation and
performance of single molecule assays for scientific and
research use. Medical diagnostic assays and reagents for testing of
biological samples; reagent kits comprised of medical
diagnostic reagents for testing biological samples; buffers,
enzymes, reagents, nucleotides, chemical preparations and
biological compounds, each of which is for use in medical
diagnostic assays.
28.
METHODS AND COMPOSITIONS FOR STABILIZING CONCATEMERS
This application describes methods, compositions, and kits for forming stabilized concatemers using staple molecules. Additionally, this application provides methods of using stabilized concatemers to improve the results of downstream applications, including sequencing applications.
This application describes methods, compositions, and kits for enriching cells based on DNA sequences. The method may include one or more of cloning nucleic acids into a population of cells, culturing the cells, obtaining nucleic acids from a portion of the cultured cells, sequencing the obtained nucleic acids, identifying a set of one or more barcode sequences that distinguish a population of cultured cells that have a desired library sequence, and enriching one or more cultured cells that comprise the identified set of one or more barcode sequences.
C40B 70/00 - Étiquettes ["tags"] ou marqueurs ["labels"] spécialement adaptés à la chimie combinatoire ou aux chimiothèques, p. ex. "tags" fluorescents ou codes-barres
30.
Labeled nucleotide analogs, reaction mixtures, and methods and systems for sequencing
Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C07H 19/10 - Radicaux pyrimidine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
The present disclosure relates to a deblocking agent and compositions thereof for cleaving an NO bond in an amineoxy group at the 3′ position of a non-extendable polynucleotide, the deblocking agent being a carbonyl phosphonate and/or sulfonate, or salt thereof. The present disclosure further relates to methods of activating and/or extending a non-extendable polynucleotide using the deblocking agent of the present disclosure. The present disclosure also relates to methods of sequencing a target nucleic acid comprising the methods of activating a non-extendable polynucleotide of the present disclosure.
The present disclosure relates to a deblocking agent and compositions thereof for cleaving an NO bond in an amineoxy group at the 3' position of a non-extendable polynucleotide, the deblocking agent being a carbonyl phosphonate and/or sulfonate, or salt thereof. The present disclosure further relates to methods of activating and/or extending a non-extendable polynucleotide using the deblocking agent of the present disclosure. The present disclosure also relates to methods of sequencing a target nucleic acid comprising the methods of activating a non-extendable polynucleotide of the present disclosure.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; Reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; Reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use Laboratory instruments for scientific research, namely, optical detectors for genetic sequencing and biochemical analysis; analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data; none of the aforementioned goods for use in relation to laboratory robots and surgical robots.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; Reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; Reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use Analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; Reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; Reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use Analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data
36.
DENSLEY-PACKED ANALYTE LAYERS AND DETECTION METHODS
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
C12Q 1/6874 - Méthodes de séquençage faisant intervenir des réseaux d’acides nucléiques, p. ex. séquençage par hybridation [SBH]
C12Q 1/689 - Produits d’acides nucléiques utilisés dans l’analyse d’acides nucléiques, p. ex. amorces ou sondes pour la détection ou l’identification d’organismes pour les bactéries
Reaction mixtures are provided having at least a first reactant and a second reactant that produce signals in response to excitation illumination. The signals produced by the reactants have peaks at the same wavelengths, but have distinct signal intensities. In some embodiments, the reactants are FRET-labeled.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
C12Q 1/6818 - Tests d’hybridation caractérisés par les moyens de détection impliquant l’interaction de plusieurs marqueurs, p. ex. transfert d’énergie de résonance
G01N 33/542 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec formation d'un complexe immunologique en phase liquide avec inhibition stérique ou modification du signal, p. ex. extinction de fluorescence
G01N 33/58 - Analyse chimique de matériau biologique, p. ex. de sang ou d'urineTest par des méthodes faisant intervenir la formation de liaisons biospécifiques par ligandsTest immunologique faisant intervenir des substances marquées
39.
RECOMBINANT POLYMERASES FOR INCORPORATION OF PROTEIN SHIELD NUCLEOTIDE ANALOGS
Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing or nucleic acid amplification. Such properties include enhanced performance with large nucleotide analogs, increased stability, increased readlength, and improved detection of modified bases, and can also include resistance to photodamage, enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased accuracy, altered speed, increased cosolvent resistance, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing. Such properties can include enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased thermostability, increased accuracy, increased speed, increased readlength, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
Provided are methods and systems for detecting formation of nucleotide-specific ternary complexes comprising a DNA polymerase, a nucleic acid, and a nucleotide complementary to the templated base of the primed template nucleic acid. The methods and systems facilitate determination of the next correct nucleotide without requiring chemical incorporation of the nucleotide into the primer. This advantageously improves signal-to-noise ratios and increases the quality of results obtainable in a sequencing-by-binding protocol, and enables extended read lengths. These results can even be achieved in procedures employing unlabeled, native nucleotides.
Provided herein are engineered DNA polymerases comprising modifications improving accuracy and processivity of the polymerase including modifications in the Motif A region, optionally, along with additional modifications in the palm and/or exonuclease domains of the polymerase. Also provided are nucleic acids encoding the engineered DNA polymerases comprising modifications in motif A of the polymerase, optionally, with additional modifications. Methods, vectors, kits, and compositions comprising the nucleic acids and compositions, methods and kits comprising the engineered polymerases are also provided.
Methods and systems for single molecule sequencing using concatemers of copies of sense and antisense strands. Concatemers are provided, for example, by carrying out rolling circle amplification on a circular molecule having sense and antisense regions to produce repeated copies of the sense and antisense regions connected by linking regions. The circular molecules can be produced by ligating hairpin adapters to each end of a double-stranded nucleic acid having a sense and antisense strand. The ligations can be carried out, for example using blunt end ligation. In some cases, a single molecule consensus sequence for a single template molecule is obtained. A single read from each template molecule can be obtained by comparing the sequence information of the sense and antisense regions.
C12Q 1/689 - Produits d’acides nucléiques utilisés dans l’analyse d’acides nucléiques, p. ex. amorces ou sondes pour la détection ou l’identification d’organismes pour les bactéries
G16B 30/10 - Alignement de séquenceRecherche d’homologie
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
(1) Assays and reagents for scientific or research use; reagent kits for preparation or performance of single molecule assays for scientific or research use; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in preparation and performance of single molecule assays for scientific and research use.
(2) Medical diagnostic assays and reagents for testing of biological samples; reagent kits comprised of medical diagnostic reagents for testing biological samples; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in medical diagnostic assays.
45.
MODIFIED BIOTIN-BINDING PROTEINS FOR IMMOBILIZATION
Compositions comprising covalently modified and mutated biotin-binding proteins, particularly biotin-binding proteins having a negative charge at physiological pH, are provided. Methods of producing such proteins are also provided, as are methods of immobilizing, sequencing, and making nucleic acids employing such proteins.
C12Q 1/6848 - Réactions d’amplification d’acides nucléiques caracterisées par les moyens d’empêcher la contamination ou d’augmenter la spécificité ou la sensibilité d’une réaction d’amplification
C07K 14/36 - Peptides ayant plus de 20 amino-acidesGastrinesSomatostatinesMélanotropinesLeurs dérivés provenant de bactéries provenant d'ActinomycesPeptides ayant plus de 20 amino-acidesGastrinesSomatostatinesMélanotropinesLeurs dérivés provenant de bactéries provenant de Streptomyces (G)
Integrated target waveguide devices and optical analytical systems comprising such devices are provided. The target devices include an optical coupler that is optically coupled to an integrated waveguide and that is configured to receive optical input from an optical source through free space, particularly through a low numerical aperture interface. The devices and systems are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices provide for the efficient and reliable coupling of optical excitation energy from an optical source to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination. The devices and systems are well suited for miniaturization and high throughput.
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G02B 6/124 - Lentilles géodésiques ou réseaux intégrés
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
G02B 6/42 - Couplage de guides de lumière avec des éléments opto-électroniques
Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
C07H 19/10 - Radicaux pyrimidine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
The invention provides a novel class of cyanine dyes that are functionalized with sulfonic acid groups and a linker moiety that facilitates their conjugation to other species and substituent groups which increase the water-solubility, and optimize the optical properties of the dyes. Also provided are conjugates of the dyes, methods of using the dyes and their conjugates and kits including the dyes and their conjugates.
C07D 209/14 - Radicaux substitués par des atomes d'azote ne faisant pas partie d'un radical nitro
C07D 401/14 - Composés hétérocycliques contenant plusieurs hétérocycles comportant des atomes d'azote comme uniques hétéro-atomes du cycle, au moins un cycle étant un cycle à six chaînons avec un unique atome d'azote contenant au moins trois hétérocycles
C07D 405/14 - Composés hétérocycliques contenant à la fois un ou plusieurs hétérocycles comportant des atomes d'oxygène comme uniques hétéro-atomes du cycle et un ou plusieurs hétérocycles comportant des atomes d'azote comme uniques hétéro-atomes du cycle contenant au moins trois hétérocycles
C07H 19/10 - Radicaux pyrimidine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques
C07K 5/09 - Tripeptides la chaîne latérale du premier amino-acide contenant plus de groupes amino que de groupes carboxyle, ou leurs dérivés, p. ex. Lys, Arg
C07K 5/11 - Tétrapeptides la chaîne latérale du premier amino-acide contenant plus de groupes amino que de groupes carboxyle, ou leurs dérivés, p. ex. Lys, Arg
C09B 23/01 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique
C09B 23/06 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH trois groupes CH, p. ex. carbocyanines
C09B 23/08 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH plus de trois groupes CH, p. ex. polycarbocyanines
C09B 23/10 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre pair de groupes CH
C09B 23/16 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine la chaîne polyméthinique contenant des hétéro-atomes
C12Q 1/6876 - Produits d’acides nucléiques utilisés dans l’analyse d’acides nucléiques, p. ex. amorces ou sondes
G01N 33/52 - Utilisation de composés ou de compositions pour des recherches colorimétriques, spectrophotométriques ou fluorométriques, p. ex. utilisation de bandes de papier indicateur
G01N 33/58 - Analyse chimique de matériau biologique, p. ex. de sang ou d'urineTest par des méthodes faisant intervenir la formation de liaisons biospécifiques par ligandsTest immunologique faisant intervenir des substances marquées
49.
COMPOSITIONS AND TECHNIQUES FOR NUCLEIC ACID PRIMER EXTENSION
A method of characterizing a nucleic acid that includes steps of (a) contacting a primer-template nucleic acid hybrid with a polymerase and a mixture of nucleotides to produce an extended primer hybrid and to form a stabilized ternary complex including the extended primer hybrid, the polymerase and a nucleotide cognate of the next base in the template, wherein the mixture contains nucleotide cognates of four different base types, wherein the nucleotide cognate of the first base type has a reversible terminator, and wherein nucleotide cognates of the second, third and fourth base types are extendable; (b) detecting the stabilized ternary complex to distinguish the next base from other base types in the template; and (c) determining the presence of a base multiplet in the template nucleic acid, the base multiplet including the first base type followed by the next base.
Systems and methods for mapping a plurality of sequence reads to a genomic region are provided. A plurality of sequence reads mappable to the genomic region are obtained. An initial Markov model for the genomic region is obtained. The initial Markov model comprises at least (i) a first repeat for a first repeat region, (ii) a second repeat for a second repeat region, and (iii) an intermediate region linking the first repeat to the second repeat. The initial Markov model is refined using the plurality of sequence reads, thereby obtaining a refined Markov model. For each respective sequence read in the plurality of sequences, the respective sequence read is used to find a highest probability path through the Markov model. This highest probability path is then used to map the respective sequence read to the genomic region.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
Assays and reagents for scientific or research use; reagent
kits for preparation or performance of single molecule
assays for scientific or research use; buffers, enzymes,
reagents, nucleotides, chemical preparations and/or
biological compounds for scientific or research use. Assays and reagents for medical and diagnostic use; reagent
kits for medical and diagnostic use; buffers, enzymes,
reagents, nucleotides, chemical preparations and/or
biological compounds for medical and diagnostic use.
52.
Substrates and optical systems and methods of use thereof
This invention provides devices for use in various analytical applications including single-molecule analytical reactions. Methods for detecting analytes optically by propagating optical energy by waveguides within a substrate are provided. Analytical devices are provided which have both shallow and deep waveguides in which illumination light is transported through the deep waveguides and coupled into the shallow waveguides. The shallow waveguides provide evanescent field illumination to analytes, such as single-molecule analytes, within nanometer scale wells. Integrated devices including integrated detectors such as CMOS detectors are included.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C12Q 1/6825 - Détecteurs faisant intervenir la détection d’acides nucléiques
C12Q 1/6874 - Méthodes de séquençage faisant intervenir des réseaux d’acides nucléiques, p. ex. séquençage par hybridation [SBH]
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
53.
DIGITAL ANALYSIS OF MOLECULAR ANALYTES USING SINGLE MOLECULE DETECTION
Methods and systems are provided for small molecule analyte detection using digital signals, key encryption, and communications protocols. The methods provide detection of a large numbers of proteins, peptides, RNA molecules, and DNA molecules in a single optical or electrical detection assay within a large dynamic range.
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
G01N 33/58 - Analyse chimique de matériau biologique, p. ex. de sang ou d'urineTest par des méthodes faisant intervenir la formation de liaisons biospécifiques par ligandsTest immunologique faisant intervenir des substances marquées
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
C07H 21/04 - Composés contenant au moins deux unités mononucléotide comportant chacune des groupes phosphate ou polyphosphate distincts liés aux radicaux saccharide des groupes nucléoside, p. ex. acides nucléiques avec le désoxyribosyle comme radical saccharide
C09B 23/06 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH trois groupes CH, p. ex. carbocyanines
C09B 23/08 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH plus de trois groupes CH, p. ex. polycarbocyanines
C09B 69/00 - Colorants non prévus par un seul groupe de la présente sous-classe
The present disclosure provides compositions, methods and systems for sequencing a template nucleic acid using a polymerase based, nucleic acid binding reaction involving examination of the interaction between a polymerase and template nucleic acid in the presence of one or more unlabeled nucleotides. The methods rely, in part, on identifying a base of a template nucleic acid during nucleic acid synthesis by controlling the sequencing reaction conditions. Template nucleic acid bases may be identified during an examination step followed by an optional incorporation step.
Methods, compositions, and systems are provided that allow for reliable sequencing of the initial sequence region of a sequence of interest. The methods of the invention allow for more reliable barcoding of subpopulations of nucleic acids to be sequenced.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
Produits et services
Assays and reagents for scientific and research use; reagent kits consisting primarily of reagents for preparation and performance of single molecule assays for scientific and research use; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in preparation and performance of single molecule assays for scientific and research use
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
Medical diagnostic assays and reagents for testing of biological samples; reagent kits comprised of medical diagnostic reagents for testing biological samples; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in medical diagnostic assays
Disclosed herein are blocked asymmetric hairpin adaptors that include a spacer that prevents extension by a strand-displacing polymerase. Such adaptors can be utilized for creating libraries of templates that can be processed into template concatemers and/or interrogated by various sequencing methods.
A sensor having a first electrode and a second electrode operably connected by a conduction channel, wherein a polymerase, primed template nucleic acid and nucleotide form a stabilized ternary complex that is immobilized in or on the conduction channel, whereby association and dissociation of the ternary complex is detected due to changes in electrical properties of the sensor. Identification of the nucleotide type that participates in the complex indicates the identity of the next template base in the template. Repeated cycles of extending the primer and detecting stabilized ternary complexes can allow determination of the sequence of nucleotides for the template.
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
Disclosed herein are methods of detecting at least one target biomolecule in at least one single cell comprising lysing the single cell or cells and performing a cell identification assay and target identification assay. Also disclosed herein are methods for preparing a sample for undergoing single cell analysis, wherein the single cell analysis comprises performing a cell identification assay and a target identification assay.
G01N 33/58 - Analyse chimique de matériau biologique, p. ex. de sang ou d'urineTest par des méthodes faisant intervenir la formation de liaisons biospécifiques par ligandsTest immunologique faisant intervenir des substances marquées
C12Q 1/6876 - Produits d’acides nucléiques utilisés dans l’analyse d’acides nucléiques, p. ex. amorces ou sondes
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
65.
DENSELY-PACKED ANALYTE LAYERS AND DETECTION METHODS
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These methods and systems may have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
The present disclosure provides methods, compositions, and systems for distributing polymerase compositions into array regions. In particular, the described methods, compositions, and systems utilize density differentials and/or additives to increase efficiency in the distribution of polymerase compositions to a surface as compared to methods utilizing only diffusion control.
Optical analytical devices and their methods of use are provided. The devices are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices include optical waveguides for illumination of the optical reactions. The devices further provide for the efficient coupling of optical excitation energy from the waveguides to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices of the invention are well suited for miniaturization and high throughput.
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G02B 6/024 - Fibres optiques avec revêtement avec des propriétés maintenant la polarisation
G02B 6/10 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
G02F 1/365 - Optique non linéaire dans une structure de guide d'ondes optique
B82Y 15/00 - Nanotechnologie pour l’interaction, la détection ou l'actionnement, p. ex. points quantiques comme marqueurs en dosages protéiques ou moteurs moléculaires
B82Y 20/00 - Nano-optique, p. ex. optique quantique ou cristaux photoniques
G02B 23/24 - Instruments pour regarder l'intérieur de corps creux, p. ex. endoscopes à fibres
The invention relates to methods and compositions for the detection and quantification of nucleotide sequence variants, such as genetic polymorphisms, with decreased error and increased sensitivity, including single molecule detection. Detection of genetic polymorphisms, including single nucleotide polymorphisms (SNPs), is highly useful for the study of physiology, disease, phylogeny and forensics. Current methods for the detection and identification of nucleic acid sequence variants, such as genetic polymorphisms, lack the sensitivity to accurately detect low incidence mutations, sequence variants or alleles. Detection techniques for highly multiplexed single molecule identification and quantification of analytes using optical systems are disclosed. Analytes include, but are not limited to, nucleic acid, such as DNA and RNA molecules, with and without modifications. Techniques described herein include use of specific and non-specific probes complementary to nucleic acids of interest for detailed characterization of nucleotide sequence variants and highly multiplexed single molecule identification and quantification.
Methods, compositions, and systems for distributing nucleic acids into array regions are provided. The methods, compositions, and systems utilize nucleic acid condensing agents to increase efficiency of distribution of the nucleic acids into the array regions. Various methods for facilitating distribution of the nucleic acids to the array regions are provided.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
B01J 19/00 - Procédés chimiques, physiques ou physico-chimiques en généralAppareils appropriés
C12Q 1/6806 - Préparation d’acides nucléiques pour analyse, p. ex. pour test de réaction en chaîne par polymérase [PCR]
70.
High speed scanning system with acceleration tracking
Disclosed herein is a high throughput optical scanning device and methods of use. The optical scanning device and methods of use provided herein can allow high throughput scanning of a continuously moving object with a high resolution despite fluctuations in stage velocity. This can aid in high throughput scanning of a substrate, such as a biological chip comprising fluorophores. Also provided herein are improved optical relay systems and scanning optics.
H04N 5/232 - Dispositifs pour la commande des caméras de télévision, p.ex. commande à distance
G01D 5/347 - Moyens mécaniques pour le transfert de la grandeur de sortie d'un organe sensibleMoyens pour convertir la grandeur de sortie d'un organe sensible en une autre variable, lorsque la forme ou la nature de l'organe sensible n'imposent pas un moyen de conversion déterminéTransducteurs non spécialement adaptés à une variable particulière utilisant des moyens optiques, c.-à-d. utilisant de la lumière infrarouge, visible ou ultraviolette avec atténuation ou obturation complète ou partielle des rayons lumineux les rayons lumineux étant détectés par des cellules photo-électriques en utilisant le déplacement d'échelles de codage
G02B 27/64 - Systèmes pour donner des images utilisant des éléments optiques pour la stabilisation latérale et angulaire de l'image
H04N 3/08 - Détails des dispositifs de balayage des systèmes de télévisionLeur combinaison avec la production des tensions d'alimentation par des moyens optiques-mécaniques uniquement comportant un réflecteur mobile
H04N 23/60 - Commande des caméras ou des modules de caméras
H04N 23/68 - Commande des caméras ou des modules de caméras pour une prise de vue stable de la scène, p. ex. en compensant les vibrations du boîtier de l'appareil photo
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. There have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy or polynucleotide sequencing applications.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
(1) Assays and reagents for scientific or research use; reagent kits for preparation or performance of single molecule assays for scientific or research use; buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for scientific or research use.
(2) Assays and reagents for medical and diagnostic use; reagent kits for medical and diagnostic use; buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for medical and diagnostic use.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
09 - Appareils et instruments scientifiques et électriques
10 - Appareils et instruments médicaux
Produits et services
Assays and reagents for scientific or research use; reagent
kits for preparation or performance of ensemble or bulk
assays for scientific or research use; reagent kits
comprising components for single molecule assays for
scientific or research use. Assays and reagents for medical diagnosis. Laboratory instruments for scientific research, namely,
optical detectors for genetic sequencing and biochemical
analysis; analytical array chips; optical array chips for
genetic sequencing and biochemical analysis; downloadable
computer software for the analysis of biological data. Medical diagnostic instruments for clinical medical genetic
sequencing and biochemical analysis and for the analysis of
genes, molecules, DNA and RNA samples; medical analytical
array chips for clinical medical genetic sequencing and
biochemical analysis and for the analysis of genes,
molecules, DNA and RNA samples.
74.
SIZE SELECTION PURIFICATION USING A THERMOPLASTIC SILICA NANOMATERIAL
The present disclosure is directed to a method for purifying a sample containing nucleic acids to obtain isolated nucleic acids of a desired size range, either above a size cut-off, below a cut-off, or within a defined band of sizes, including: a) combining a nucleic acid-containing sample with a binding buffer to provide a binding mixture; b) contacting the binding mixture with a silica nanomembrane, wherein the silica nanomembrane adsorbs nucleic acids from the binding mixture within a desired size-range; and c) separating the bound nucleic acid from the remaining sample. Kits including a silica nanomembrane, a binding buffer and one or wash buffers are also provided herein.
C12N 15/10 - Procédés pour l'isolement, la préparation ou la purification d'ADN ou d'ARN
B01J 20/10 - Compositions absorbantes ou adsorbantes solides ou compositions facilitant la filtrationAbsorbants ou adsorbants pour la chromatographieProcédés pour leur préparation, régénération ou réactivation contenant une substance inorganique contenant de la silice ou un silicate
75.
Labeled nucleotide analogs, reaction mixtures, and methods and systems for sequencing
Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C07H 19/10 - Radicaux pyrimidine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques
C07H 19/207 - Radicaux purine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques les acides phosphoriques ou polyphosphoriques étant estérifiés par un autre composé hydroxylique, p. ex. les dinucléotides de la flavine-adénine ou de la nicotinamide-adénine
Compositions, methods, and systems are provided for fluorescent polymerase enzyme substrates comprising protein shields for improving enzyme photostability in single molecule real time sequencing. Fluorescent polymerase enzyme substrates of the invention have a protein shield between the fluorescent dye moieties and nucleotide moieties of the polymerase enzyme substrate. The polymerase enzyme substrates have a nucleotide component and a dye component, each attached to a protein. The attachments can be covalent. The protein can, for example, prevent the direct interaction of the fluorescent dye moiety with the enzyme when carrying out nucleotide synthesis, preventing photodamage to the enzyme. The polymerase enzyme substrates of the invention can have multiple dyes and multiple nucleotide moieties.
C07H 21/04 - Composés contenant au moins deux unités mononucléotide comportant chacune des groupes phosphate ou polyphosphate distincts liés aux radicaux saccharide des groupes nucléoside, p. ex. acides nucléiques avec le désoxyribosyle comme radical saccharide
C07K 14/36 - Peptides ayant plus de 20 amino-acidesGastrinesSomatostatinesMélanotropinesLeurs dérivés provenant de bactéries provenant d'ActinomycesPeptides ayant plus de 20 amino-acidesGastrinesSomatostatinesMélanotropinesLeurs dérivés provenant de bactéries provenant de Streptomyces (G)
C09B 23/08 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH plus de trois groupes CH, p. ex. polycarbocyanines
C09B 69/10 - Colorants polymèresProduits de réactions de colorants avec des monomères ou avec des composés macromoléculaires
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C12Q 1/6874 - Méthodes de séquençage faisant intervenir des réseaux d’acides nucléiques, p. ex. séquençage par hybridation [SBH]
G01N 33/58 - Analyse chimique de matériau biologique, p. ex. de sang ou d'urineTest par des méthodes faisant intervenir la formation de liaisons biospécifiques par ligandsTest immunologique faisant intervenir des substances marquées
77.
Methods and compositions for sequencing double stranded nucleic acids
A method for determining sequences from sense and antisense strands of a nucleic acid, including (a) providing a nucleic acid cluster attached to a solid support, wherein the nucleic acid cluster includes a sense strand and an antisense strand of a concatemer, the concatemer including multiple copies of a sequence unit, the sequence unit including a target sequence and a primer binding site; (b) hybridizing a primer to a primer binding site in the antisense strand; (c) extending the primer along the antisense strand to determine the sequence from at least a portion of the target sequence in the antisense strand; (d) hybridizing a second primer to a primer binding site in the sense strand; and (e) extending the second primer along the sense strand to determine the sequence from at least a portion of the target sequence in the sense strand.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; reagent
kits for preparation or performance of single molecule
assays for scientific or research use; reagent kits
comprising components for single molecule assays for
scientific or research use. Laboratory instruments for scientific research, namely,
optical detectors for genetic sequencing and biochemical
analysis; analytical array chips; optical array chips for
genetic sequencing and biochemical analysis; downloadable
computer software for the analysis of biological data.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
Produits et services
Assays and reagents for scientific and research use; Reagent kits consisting primarily of reagents for preparation and performance of single molecule assays for scientific and research use; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in preparation and performance of single molecule assays for scientific and research use
05 - Produits pharmaceutiques, vétérinaires et hygièniques
Produits et services
Medical diagnostic assays and reagents for testing of biological samples; reagent kits comprised of medical diagnostic reagents for testing biological samples; buffers, enzymes, reagents, nucleotides, chemical preparations and biological compounds, each of which is for use in medical diagnostic assays
82.
Fluidic apparatus and methods useful for chemical and biological reactions
Provided herein is a method of performing a nucleic acid sequencing reaction using a sequencing system comprising a reagent cartridge coupled to a detection apparatus, and a pump coupled to the reagent cartridge. The reagent cartridge includes a plurality of reagent reservoirs and a main channel. The detection apparatus includes a flow cell that is coupled to the reagent cartridge when the reagent cartridge interacts transiently with the detection apparatus.
Arrays of integrated analytical devices and their methods for production are provided. The arrays are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices allow the highly sensitive discrimination of optical signals using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices include an integrated diffractive beam shaping element that provides for the spatial separation of light emitted from the optical reactions.
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 21/78 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique produisant un changement de couleur
G02B 6/132 - Circuits optiques intégrés caractérisés par le procédé de fabrication par le dépôt de couches minces
G02B 6/136 - Circuits optiques intégrés caractérisés par le procédé de fabrication par gravure
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
(1) Assays and reagents for use in the fields of biological, biochemical and diagnostic analysis for scientific and research use; reagent kits for preparation or performance of single molecule assays for scientific or research use; reagent kits comprising components for single molecule assays for scientific or research use
(2) Laboratory instruments for scientific research, namely, optical detectors for genetic sequencing and biochemical analysis; analytical array chips; optical array chips for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data in the fields of genomics, sequencing, disease research, therapeutics research, biology, biochemistry, and biotechnology
86.
SYSTEMS AND METHODS OF DETECTING DENSELY-PACKED ANALYTES
Disclosed herein are methods and systems for detection and discrimination of optical signals from a densely packed substrate. These may have broad applications for biomolecule detection near or below the diffraction limit of optical systems, including in improving the efficiency and accuracy of polynucleotide sequencing applications.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
05 - Produits pharmaceutiques, vétérinaires et hygièniques
09 - Appareils et instruments scientifiques et électriques
10 - Appareils et instruments médicaux
Produits et services
(1) Assays and reagents for use in the fields of biological, biochemical and diagnostic analysis for scientific and research use; reagent kits for preparation and performance of ensemble and bulk assays for scientific or research use, namely genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA, and RNA; reagent kits comprising components for single molecule assays for scientific or research use, namely genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA, and RNA.
(2) Assays and reagents for use in biochemical analysis for medical diagnosis.
(3) Laboratory instruments for scientific research, namely, optical detectors for genetic sequencing and biochemical analysis; downloadable computer software for the analysis of biological data in the fields of genomics, sequencing, disease research, therapeutics research, biology, biochemistry and biotechnology.
(4) Medical diagnostic instruments for clinical medical genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA and RNA samples; medical analytical array chips for clinical medical genetic sequencing and biochemical analysis and for the analysis of genes, molecules, DNA and RNA samples.
88.
DISTINGUISHING SEQUENCES BY DETECTING POLYMERASE DISSOCIATION
A method for determining the presence of an allele, including (a) binding a polymerase to a double stranded nucleic acid that includes a primer hybridized to a template, the template including a first allele of a locus; (b) adding a nucleotide to the primer via catalytic activity of the polymerase, thereby producing an extended nucleic acid; (c) dissociating the polymerase from the extended nucleic acid; (d) detecting dissociation of the polymerase from the extended nucleic acid; and (e) comparing the dissociation of the polymerase from the extended nucleic acid to dissociation of the polymerase from a second double stranded nucleic acid, the second double stranded nucleic acid including a primer hybridized to the same position of the locus as the primer of the extended nucleic acid.
Protected fluorescent reagent compounds and their methods of synthesis are provided. The compounds are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The compounds contain fluorescent dye elements, that allow the compounds to be detected with high sensitivity at desirable wavelengths, binding elements, that allow the compounds to be recognized specifically by target biomolecules, and protective shield elements, that decrease undesirable contacts between the fluorescent dye elements and the bound target biomolecules and that therefore decrease photodamage of the bound target biomolecules by the fluorescent dye elements.
C07H 19/10 - Radicaux pyrimidine avec le radical saccharide estérifié par des acides phosphoriques ou polyphosphoriques
C07F 9/6558 - Composés hétérocycliques, p. ex. contenant du phosphore comme hétéro-atome du cycle contenant au moins deux hétérocycles différents ou différemment substitués ni condensés entre eux ni condensés avec un carbocycle commun ou un système carbocyclique commun
C07F 9/6561 - Composés hétérocycliques, p. ex. contenant du phosphore comme hétéro-atome du cycle contenant des systèmes de plusieurs hétérocycles déterminants condensés entre eux ou condensés avec un carbocycle ou un système carbocyclique commun, avec ou sans autres hétérocycles non condensés
C09B 23/06 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH trois groupes CH, p. ex. carbocyanines
C09B 23/08 - Colorants méthiniques ou polyméthiniques, p. ex. du type cyanine caractérisés par la chaîne méthinique contenant un nombre impair de groupes CH plus de trois groupes CH, p. ex. polycarbocyanines
C09B 69/10 - Colorants polymèresProduits de réactions de colorants avec des monomères ou avec des composés macromoléculaires
Provided herein include a method for modifying polymerase-nucleic acid complexes, including (a) providing a plurality of surface-immobilized polymerase-nucleic acid complexes in a vessel, wherein the nucleic acid includes a primed-template nucleic acid, wherein at least a subset of the surface-immobilized polymerase-nucleic acid complexes include ternary complexes further including nucleotides; and (b) washing the surface with an aqueous solution including a diol, sulfoxide or polyol, thereby removing the nucleotides from the vessel and retaining the surface-immobilized polymerase-nucleic acid complexes in the vessel.
Optics collection and detection systems are provided for measuring optical signals from an array of optical sources over time. Methods of using the optics collection and detection systems are also described.
G01N 21/75 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G01N 33/543 - Tests immunologiquesTests faisant intervenir la formation de liaisons biospécifiquesMatériaux à cet effet avec un support insoluble pour l'immobilisation de composés immunochimiques
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
92.
METHODS AND COMPOSITIONS FOR DELIVERY OF MOLECULES AND COMPLEXES TO REACTION SITES
The present invention provides methods, compositions, and systems for distributing molecules and complexes into reaction sites. In particular, the methods, compositions, and systems of the present invention result in an active loading of molecules and complexes into reaction sites with improved efficiency over loading by passive diffusion methods alone.
A method of determining a nucleic acid sequence that includes steps of: (a) contacting a primed template nucleic acid with a series of mixtures for forming ternary complexes, wherein each of the mixtures includes a polymerase and nucleotide cognates for at least two different base types suspected of being present at the next template position of the template nucleic acid; (b) monitoring the next template position for ternary complexes formed by the series of mixtures, wherein a signal state indicates presence or absence of ternary complex formed at the next template position by each individual mixture, thereby determining a series of signal states that encodes a base call for the next template position; and (c) decoding the series of signal states to distinguish a correct base call for the next template position from an error in the base call.
C12Q 1/68 - Procédés de mesure ou de test faisant intervenir des enzymes, des acides nucléiques ou des micro-organismesCompositions à cet effetProcédés pour préparer ces compositions faisant intervenir des acides nucléiques
C12Q 1/6832 - Amélioration de la réaction d’hybridation
C12Q 1/6853 - Réactions d’amplification d’acides nucléiques utilisant des amorces ou des matrices modifiées
Optical analytical devices and their methods of use are provided. The devices are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices include integrated illumination elements and optical waveguides for illumination of the optical reactions. The devices further provide for the efficient coupling of optical excitation energy from the waveguides to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices of the invention are well suited for miniaturization and high throughput.
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
05 - Produits pharmaceutiques, vétérinaires et hygièniques
10 - Appareils et instruments médicaux
Produits et services
Reagents for use in biochemical analysis for medical diagnostic use Medical diagnostic instruments, namely, optical detectors for genetic sequencing and biochemical analysis of genes, molecules, DNA and RNA samples
98.
Systems, devices, and methods for improved optical waveguide transmission and alignment
Provided herein are systems, devices, and methods for improved optical waveguide transmission and alignment in an analytical system. Waveguides in optical analytical systems can exhibit variable and increasing back reflection of single-wavelength illumination over time, thus limiting their effectiveness and reliability. The systems are also subject to optical interference under conditions that have been used to overcome the back reflection. Novel systems and approaches using broadband illumination light with multiple longitudinal modes have been developed to improve optical transmission and analysis in these systems. Novel systems and approaches for the alignment of a target waveguide device and an optical source are also disclosed.
G02B 6/12 - Guides de lumièreDétails de structure de dispositions comprenant des guides de lumière et d'autres éléments optiques, p. ex. des moyens de couplage du type guide d'ondes optiques du genre à circuit intégré
G01N 21/77 - Systèmes dans lesquels le matériau est soumis à une réaction chimique, le progrès ou le résultat de la réaction étant analysé en observant l'effet sur un réactif chimique
G02B 6/122 - Éléments optiques de base, p. ex. voies de guidage de la lumière
G02B 6/124 - Lentilles géodésiques ou réseaux intégrés
G02B 6/42 - Couplage de guides de lumière avec des éléments opto-électroniques
G02B 27/09 - Mise en forme du faisceau, p. ex. changement de la section transversale, non prévue ailleurs
G02B 6/34 - Moyens de couplage optique utilisant des prismes ou des réseaux
99.
Recombinant polymerases with increased phototolerance
Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing. Such properties include increased resistance to photodamage, and can also include enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased thermostability, increased accuracy, increased speed, increased readlength, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
01 - Produits chimiques destinés à l'industrie, aux sciences ainsi qu'à l'agriculture
09 - Appareils et instruments scientifiques et électriques
Produits et services
Assays and reagents for scientific or research use; Reagent kits comprised of buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds for use in the preparation or performance of ensemble or bulk assays for scientific or research use; Reagent kits comprising components, namely, buffers, enzymes, reagents, nucleotides, chemical preparations and/or biological compounds, for single molecule assays for scientific or research use Laboratory instruments for scientific research, namely, optical detectors for genetic sequencing and biochemical analysis; analytical array chips for genetic sequencing and biochemical analysis; optical array chips for genetic sequencing and biochemical analysis
