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Pacific Biosciences Of California Inc
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Pacific Biosciences Of California Inc patents


Recent patent applications related to Pacific Biosciences Of California Inc. Pacific Biosciences Of California Inc is listed as an Agent/Assignee. Note: Pacific Biosciences Of California Inc may have other listings under different names/spellings. We're not affiliated with Pacific Biosciences Of California Inc, we're just tracking patents.

ARCHIVE: New 2018 2017 2016 2015 2014 2013 2012 2011 2010 2009 | Company Directory "P" | Pacific Biosciences Of California Inc-related inventors


Modular nucleotide compositions and uses therefor

Nucleic acid compositions, methods of making and using such compositions that comprise modular functional groups that can be configured to provide desired functionality to different nucleotide types through a swappable and preferably non-covalent linkage component. Such compositions are useful in a variety of applications including nucleic acid analyses.. ... Pacific Biosciences Of California Inc

Coding genome reconstruction from transcript sequences

Exemplary embodiments provide systems, methods and computer program products for generating reconstructed coding genome contigs from full-length transcript sequences without the use of a reference genome. Aspects of an exemplary embodiment include receiving a set of full-length transcript sequences; partitioning the full-length transcript sequences into at least one gene family based on sequence similarity; reconstructing a coding genome contig for each of the at least one gene family without using a reference genome; and outputting the reconstructed coding genome contig for each of the at least one gene family to a user.. ... Pacific Biosciences Of California Inc

Integrated analytical system and method

An analytical assembly within a unified device structure for integration into an analytical system. The analytical assembly is scalable and includes a plurality of analytical devices, each of which includes a reaction cell, an optical sensor, and at least one optical element positioned in optical communication with both the reaction cell and the sensor and which delivers optical signals from the cell to the sensor. ... Pacific Biosciences Of California Inc

Nanopore sequencing using n-mers

The invention relates to devices and methods for nanopore sequencing. The invention provides devices having an array of nanopores. ... Pacific Biosciences Of California Inc

Extending assembly contigs by analyzing local assembly sub-graph topology and connections

Aspects of the present disclosure provide methods, systems, and computer program products for generating one or more extended contigs. Aspects of the exemplary embodiment include receiving input contigs for a genome; generating local assembly subgraphs including the ends of each contig; identifying subgraphs that unambiguously connect two contigs; and generating an extended contig in which the orientation and order of at least two contigs is determined. ... Pacific Biosciences Of California Inc

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. ... Pacific Biosciences Of California Inc

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.. ... Pacific Biosciences Of California Inc

Substrates and optical systems and methods of use thereof

This invention provides substrates for use in various applications, including single-molecule analytical reactions. Methods for propagating optical energy within a substrate are provided. ... Pacific Biosciences Of California Inc

Methods and compositions for generating asymmetrically-tagged nucleic acid fragments

The present disclosure provides improved methods for generating asymmetrically-tagged nucleic acid constructs, compositions comprising such constructs, and kits and systems for generating such constructs.. . ... Pacific Biosciences Of California Inc

Apparatus and method for performing nucleic acid analysis

The present invention relates to optical confinements, methods of preparing and methods of using them for analyzing molecules and/or monitoring chemical reactions. The apparatus and methods embodied in the present invention are particularly useful for high-throughput and low-cost single-molecular analysis.. ... Pacific Biosciences Of California Inc

Intermittent detection during analytical reactions

Methods, devices, and systems for performing intermittent detection during analytical reactions are provided. Such methods facilitate collection of reaction data from disparate reaction times. ... Pacific Biosciences Of California Inc

Recombinant polymerases for improved single molecule sequencing

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. ... Pacific Biosciences Of California Inc

Arrays of integrated analytical devices and methods for production

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. ... Pacific Biosciences Of California Inc

Modified nucleotide reagents

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. ... Pacific Biosciences Of California Inc

09/14/17 / #20170260579

Sequencing reactions with lithium for pulse width control

Compositions, kits, methods and systems for single molecule nucleotide sequencing comprising producing polymerase reactions having lithium that control the median pulse width for incorporated nucleotides are disclosed. The levels of lithium are used to control pulse width while allowing other sequencing parameters to remain within a desirable range.. ... Pacific Biosciences Of California Inc

09/07/17 / #20170253480

Nanoscale apertures having islands of functionality

Methods, compositions and arrays for non-random loading of single analyte molecules into array structures are provided. Arrays of confined regions are produced wherein each confined region comprises a single island within the confined region. ... Pacific Biosciences Of California Inc

08/17/17 / #20170233802

Classification of nucleic acid templates

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. ... Pacific Biosciences Of California Inc

08/03/17 / #20170219492

Integrated illumination of optical analytical devices

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. ... Pacific Biosciences Of California Inc

06/29/17 / #20170183501

Cyanine dyes

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.. ... Pacific Biosciences Of California Inc

06/22/17 / #20170176335

Arrays of integrated analytical devices

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. ... Pacific Biosciences Of California Inc

06/15/17 / #20170168040

Nanopore sequencing using n-mers

The invention relates to devices and methods for nanopore sequencing. The invention provides for using the signals from n monomeric units (n-mers) within the nanopore to provide sequence information. ... Pacific Biosciences Of California Inc

06/15/17 / #20170167979

Analytical devices having dichroic prism arrays

Apparatus, systems and methods for use in analyzing discrete reactions are provided. The analytical devices of the invention use an array of nanoscale regions (a chip) that has discrete patches, for example, patches of nanoscale regions. ... Pacific Biosciences Of California Inc

06/08/17 / #20170159119

Methods and compositions for loading of polymerase complexes

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.. ... Pacific Biosciences Of California Inc

06/08/17 / #20170159116

Modular nucleotide compositions and uses therefor

Nucleic acid compositions, methods of making and using such compositions that comprise modular functional groups that can be configured to provide desired functionality to different nucleotide types through a swappable and preferably non-covalent linkage component. Such compositions are useful in a variety of applications including nucleic acid analyses.. ... Pacific Biosciences Of California Inc

06/08/17 / #20170159111

Fret-labeled compounds and uses therefor

Fret-labeled compounds are provided for use in analytical reactions. In certain embodiments, fret-labeled nucleotide analogs are used in place of naturally occurring nucleoside triphosphates or other analogs in analytical reactions comprising nucleic acids, for example, template-directed nucleic acid synthesis, dna sequencing, rna sequencing, single-base identification, hybridization, binding assays, and other analytical reactions.. ... Pacific Biosciences Of California Inc

06/08/17 / #20170159033

Methods, systems, and reagents for direct rna sequencing

Provided are compositions comprising recombinant polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for sequencing rna or rna/dna templates. Polymerases that topologically encircle the template nucleic acid are provided. ... Pacific Biosciences Of California Inc

06/01/17 / #20170152492

Polymerases for nucleotide analogue incorporation

Compositions that include polymerases with features for improving entry of nucleotide analogues into active site regions and for coordinating with the nucleotide analogues in the active site region are provided. Methods of making the polymerases and of using the polymerases in sequencing and dna replication and amplification as well as kinetic models of polymerase activity and computer-implemented methods of using the models are also provided.. ... Pacific Biosciences Of California Inc

05/18/17 / #20170140990

Packaging methods for fabrication of analytical device packages and analytical device packages made thereof

Disclosed are packaging methods for the fabrication of analytical device packages and fabricated analytical device packages. The methods include providing a sensor wafer and mounting individual plates or a plate wafer on the sensor wafer. ... Pacific Biosciences Of California Inc

05/18/17 / #20170137877

Integrated analytical system and method

An analytical assembly within a unified device structure for integration into an analytical system. The analytical assembly is scalable and includes a plurality of analytical devices, each of which includes a reaction cell, an optical sensor, and at least one optical element positioned in optical communication with both the reaction cell and the sensor and which delivers optical signals from the cell to the sensor. ... Pacific Biosciences Of California Inc

05/18/17 / #20170136433

Loading nucleic acids onto substrates

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. ... Pacific Biosciences Of California Inc

05/11/17 / #20170132361

Sequence assembly method

Computer implemented methods for improving the assembly of sequence data are provided. In preferred embodiments, these methods increase the efficiency of assembly of sequence datasets from complex samples, such as genomes having repetitive regions.. ... Pacific Biosciences Of California Inc

05/04/17 / #20170122929

Control of enzyme translocation in nanopore sequencing

The invention relates to devices and methods for nanopore sequencing. Methods for controlling translocation of through the nanopore are disclosed. ... Pacific Biosciences Of California Inc

05/04/17 / #20170121764

Intermittent detection during analytical reactions

Methods, devices, and systems for performing intermittent detection during analytical reactions are provided. Such methods facilitate collection of reaction data from disparate reaction times. ... Pacific Biosciences Of California Inc

04/20/17 / #20170107570

Isolation of polymerase-nucleic acid complexes

Compositions, methods and systems are provided for isolating dna having a modified or unnatural base. Circular dna fragments, each comprising a double stranded dna central region and single stranded regions on the ends of the double stranded regions, are obtained. ... Pacific Biosciences Of California Inc

03/09/17 / #20170067038

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. ... Pacific Biosciences Of California Inc

02/09/17 / #20170038333

Systems and methods for selectively addressing sparsely arranged electronic measurement devices

A circuit comprising a substrate with sectors on the substrate is provided, each sector comprising clock and data lines, a controller in electrical communication with the clock and data lines, a counter bias line, an amplifier input line and nano-electronic measurement devices on the substrate. A source of each device is coupled to the counter bias line and a drain of each device is coupled to the amplifier input line to obtain an electrical signal on the drain, the identity of which is determined by electrical interaction between the device and a charge label. ... Pacific Biosciences Of California Inc

02/09/17 / #20170037464

Classification of nucleic acid templates

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. ... Pacific Biosciences Of California Inc

02/09/17 / #20170037462

Single-molecule nanofet sequencing systems and methods

Real time electronic sequencing methods, devices, and systems are described. Arrays of nanofet devices are used to provide sequence information about a template nucleic acid in a polymerase-template complex bound to the nanofet. ... Pacific Biosciences Of California Inc

02/02/17 / #20170030834

Optics collection and detection system and method

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.. ... Pacific Biosciences Of California Inc

01/12/17 / #20170009289

Delaying real-time sequencing

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.. ... Pacific Biosciences Of California Inc

01/05/17 / #20170002409

Apparatus and method for performing nucleic acid analysis

The present invention relates to optical confinements, methods of preparing and methods of using them for analyzing molecules and/or monitoring chemical reactions. The apparatus and methods embodied in the present invention are particularly useful for high-throughput and low-cost single-molecular analysis.. ... Pacific Biosciences Of California Inc








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