Entries |
Document | Title | Date |
20080268509 | METHODS OF LABELING POLYNUCLEOTIDES WITH ENERGY TRANSFER DYES - Novel linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye are provided. These linkers faciliate the efficient transfer of energy between a donor and acceptor dye in an energy transfer dye. One of these linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye has the general structure R | 10-30-2008 |
20090029423 | METHOD FOR SEPARATING TARGET COMPONENT - A construct in which at least a part of the magnetic material is coated with a polyhydroxyalkanoate (PHA), and a method for producing a construct by immobilizing a PHA synthesizing enzyme on the surface of the magnetic material, thereby biosynthesizing and coating a PHA. | 01-29-2009 |
20090068709 | Global Amplification Using A Randomly Primed Composite Primer - The invention relates to the field of polynucleotide amplification. More particularly, the invention provides methods, compositions and kits for amplification of (i.e., making multiple copies of) a multiplicity of different polynucleotide template sequences using a randomly primed RNA/DNA composite primer. | 03-12-2009 |
20090123978 | BIOLOGICAL SAMPLE REACTION CHIP AND BIOLOGICAL SAMPLE REACTION METHOD - A biological sample reaction chip, including: a plurality of reaction vessels; a first channel connected to one end of each of the reaction vessels and comprising an opening for introducing a reaction solution; and a second channel connected to the other end of each of the reaction vessels, wherein when a capillary force of the first channel is defined as A, while a capillary force of connected portions between the reaction vessels and the first channel as B, a capillary force of the reaction vessels as C, a capillary force of connected portions of the second channel and the reaction vessels as D, and a capillary force of the second channel as E, the following is established: A | 05-14-2009 |
20090155857 | Facilitator and method for amplification - Subject matter of the invention is a method for amplification of nucleic acids, wherein a successful binding of a primer and a facilitator onto the template is required for amplification. The invention further comprises the inventive facilitator, inventive kits comprising a facilitator and the use of said inventive method, facilitator or kit. | 06-18-2009 |
20090181432 | PROCESS FOR SELF-ASSEMBLY OF STRUCTURES IN A LIQUID - A process and apparatus for DNA sequencing is provided. In the field of DNA analysis, an iterative process is disclosed wherein an apparatus with a set of recognition chambers in which a species of recognition element nucleotides are differentially added and subjected to a polymerization reaction allows recognition of which species is next in sequence on a template strand as measured by a detector in a detection area. The position in the sequence is then completed by addition of a saturating amount of building element to complete the polymerization reaction on all structure strands. The process is repeated until the sequence is identified. | 07-16-2009 |
20090203086 | System and method for improved signal detection in nucleic acid sequencing - An embodiment of a system for reducing crosstalk in a parallel sequencing platform is described that comprises a substrate with a plurality of individual reaction environments that include a species of nucleic acid template, and a plurality of spatially localized reactants, wherein the localized reactants minimize the transmission of reaction products to a neighboring reaction environment due to a relative position of the localized reactants in the reaction environment. | 08-13-2009 |
20100015670 | METHOD OF MODIFYING NUCLEOTIDE CHAIN - A nucleotide chain to be modified, a nucleotide having a particular base that is different from bases constituting the nucleotide chain, an enzyme catalyzing addition of the nucleotide to the 3′-terminus of the nucleotide chain, a degrading enzyme acting specifically on the nucleotide, and a desired modifier for modifying the nucleotide chain are allowed to coexist in a buffer solution as a mixture solution such that: the nucleotide is added to the 3′-terminus of the nucleotide chain; the sequence of the added nucleotide is degraded to form, at the 3′-terminus of the nucleotide chain, a functional group capable of binding to the modifier; and the 3′-terminus of the nucleotide chain having the functional group thus formed is directly modified with the modifier. The reactions at three stages continuously proceed in the mixture solution. As a result, simplified procedures and reduced reaction time can be achieved. | 01-21-2010 |
20100055745 | Producing, Cataloging and Classifying Sequence Tags - The described method provides, methods, and kits to produce, identify, catalog and classify a comprehensive collection of nucleic acid targets produced from a nucleic acid sample. The method, referred to as Cataloging and Classification of Sequence Tags, involves generating a set of target nucleic acid fragments; coupling the target nucleic acid fragments to a nucleic acid bridge comprising, for example, two or more primer binding sites and two recognition sites for cleavage at a site offset from the recognition site to the fragment's end; and cleaving the fragments to generate chimeric nucleic acids of known length. The nucleic acid bridge is thus disposed between the two nucleic acid fragments in the chimeric nucleic acid. The resulting duplex nucleic acids comprise a set of sequence tags (i.e., by amplification using universal primers), comprising an addressable portion, a target nucleic portion and a portion of the nucleic acid bridge. Single-stranded or partial duplex sequence tags may be captured by coupling to a complementary capture probe. Capture probe-sequence tag hybrids, may be detected employing a labeled detector probe. The method allows a complex sample of nucleic acids to be cataloged in a reproducible and sequence-specific manner. The method further provides methods for analysis of the above sample to classify the sequence tags; determine the presence and relative amounts of sequences of interest; derive expressed genes signatures and differential gene expression signatures; and identify putative expressed sequence tags (EST). | 03-04-2010 |
20100068766 | COMPOSITION FOR CLEAVING AND/OR CONNECTING SINGLE STRAND DNA - It is an object of the present invention to provide a composition for catalyzing the cleavage of a single-stranded DNA and the binding of such single-stranded DNA. The present invention provides a composition for cleaving a single-stranded DNA and/or binding the 5′-terminus of such single-stranded DNA to the 3′-terminus thereof, which comprises an Ev1 protein. Moreover, the present invention also provides a composition for cleaving a single-stranded DNA and/or binding the 5′-terminus of such single-stranded DNA to the 3′-terminus thereof, which further comprises a Rad51B protein and/or a DNA topoisomerase type I protein, as well as the Ev1 protein. | 03-18-2010 |
20100068767 | MULTI-COMPONENT INHIBITORS OF NUCLEIC ACID POLYMERASES - The present invention provides multi-component inhibitors of nucleic acid polymerases, methods of making, and methods of using same. One component of the multi-component inhibitor is a molecule that binds to a polymerase (i.e., a polymerase-binding molecule (PBM)), but does not thereby substantially inhibit its polymerase activity. Another component is a molecule or complex of molecules that binds to a PBM (i.e., a PBM-binding molecule). The combination of the PBM and PBM-binding molecule/complex substantially inhibits polymerase activity. The disclosed multi-component inhibitors are useful for DNA sequencing, nucleic acid amplification, cloning and synthesis, and the like. | 03-18-2010 |
20100099150 | POLYMERASE STABILIZATION BY IONIC DETERGENTS - The invention relates to a composition comprising (i) an enzyme with nucleic acid polymerase activity, (ii) an inert protein and, (ii) a zwitterionic detergent. The invention also relates to a composition comprising (i) an enzyme with nucleic acid polymerase activity, (ii) an inert protein and, (ii) a zwitterionic detergent. The invention further relates to a method for enzymatic nucleic acid synthesis comprising the steps of, (a) providing in a reaction mixture, a polymerase activity, a nucleic acid template, a zwitterionic detergent, a buffer, a salt, nucleotides and an inert protein and, (b) incubating the reaction mixture at a temperature which enables nucleic acid synthesis. | 04-22-2010 |
20100112645 | Generation of modified polymerases for improved accuracy in single molecule sequencing - Provided are compositions comprising modified recombinant polymerases that exhibit branching fractions that are less than the branching fractions of the polymerases from which they were derived, or branching fractions that are less than about 25% for a phosphate-labeled nucleotide analog. Also provided are compositions comprising modified recombinant polymerases that exhibit closed polymerase/DNA complexes with increased stability relative to the parental polymerases. Also provided are compositions comprising modified recombinant polymerases that exhibit decreased rate constants relative to the parental polymerases. Provided are methods for generating polymerases with the aforementioned phenotypes. Provided are methods of using such polymerases to make a DNA or to sequence a DNA template. | 05-06-2010 |
20100124767 | Microarray Synthesis and Assembly of Gene-Length Polynucleotides - There is disclosed a process for in vitro synthesis and assembly of long, gene-length polynucleotides based upon assembly of multiple shorter oligonucleotides synthesized in situ on a microarray platform. Specifically, there is disclosed a process for in situ synthesis of oligonucleotide fragments on a solid phase microarray platform and subsequent, “on device” assembly of larger polynucleotides composed of a plurality of shorter oligonucleotide fragments. | 05-20-2010 |
20100124768 | COMPOSITIONS AND METHODS FOR THE ASSEMBLY OF POLYNUCLEOTIDES - The present invention provides compositions and methods for rapid assembly of one or more assembled polynucleotides from a plurality of component polynucleotides. The methods of the invention utilize circular nucleic acid vectors that comprise a DNA segment D flanked by an annealable linker sequence, annealable linker sequence pairs LA and LB, or annealable linker sequence/primer binding segment pairs LA and PB or PA and LB. Restriction endonuclease digestion of a plurality of vectors containing the DNA segments to be assembled generates a plurality of DNA fragments comprising the elements PA-D-LB, LA-D-LB, and LA-D-PB or D-LB, LA-D-LB, and LA-D. The sequences of annealable linker sequences LA and LB provide complementary termini to the DNA fragments, which are utilized in host cell mediated homologous recombination or together with primer binding segments PA and PB in a polymerase cycling assembly reaction for the ordered assembly of the various DNA segments into one or more assembled polynucleotides. | 05-20-2010 |
20100129877 | Modification of RNA, Producing an Increased Transcript Stability and Translation Efficiency - It was the object of the present invention to provide RNA with increased stability and translation efficiency and means for obtaining such RNA. It should be possible to obtain increased grades of expression by using said RNA in gene therapy approaches. | 05-27-2010 |
20100129878 | METHODS FOR NUCLEIC ACID AMPLIFICATION - The present invention provides methods for amplifying nucleic acid after isolating nucleic acid from a sample using functionalized support material. | 05-27-2010 |
20100159531 | Methods And Solutions For Inhibiting Undesired Cleaving Of Labels - The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. The methods of the invention include correcting one or more phenomena that are encountered during nucleotide sequencing, such as using sequencing by synthesis methods. These phenomena include, without limitation, sequence lead, sequence lag, spectral crosstalk, and noise resulting from variations in illumination and/or filter responses. | 06-24-2010 |
20100159532 | METHOD AND DEVICE FOR PERFORMING A NUCLEIC ACID PREPARATION AND/OR AMPLIFICATION - The invention relates to a method and a device for performing a nucleic acid preparation and/or amplification. | 06-24-2010 |
20100184159 | Compositions, Methods, and Kits for Selective Amplification of Nucleic Acids - The current teachings are directed to compositions, methods, and kits for selectively amplifying and for detecting target sequences. In some embodiments, a circularizable probe and/or a probe pair are disclosed for selectively amplifying target sequences. Methods for selectively amplifying target sequences are also disclosed, as are methods for detecting selectively amplified target sequences. Certain embodiments of the disclosed methods comprise a circularizable probe, a probe pair, comprising a first probe and a second probe, or both. In certain embodiments, a multiplicity of different circularizable probes, a multiplicity of different probe sets, or a multiplicity of different circularizable probes and a multiplicity of different probe sets are provided to selectively amplify or to detect a multiplicity of different target sequences, typically in a multiplex reaction. According to certain disclosed methods, surrogates of the target sequences are selectively amplified, including without limitation ligated probes, first amplification products, second amplification products, or combinations thereof. In some embodiments, selectively amplified target sequences or their surrogates are detected, directly or indirectly, indicating the presence of the corresponding target sequence. Kits to facilitate the performance of the disclosed methods are also provided. | 07-22-2010 |
20100209975 | Multi-Component Inhibitors of Nucleic Acid Polymerases - The present invention provides multi-component inhibitors of nucleic acid polymerases, methods of making, and methods of using same. One component of the multi-component inhibitor is a molecule that binds to a polymerase (i.e., a polymerase-binding molecule (PBM)), but does not thereby substantially inhibit its polymerase activity. Another component is a molecule or complex of molecules that binds to a PBM (i.e., a PBM-binding molecule). The combination of the PBM and PBM-binding molecule/complex substantially inhibits polymerase activity. | 08-19-2010 |
20100221788 | METHOD FOR RECOVERING SHORT RNA, AND KIT THEREFOR - The invention relates to a method for recovering at least short RNA, having at least the following steps:
| 09-02-2010 |
20100273219 | MULTI-PRIMER AMPLIFICATION METHOD FOR BARCODING OF TARGET NUCLEIC ACIDS - In certain embodiments, the present invention provides amplification methods in which nucleotide tag(s) and, optionally, a barcode nucleotide sequence are added to target nucleotide sequences. In other embodiments, the present invention provides a microfluidic device that includes a plurality of first input lines and a plurality of second input lines. The microfluidic device also includes a plurality of sets of first chambers and a plurality of sets of second chambers. Each set of first chambers is in fluid communication with one of the plurality of first input lines. Each set of second chambers is in fluid communication with one of the plurality of second input lines. The microfluidic device further includes a plurality of first pump elements in fluid communication with a first portion of the plurality of second input lines and a plurality of second pump elements in fluid communication with a second portion of the plurality of second input lines. | 10-28-2010 |
20100279360 | Sso7-Polymerase Conjugate Proteins - This invention provides Sso7-polymerase conjugates that exhibit improved activity in a polymerase reaction. | 11-04-2010 |
20100291636 | METHOD FOR INTRODUCING COMMON AND/OR INDIVIDUAL SEQUENCE ELEMENTS IN A TARGET NUCLEIC ACID MOLECULE - The invention relates to a method for introducing common and/or individual sequence elements in a target nucleic acid molecule in a sample containing sample nucleic acid molecules, comprising the steps: i) denaturing the sample nucleic acid molecules, if the sample nucleic acid molecules are double-stranded, to obtain single stranded sample nucleic acid molecules; ii) bringing the sample nucleic acid molecules in contact with primary, secondary and tertiary probe nucleic acid molecules, wherein the 3′-end of the tertiary probe comprise a part complementary to the primary probe and the 5′-end of the tertiary probe comprise a part complementary to a 5′-part of the target nucleic acid molecule; the 3′-end of the secondary probe is complementary to a 3′-part of the target nucleic acid molecule and the 5′-end of the secondary probe is not complementary to the target nucleic acid molecule; wherein said primary, secondary and tertiary probes comprise said common and/or individual sequence elements; iii) ligating the 3′-end of the primary probe to the 5′-end of the target nucleic acid molecule; and iv) elongating the 3′-end of the secondary probe by means of a nucleic acid polymerase; or iv′) elongating the 3′-end of the target nucleic acid molecule. | 11-18-2010 |
20100291637 | METHOD FOR MODIFYING NUCLEOTIDE CHAIN - A method for modifying a nucleotide chain, which includes: allowing a catabolic enzyme specific to a nucleotide sequence containing a specific base such as hypoxanthine (Hx) to act on a nucleotide chain (I) to be modified having the above described nucleotide sequence containing a specific base on the 3′-terminal side thereof; and forming a functional group (for example, an aldehyde group) capable of binding to a desired modifier (for example, NH | 11-18-2010 |
20100311127 | Recombinase polymerase amplification - This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes. Further described are novel properties and approaches for use of probes monitored by light in dynamic recombination environments. | 12-09-2010 |
20100323406 | MUTANT DNA POLYMERASES AND METHODS OF USE - The present invention provides mutant DNA polymerases, polynucleotides encoding the polymerases, cassettes and vectors including such polynucleotides, and cells containing the polymerases, polynucleotides, cassettes, and/or vectors of the invention. The present invention also provides methods for synthesizing polynucleotides and kits including a DNA polymerase of the invention. | 12-23-2010 |
20110003343 | CONJUGATES OF BIOMOLECULES TO NANOPARTICLES - Disclosed herein are conjugates comprising a biomolecule linked to a label that have biological activity and are useful in a wide variety of biological applications. For example, provided herein are polymerase-nanoparticle conjugates including a polymerase linked to a nanoparticle, wherein the conjugate has polymerase activity. Such conjugates can exhibit reduced aggregation and improved stochiometries wherein the average biomolecule:nanoparticle ratio approaches or equals 1:1. Also disclosed herein are improved methods for preparing such conjugates, and methods and systems for using such conjugates in biological applications such as nucleotide incorporation, primer extension and single molecule sequencing. | 01-06-2011 |
20110027834 | Carry-Over Protection in Enzyme-Based Dna Amplification Systems Targeting Methylation Analysis - The invention refers to a method for providing a decontaminated template nucleic acid for enzymatic amplification reactions suitable for DNA methylation analysis. This method is characterized by the following steps: a) incubating a nucleic acid with a chemical reagent or an enzyme-containing solution, whereby the unmethylated cytosine bases are converted into uracil bases, b) mixing the template nucleic acid from step a) with the components required for an enzyme-mediated amplification reaction, including at least two oligonucleotides, whereby at least one of said oligonucleotides comprises i) at least one sequence part that hybridizes with a sequence of the template nucleic acid to be amplified, and ii) at least one sequence part that constitutes a recognition site for a DNA cleaving enzyme that cleaves DNA downstream of said recognition site and c) adding to this mixture a DNA cleaving enzyme, which specifically binds to the at least one sequence part that is a recognition site, and d) incubating the mixture, whereby nucleic acids containing said recognition site for a DNA cleaving enzyme are degraded. | 02-03-2011 |
20110027835 | METHODS OF MODIFYING NUCLEIC ACIDS IN HOST CELLS - A method of double crossover homologous recombination in a host cell comprising: a first homologous recombination event between a donor DNA molecule comprising a first element of a selectable allele and an acceptor DNA molecule comprising a second element of the selectable allele in the host cell, thereby to form a product of the first homologous recombination event in the host cell; and a second homologous recombination event within the product of the first homologous recombination event, thereby to form a product of the second homologous recombination event in the host cell which confers a selectable phenotype on the host cell, wherein the selectable phenotype arises following and in dependency on the formation of a selectable allele from the first and second elements of the selectable allele. | 02-03-2011 |
20110045541 | METHOD OF NUCLEIC ACID AMPLIFICATION - A nucleic acid molecule can be annealed to an appropriate immobilised primer. The primer can then be extended and the molecule and the primer can be separated from one another. The extended primer can then be annealed to another immobilised primer and the other primer can be extended. Both extended primers can then be separated from one another and can be used to provide further extended primers. The process can be repeated to provide amplified, immobilised nucleic acid molecules. These can be used for many different purposes, including sequencing, screening, diagnosis, in situ nucleic acid synthesis, monitoring gene expression, nucleic acid fingerprinting, etc. | 02-24-2011 |
20110081688 | Water-Soluble Rhodamine Dyes Conjugates - The present invention provides novel, water-soluble, red-emitting fluorescent rhodamine dyes and red-emitting fluorescent energy-transfer dye pairs, as well as labeled conjugates comprising the same and methods for their use. The dyes, energy-transfer dye pairs and labeled conjugates are useful in a variety of aqueous-based applications, particularly in assays involving staining of cells, protein binding, and/or analysis of nucleic acids, such as hybridization assays and nucleic acid sequencing. | 04-07-2011 |
20110091939 | Methods and Compositions for Removing Specific Target Nucleic Acids - The present invention provides methods, compositions and kits for removing specific target nucleic acid(s) from a nucleic acid sample. In particular, present invention provides a blocker oligonucleotide to prevent the target nucleic acid from binding to captor oligonucleotides, thus removing the target nucleic acid from a captor-binding nucleic acid pool. The present invention can be applied, for example, to remove high abundance mRNAs/cDNAs in high throughput nucleic acid sequencing. | 04-21-2011 |
20110124054 | Methods And Compositions For Inhibiting Undesired Cleaving Of Labels - The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. The methods of the invention include correcting one or more phenomena that are encountered during nucleotide sequencing, such as using sequencing by synthesis methods. These phenomena include, without limitation, sequence lead, sequence lag, spectral crosstalk, and noise resulting from variations in illumination and/or filter responses. | 05-26-2011 |
20110124055 | Methods for High Fidelity Production of Long Nucleic Acid Molecules - In a method for synthesizing a long nucleic acid molecule, a first immobilized nucleic acid has a first 5′ region and a first 3′ region and a second immobilized nucleic acid has a second 5′ region and a second 3′ region, wherein the second 3′ region and the first 5′ region have identical nucleic acid sequences. The first immobilized nucleic acid is hybridized with an oligonucleotide under conditions promoting hybridization of the oligonucleotide to the first 3′ region, extending the hybridized oligonucleotide and producing a first extension product having a 3′ region that is complementary to the first 5′ region. The second immobilized nucleic acid is hybridized with the first extension product under conditions promoting hybridization of the 3′ region of the first extension product to the second 3′ region, extending the 3′ region of the first extension product and producing a second extension product having a 3′ region that is complementary to the second 5′ region, wherein the second extension product has a sequence complementary to the first and second 3′ and 5′ regions. | 05-26-2011 |
20110143401 | Devices to Extend Single Stranded Target Molecules - A polynucleotide device is provided that add one or more bases to a single stranded polynucleotide. Methods of using the device and kits comprising the device are also provide. | 06-16-2011 |
20110151520 | Compositions and methods for cDNA synthesis - Methods for making cDNA molecules, for amplification of RNA by PCR and for preparation of cDNA libraries are provided. Kits for making cDNA molecules also are provided. | 06-23-2011 |
20110159551 | cDNA SYNTHESIS USING A REVERSIBLY INACTIVATED REVERSE TRANSCRIPTASE - The present invention provides compositions and methods for a reverse transcription reaction using a reversibly inactivated reverse transcriptase enzyme. The reversibly inactivated reverse transcriptase enzyme results from a chemical modification which inactivates the reverse transcriptase enzyme. The activity of the reverse transcriptase enzyme is recovered by an incubation of the reaction mixture at elevated temperature prior to, or as part of the reverse transcription reaction. The reverse transcriptase enzyme of the present invention provides for a signficant reduction in non-specific reverse transcription from template nucleic acid molecules because the formulation of the reaction mixture does not support the formation of reverse transcription products prior to activation of the reverse transcriptase. | 06-30-2011 |
20110189736 | NOVEL HOT START NUCLEIC ACID AMPLIFICATION - Methods and compositions for performing nucleic acid duplication and amplification reactions are provided. A single-stranded nucleic acid binding protein is selected and provided in the reaction mixture which is assembled at a low, nonstringent temperature to include all of the necessary reagents for successful nucleic acid duplication or amplification reactions. By incorporating a single-stranded nucleic acid binding protein into the reaction mixture at low temperature, the generation of nonspecific products such as amplification products is improved despite the reaction mixture having been fully assembled at a nonstringent temperature. | 08-04-2011 |
20110201057 | Methods for High Fidelity Production of Long Nucleic Acid Molecules with Error Control - A method for synthesizing a nucleic acid having a desired sequence and length comprises providing a solid support having an immobilized nucleic acid, performing a nucleic acid addition reaction to elongate the immobilized nucleic acid by adding a nucleotide or an oligonucleotide to the nucleic acid, determining whether the nucleotide or the oligonucleotide is added to the nucleic acid by detecting whether there is an increase in electrophoretic force applied to the solid support when an electric field and a magnetic field gradient are applied to the support, wherein the increase in electrophoretic force applied to the support is caused by adding the nucleotide or the oligonucleotide to the nucleic acid, repeating the addition reaction and determination steps if the nucleotide or the oligonucleotide is not added to the nucleic acid, and continuing until the immobilized nucleic acid has a desired sequence and length. | 08-18-2011 |
20110217737 | High Processivity Polymerases - Chimeric proteins comprising a sequence nonspecific single-stranded nucleic-acid-binding domain joined to a catalytic nucleic-acid-modifying domain are provided. Methods comprising contacting a nucleic acid molecule with a chimeric protein, as well as systems comprising a nucleic acid molecule, a chimeric protein, and an aqueous solution are also provided. The joining of sequence nonspecific single-stranded nucleic-acid-binding domain and a catalytic nucleic-acid-modifying domain in chimeric proteins, among other things, may prevent the separation of the two domains due to their weak association and thereby enhances processivity while maintaining fidelity. | 09-08-2011 |
20110217738 | Methods and Devices for Nucleic Acid Synthesis - Disclosed are devices and methods to synthesize polynucleotides and libraries of polynucleotides such as libraries of oligonucleotides. In exemplary embodiments, the device includes a support having a plurality of features. Each feature contains a plurality of oligonucleotides. Within each feature, each of the plurality of oligonucleotides includes an identical predetermined subunit sequence of X nucleosides and a degenerate sequence of Y nucleosides. A predetermined combination of a subset of the features can be used to produce a polynucleotide having a predetermined sequence of Z nucleosides. | 09-08-2011 |
20110223638 | Methods of Generating Nucleic Acid Fragments - Provided herein are methods of using a Cas1 polypeptide to generate nucleic fragments from a DNA substrate. These methods may be performed in vitro or in vivo. Also provided are methods of screening for modulators of Cas1. | 09-15-2011 |
20110244524 | CELL-FREE SYSTEM FOR SYNTHESIZING MEMBRANE PROTEINS CELL FREE METHOD FOR SYNTHESIZING MEMBRANE PROTEINS - The invention provides an in vitro method for producing proteins, membrane proteins, membrane-associated proteins, and soluble proteins that interact with membrane-associated proteins for assembly into an oligomeric complex or that require association with a membrane for proper folding. The method comprises, supplying intracytoplasmic membranes from organisms; modifying protein composition of intracytoplasmic membranes from organism by modifying DNA to delete genes encoding functions of the organism not associated with the formation of the intracytoplasmic membranes; generating appropriate DNA or RNA templates that encode the target protein; and mixing the intracytoplasmic membranes with the template and a transcription/translation-competent cellular extract to cause simultaneous production of the membrane proteins and encapsulation of the membrane proteins within the intracytoplasmic membranes. | 10-06-2011 |
20110256592 | USE OF CYCLODEXTRINS TO IMPROVE THE SPECIFICITY, SENSITIVITY AND YIELD OF NUCLEIC ACID AMPLIFICATION REACTIONS - The invention is directed to methods for in vitro DNA synthesis catalysed by a DNA polymerase using cyclodextrins. The invention also relates to methods, compositions and kits comprising cyclodextrins for the amplification of a nucleic acid. The use of cyclodextrins improves the specificity, sensibility and/or yield of the amplification reaction. The invention is related more particularly to kits, compositions and methods for carrying out PCR reactions comprising a cyclodextrin. | 10-20-2011 |
20110287490 | GENE SYNTHESIS BY CONVERGENT ASSEMBLY OF OLIGONUCLEOTIDE SUBSETS - The invention provides a system and method for synthesizing polynucleotides by solid phase assembly oligonucleotide precursors, in accordance with the method, a polynucleotide is partitioned into an ordered set of subunits, wherein each subunit is assembled in a single reaction from a subset of oligonucleotide precursors that uniquely anneal together to produce the subunit. The subunits are then assembled to form the desired polynucleotide. An important feature of the invention is the selection of subunits that are free of undesired sequence elements, such as palindromes, repetitive sequences, and the like, which would result in more than one subunit product alter ligating a pool of oligonucleotide precursors. | 11-24-2011 |
20110294168 | DNA POLYMERASES AND RELATED METHODS - Disclosed are mutant DNA polymerases having improved extension rates relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. The mutant polymerases overcome the inhibitory effects of a variety of polymerase and reverse transcriptase inhibitors. Therefore, the mutant polymerases are useful in a variety of disclosed methods in the presence of such inhibitors. | 12-01-2011 |
20110312040 | Preferential Amplification of mRNA Over DNA Using Chemically Modified Primers - The present invention relates to a method, oligonucleotides, reaction mixtures and kits for the selective amplification of a messenger RNA target comprising an exon-exon junction, using an oligonucleotide that comprises at least one nucleotide modified at the exocyclic amino group. | 12-22-2011 |
20110312041 | DNA POLYMERASES WITH INCREASED 3'-MISMATCH DISCRIMINATION - Disclosed are mutant DNA polymerases having increased 3′-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases. | 12-22-2011 |
20110318788 | Multisignal labeling reagents and processes and uses therefor - Provided are compounds comprising two DNA supramolecular binding molecules covalently joined by a linker group. Also provided are multisignal labeling reagents comprising (i) an oligomer of nucleotides or nucleotide analogs; (ii) a DNA supramolecular binding molecule noncovalently bound to the oligomer; and (iii) a first reactive group or a first partner of a first binding pair covalently bound to the oligomer. Additionally provided are methods of producing multisignal labeling reagents. | 12-29-2011 |
20120083017 | ASYMMETRIC ADAPTER LIBRARY CONSTRUCTION - The present invention provides methods and compositions for asymmetrically tagging a nucleic acid fragment using asymmetric adapters. | 04-05-2012 |
20120142061 | Recombinant Colwellia Psychrerythraea Alkaline Phosphatase and Uses Thereof - A heat labile alkaline phosphatase enzyme and methods of using the same and kits including the same are disclosed. Specifically, a nucleotide sequence of, peptide sequence of, methods of using, and kits comprising, a heat labile alkaline phosphatase isolated from | 06-07-2012 |
20120171729 | METHODS FOR THE SYNTHESIS OF POLYADENYLIC ACID - The present invention provides compositions, kits, and methods for synthesizing polyadenylic acid using polynucleotide phosphorylase, adenosine diphosphate, a buffering agent, and a divalent metal cation. In certain embodiments, the adenosine diphosphate is present at a concentration between about 5.0 mM and about 100 mM, and the buffering agent has a pH around 8.0. In some embodiments, the prepared polyadenylic acid compositions are free of detectable nucleic acid. | 07-05-2012 |
20120301925 | METHODS AND COMPOSITIONS FOR DNA FRAGMENTATION AND TAGGING BY TRANSPOSASES - The present invention provides new compositions for transposase-mediated fragmenting and tagging DNA targets. The invention relates to the surprising discovery that use of manganese ions (Mn | 11-29-2012 |
20120301926 | METHODS FOR MANIPULATING BIOMOLECULES - In some embodiments, the present teachings provide compositions, systems, methods and kits for generating a population of nucleic acid fragments. In some embodiments, nucleic acids can be fragmented enzymatically. For example, methods for generating a population of nucleic acid fragments can include a nucleic acid nicking reaction. In one embodiment, the methods can include a nick translation reaction. A nicking reaction can introduce nicks at random positions on either strand of a double-stranded nucleic acid. A nick translation reaction can move the position of nicks to a new position so that the new positions of two of the nicks are aligned to create a double-stranded break. In some embodiments, methods for generating a population of nucleic acid fragments can include joining at least one end of a fragmented nucleic acid to one or more oligonucleotide adaptors. | 11-29-2012 |
20130017578 | MUTEINS OF THE BACTERIOPHAGE LAMBDA INTEGRASESAANM Ghadessy; Farid JohnAACI SingaporeAACO GBAAGP Ghadessy; Farid John Singapore GBAANM Tay; Mei Sian YvonneAACI SingaporeAACO SGAAGP Tay; Mei Sian Yvonne Singapore SGAANM Drodge; PeterAACI SingaporeAACO SGAAGP Drodge; Peter Singapore SG - The present invention refers to muteins of the bacteriophage lambda integrases and to nucleic acid molecules comprising a nucleotide sequence encoding such muteins of the lambda integrases. The invention further refers to host cells containing a nucleic acid molecule comprising a nucleotide sequence encoding such muteins of the lambda integrases. The invention also refers to methods of recombining nucleic acids of interest into target nucleic acids in the presence of the muteins of the lambda integrases, as well as sequence specific recombination kits. | 01-17-2013 |
20130034880 | CHAMBER FREE NANOREACTOR SYSTEM - Aspects of the invention include methods for improving the accuracy and read length of sequencing reactions by utilizing unlabeled unincorporable nucleotides, or by rephasing colony based sequencing reactions. Other aspects include systems and devices for improved measurement of biological reactions associated with bead which may be removed, utilizing current measurement methods through the counter ions associated with said beads due to the presence of reactants bound or associated with said bead, wherein electrodes for generating and measuring said current may be within the Debye length of said bead. Other aspects of the invention include methods for determining concentrations of input samples, means for reuse of an array, methods and apparatus for separating beads with different charge levels from each other. | 02-07-2013 |
20130034881 | MOLECULES AND METHODS FOR DEMETHYLATION OF METHYLATED NUCLEIC ACID SEQUENCES - Demethylation of a methylated DNA sequence in a eukaryotic cell is described, utilising a molecule that includes at least a first domain that exhibits a cytidine deaminase activity and at least a second domain that confers either a specific or non-specific DNA binding activity. The molecules of the invention are useful in somatic cell nuclear transfer and also in cancer therapy | 02-07-2013 |
20130059343 | NUCLEOTIDE DERIVATIVES - The present invention provides compounds and methods for attaching fluorescent labels to biological molecules such as nucleotides. The compounds and methods are useful for biological assays including DNA modification reactions. | 03-07-2013 |
20130130323 | PREVENTION AND ALLEVIATION OF STERIC HINDRANCE DURING SINGLE MOLECULE SYNTHESIS - The present invention provides compositions and methods for reducing steric hindrance in the product of nucleic acid polymerase reaction. Methods and compositions of the invention encompass application of exonucleases, endonucleases, and uracil-DNA glycosylases to a nucleic acid polymerase reaction such that newly formed nucleic acid strands are modified (e.g., cleaved) while the polymerase reaction continues to proceed. | 05-23-2013 |
20130189743 | LABELLED NUCLEOTIDES - Nucleosides and nucleotides are disclosed that are linked to detectable labels via a cleavable linker group. | 07-25-2013 |
20130273610 | Method of Manufacturing Nanoparticle Chain - A method of manufacturing a nanoparticle chain is disclosed. The method comprises the steps of: providing a single-stranded circular primer with a determined length, and amplifying the single-stranded circular primer into single-stranded DNA nanotemplate by an isothermal nucleotide amplification reaction such that an end of the single-stranded DNA nanotemplate is fixed to a surface of a substrate; and adding a single-stranded DNA probe conjugated with nanoparticle at one end of which, and attaching the single-stranded DNA probe to the corresponding sequence on the single-stranded DNA nanotemplate to form a nanoparticles chain. The method of manufacturing a nanoparticle chain further comprises providing a fluid, and the flowing direction of the fluid controls the aligning direction of the nanoparticle chain. Wherein, the inter-nanoparticle distance of the nanoparticle chain can be adjusted by adjusting a reaction temperature or adding the single-stranded DNA probe without conjugating with nanoparticles. | 10-17-2013 |
20130309725 | Methods and Devices for In Situ Nucleic Acid Synthesis - Disclosed are compositions, methods and devices for the in situ synthesis of nucleic acids. In an exemplary embodiment, a support-bound oligonucleotide is elongated by addition of one or more nucleotides by hybridization of a partially double-stranded oligonucleotide, ligation and removal of unwanted nucleotides. | 11-21-2013 |
20130323796 | METHODS AND COMPOSITIONS FOR SYNTHESIS OF NUCLEIC ACID MOLECULES USING MULTIPLERECOGNITION SITES - The present invention provides compositions and methods for recombinational cloning. The compositions include vectors having multiple recombination .sites and/or multiple topoisomerase recognition sites. The methods permit the simultaneous cloning of two or more different nucleic acid molecules. In some embodiments the molecules are fused together while in other embodiments the molecules are inserted into distinct sites in a vector. The invention also generally provides for linking or joining through recombination a .number of molecules and/or compounds (e.g., chemical compounds, drugs, proteins or peptides, lipids, nucleic acids, carbohydrates, etc.) which may be the same or different. The invention also provides host cells comprising nucleic acid molecules of the invention or prepared according to the methods of the invention, and also provides kits comprising the compositions, host cells and nucleic acid molecules of the invention, which may be used to synthesize nucleic acid molecules according to the methods of the invention. | 12-05-2013 |
20140045221 | Oscillating Amplification Reaction for Nucleic Acids - One embodiment of the present invention provides for a method for amplifying a template of nucleic acid target sequence contained in a sample. The method includes contacting the sample with an amplification reaction mixture containing a primer complementary to the template of nucleic acid target sequence. A temperature of the reaction is oscillated between an upper temperature and a lower temperature wherein the change in temperature is no greater than about 20° C. during a plurality of temperature cycles. The template of nucleic acid target sequence is amplified. | 02-13-2014 |
20140113332 | TEMPLATE SWITCH-BASED METHODS FOR PRODUCING A PRODUCT NUCLEIC ACID - Provided are methods of producing a product nucleic acid. The methods include combining a template deoxyribonucleic acid (DNA), a polymerase, a template switch oligonucleotide, and dNTPs into a reaction mixture. The components are combined into the reaction mixture under conditions sufficient to produce a product nucleic acid that includes the template DNA and the template switch oligonucleotide each hybridized to adjacent regions of a single product nucleic acid that includes a region polymerized from the dNTPs by the polymerase. Aspects of the invention further include compositions and kits. | 04-24-2014 |
20140363851 | METHODS AND APPARATUS FOR SYNTHESIZING NUCLEIC ACIDS - The invention provides improved methods for synthesizing polynucleotides, such as DNA and RNA, using enzymes and specially designed nucleotide analogs. Using the methods of the invention, specific sequences of polynucleotides can be synthesized de novo, base by base, in an aqueous environment, without the use of a nucleic acid template. Because the nucleotide analogs have an unmodified 3′ OH, i.e., as found in “natural” deoxyribose and ribose molecules, the analogs result in natural polynucleotides suitable for incorporation into biological systems. | 12-11-2014 |
20140363852 | METHODS AND APPARATUS FOR SYNTHESIZING NUCLEIC ACIDS - The invention provides improved methods for synthesizing polynucleotides, such as DNA and RNA, using enzymes and specially designed nucleotide analogs. Using the methods of the invention, specific sequences of polynucleotides can be synthesized de novo, base by base, in an aqueous environment, without the use of a nucleic acid template. Because the nucleotide analogs have an unmodified 3′ OH, i.e., as found in “natural” deoxyribose and ribose molecules, the analogs result in natural polynucleotides suitable for incorporation into biological systems. | 12-11-2014 |
20150050696 | Cloning Method - The present invention relates to a method based on the use of restriction enzyme digestion and ligation via cleavage sites, thereby to prepare two or more standardized expression cassettes. | 02-19-2015 |
20150050697 | NUCLEOTIDE ANALOGS - Provided herein is technology relating to the manipulation and detection of nucleic acids, including but not limited to compositions, methods, and kits related to nucleotides comprising a chemically reactive linking moiety. | 02-19-2015 |
20160046974 | REUSABLE INITIATORS FOR SYNTHESIZING NUCLEIC ACIDS - The invention provides improved methods for synthesizing polynucleotides, such as DNA and RNA, using renewable initiators coupled to a solid support. Using the methods of the invention, specific sequences of polynucleotides can be synthesized de novo, base by base, in an aqueous environment, without the use of a nucleic acid template. | 02-18-2016 |
20160053281 | Enhanced Expression Of RNA Vectors - Compositions and method for treating a folate-resistant disease in a subject are disclosed. The methods involve administering to the subject an effective amount of a composition containing a formate. For example, the method can be used to reducing the risk of neural tube defects during pregnancy. The method can also be used to treat other conditions normally treatable by folate supplementation. | 02-25-2016 |
20160097069 | MODIFIED POLYMERASES FOR REPLICATION OF THREOSE NUCLEIC ACIDS - Methods and compositions for replication of threose nucleic acids (TNAs) are described. The described methods include a method for transcribing a DNA template into a TNA, and a method for reverse transcribing a threose nucleic acid into a cDNA. | 04-07-2016 |
20160102329 | ACOUSTIC ENERGY MEDIATION OF GENETIC FRAGMENTATION - Method and apparatus for controlling acoustic treatment of a sample to mediate a tagmentation process used on double stranded DNA. | 04-14-2016 |
20160108382 | MODIFIED TEMPLATE-INDEPENDENT ENZYMES FOR POLYDEOXYNUCLEOTIDE SYNTHESIS - The invention includes methods for identifying polymerases, such as modified terminal nucleotidyl transferases (TdT), that are capable of binding nucleotides comprising removable 3′-O-blocking moieties to a nucleic acid initiator, without the use of a template. The invention further includes the identified polymerases, and methods of using the polymerases for de novo synthesis of predetermined oligonucleotide sequences. | 04-21-2016 |
20160137963 | A Microfluidic Device with a Diffusion Barrier - The invention provides a microfluidic device for macromolecule amplification by sequential addition of liquid reagents. The device of the invention comprises a chip forming a plurality of reaction chambers each extending between an inlet and an outlet, each inlet being in fluid communication with a common junction via micro channels. To enable amplification of DNA, e.g. by MDA, the device comprises a diffusion barrier at each inlet configured to increase the pressure threshold for a reagent to cross the resistor. The invention further provides a method of mixing liquid reagents by use of the device where single DNA molecules are allowed to cross the diffusion barrier individually. | 05-19-2016 |
20160160193 | Fusion Polymerase and Method for Using the Same - This disclosure provides, among other things, a composition comprising: comprising a fusion protein comprising: (a) a DNA polymerase; and (b) a heterologous sequence-specific DNA binding domain. A method for copying a DNA template, as well as a kit for performing the same, are also described. | 06-09-2016 |
20160160256 | METHOD FOR SYNTHESIZING SELECTIVELY LABELED RNA - The invention relates to a method for synthesizing a selectively labeled RNA, and an apparatus for performing the method. Specific segments or discrete residues within the RNA may be selectively labeled, and different segments may include different labels. | 06-09-2016 |
20160186214 | MODIFIED CASCADE RIBONUCLEOPROTEINS AND USES THEREOF - A clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for adaptive antiviral defence(Cascade); the Cascade protein complex comprising at least CRISPR-associated protein subunits Cas7, Cas5 and Cas6 which includes at least one subunit with an additional amino acid sequence possessing nucleic acid or chromatin modifying, visualising, transcription activating or transcription repressing activity. The Cascade complex with additional activity is combined with an RNA molecule to produce a ribonucleoprotein complex. The RNA molecule is selected to have substantial complementarity to a target sequence. Targeted ribonucleoproteins can be used as genetic engineering tools for precise cutting of nucleic acids in homologous recombination, non-homologous end joining, gene modification, gene integration, mutation repair or for their visualisation, transcriptional activation or repression. A pair of ribonucleotides fused to FokI dimers may be used to generate double-strand breakages in the DNA to facilitate these applications in a sequence-specific manner. | 06-30-2016 |
20190144905 | Novel Use | 05-16-2019 |