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Oxford Nanopore Technologies

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Oxford, United Kingdom

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The invention relates to a method for method of characterising, such as sequencing, a target double stranded polynucleotide. The polynucleotide is coupled to a membrane using at least two adaptors with different strengths of coupling to the membrane.


Patent
Oxford Nanopore Technologies | Date: 2017-03-08

The invention relates to mutant forms of Msp. The invention also relates to polynucleotide characterisation using Msp.


Patent
Oxford Nanopore Technologies | Date: 2017-01-25

A target sequence of polymer units is estimated from plural series of measurements taken from sequences of polymer units that comprise the target sequence or a complementary sequence. Each measurement is dependent on a k-mer (k polymer units). Models treat the measurements as observations of k-mer states, comprising transition weightings in respect of transitions between successive k-mer states and emission weightings for different measurements being observed. An estimated alignment mapping between the plural series of measurements is derived based on an application of the models to each series. An estimate of the target sequence of polymer units is generated by applying the models, treating the types of k-mer state of each model and the measurements as dimensions of a plural dimensional k-mer state and plural dimensional observations. Constraint of paths through the plural dimensional k-mer states using the derived alignment mapping greatly reduces the required processing.


Patent
Oxford Nanopore Technologies | Date: 2017-02-08

The invention relates to a new method of determining the presence, absence or one or more characteristics of multiple analytes. The invention concerns coupling a first analyte to a membrane containing a detector and investigating the first analyte using the detector. The invention also concerns coupling a second analyte to the membrane and investigating the second analyte. The first analyte is uncoupled from the membrane prior to investigating the second analyte. The invention also relates to polynucleotide sequencing.


Patent
Oxford Nanopore Technologies | Date: 2017-03-22

An estimate of a target sequence of polymer units is generated from a series of measurements taken by a measurement system comprising nanopores during translocation of the polymer through a nanopore. A global model of the measurement system is stored, comprising transition weightings for possible transitions between k-mers on which successive measurements are dependent and emission weightings for possible values of measurements being observed when the measurement is dependent on possible identities of k-mer. The global model is adjusted, making reference to measurements taken using the measurement system such that the fit of the measurements to the adjusted model is improved. The estimate of a target sequence of polymer units is generated using the adjusted model. The adjustment of the model improves the quality of the estimation.


Patent
Oxford Nanopore Technologies | Date: 2017-07-19

The invention relates to mutant forms of lysenin. The invention also relates to analyte characterisation using lysenin.


Patent
Oxford Nanopore Technologies | Date: 2017-04-13

A sequence of polymer units in a polymer (3), eg. DNA, is estimated from at least one series of measurements related to the polymer, eg. ion current as a function of translocation through a nanopore (1), FIG. 6 wherein the value of each measurement is dependent on a k-mer being a group of k polymer units (4). A probabilistic model, especially a hidden Markov model (HMM), is provided, comprising, for a set of possible k-mers: transition weightings representing the chances of transitions from origin k-mers to destination k-mers; and emission weightings in respect of each k-mer that represent the chances of observing given values of measurements for that k-mer. The series of measurements is analysed using an analytical technique, eg. Viterbi decoding, that refers to the model and estimates at least one estimated sequence of polymer units in the polymer based on the likelihood predicted by the model of the series of measurements being produced by sequences of polymer units. In a further embodiment, different voltages are applied across the nanopore during translocation in order to improve the resolution of polymer units.


The invention relates to a new method of sequencing a double stranded target polynucleotide. The two strands of the double stranded target polynucleotide are linked by a bridging moiety. The two strands of the target polynucleotide are separated using a polynucleotide binding protein and the target polynucleotide is sequenced using a transmembrane pore.


The invention relates to a new method of sequencing a double stranded target polynucleotide. The two strands of the double stranded target polynucleotide are linked by a bridging moiety. The two strands of the target polynucleotide are separated using a polynucleotide binding protein and the target polynucleotide is sequenced using a transmembrane pore.


The invention relates to a new method of characterising a target polynucleotide. The method uses a pore and a Hel308 helicase or a molecular motor which is capable of binding to the target polynucleotide at an internal nucleotide. The helicase or molecular motor controls the movement of the target polynucleotide through the pore.

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