151results about How to "Fast sequencing" patented technology

Compositions and methods for rapid and highly efficient characterization of genetic diversity in organisms are provided. The methods involve rapid sequencing and characterization of extrachromosomal DNA, particularly plasmids, to identify and isolate useful nucleotide sequences. The method targets plasmid DNA and avoids repeated cloning and sequencing of the host chromosome, thus allowing one to focus on the genetic, elements carrying maximum genetic diversity. The method involves generating a library of extrachromosomal DNA clones, sequencing a portion of the clones, comparing the sequences against a database of existing DNA sequences, using an algorithm to select said novel nucleotide sequence based on the presence or absence of said portion in a database, and identification of at least one novel nucleotide sequence. The DNA sequence can also be translated in all six frames and the resulting amino acid sequences can be compared against a database of protein sequences. The integrated approach provides a rapid and efficient method to identify and isolate useful genes. Organisms of particular interest include, but are not limited to bacteria, fungi, algae, and the like. Compositions comprise a mini-cosmid vector comprising a stuffer fragment and at least one cos site.

An ion separation instrument includes an ion source coupled to at least a first ion mobility spectrometer having an ion outlet coupled to a mass spectrometer. Instrumentation is further included to provide for passage to the mass spectrometer only ions defining a preselected ion mobility range. In one embodiment, the ion mobility spectrometer is provided with electronically controllable inlet and outlet gates, wherein a control circuit is operable to control actuation of the inlet and outlet gates as a function of ion drift time to thereby allow passage therethrough only of ions defining a mobility within the preselected ion mobility range. In another embodiment, an ion trap is disposed between the ion mobility spectrometer and mass spectrometer and is controlled in such a manner so as to collect a plurality of ions defining a mobility within the preselected ion mobility range prior to injection of such ions into the mass spectrometer. In yet another embodiment, an ion inlet of the ion trap may be electronically controlled relative to operation of the ion mobility spectrometer as a function of ion drift time to thereby allow passage therein only of ions defining a mobility within the preselected ion mobility range. The mass spectrometer is preferably a Fourier Transform Ion Cyclotron Resonance mass spectrometer, and the resulting ion separation instrument may further include therein various combinations of ion fragmentation, ion mass filtering, ion trap, charge neutralization and / or mass reaction instrumentation.

A method of making a wall block and a mold box therefore. The wall block design maximizes the use of the mold box. The method produces wall blocks having a large surface area front face compared to the front face size of prior art blocks. The blocks have about one third more front surface area. This results in faster construction of walls and a faster construction sequence. The method of making the blocks makes efficient use of mold space and material, resulting in higher production yields and / or higher total daily production square footage.

A system and method for unorchestrated determination of data sequences using “sticky byte” factoring to determine breakpoints in digital sequences such that common sequences can be identified. Sticky byte factoring provides an efficient method of dividing a data set into pieces that generally yields near optimal commonality. This is effectuated by employing a rolling hashsum and, in an exemplary embodiment disclosed herein, a threshold function to deterministically set divisions in a sequence of data. Both the rolling hash and the threshold function are designed to require minimal computation. This low overhead makes it possible to rapidly partition a data sequence for presentation to a factoring engine or other applications that prefer subsequent synchronization across the data set.

A sequencing methodology is disclosed that allows a single DNA or RNA molecule or portion thereof to be sequenced directly and in substantially real time. The methodology involves engineering a polymerase and / or dNTPs with atomic and / or molecular tags that have a detectable property that is monitored by a detection system.

The invention discloses a nano-pore electric sensor. The nano-pore electric sensor comprises a baseplate, first insulating layers, symmetrical electrodes, electric contact layers, second insulating layers and nano-pores. The first insulating layers and the symmetrical electrodes are sequentially arranged on the baseplate; the electric contact layers are arranged on the first insulating layers and the edges of the symmetrical electrodes; the second insulating layers are arranged on the symmetrical electrodes; and the nano-pores are arranged in the centers of the baseplate, the first insulating layers, the symmetrical electrodes and the second insulating layers. The thickness of each nano-electrode can be controlled within the range from 0.35 to 0.7nm to meet the requirement on resolution for detecting the electric character of a single base group in single-chain DNA, thereby being suitable for the low-cost and fast electronic gene sequence test. The nano-pore electric sensor solves the technical problem for integrating the nano-electrodes in the nano-pores, and the method for preparing the nano-electrodes is simple.

A nanopore sensor comprises second electrophoresis electrode or micropump, second fluidic reservoir, second micro-nanometer separation channel, substrate, sub-nanometer-thick functional layer, first micro-nanometer separation channel, first electrophoresis electrode or micropump, and electrophoresis electrode or micropump that are sequentially assembled. An opening and a nanopore are provided through the substrate and the sub-nanometer-thick functional layer, respectively. A first electrode for measuring ionic current is provided in the first micro-nanometer separation channel, and a second electrode for measuring ionic current is provide in the second micro-nanometer separation channel. The present invention provides a simple method to prepare a sub-nanometer functional layer having a nanopore extending through the sub-nanometer-thick functional layer. The pore size is comparable to the spacing between two adjacent bases in a DNA strand required for single-base resolution sequencing. The shape of nanopore overcomes nucleotide conformation effect on the identification as bases translocate through the nanopore.

An apparatus and method for rendering multiplanar reformatting (MPR) images of volume data to be displayed to a user. The apparatus may comprise a conventional personal computer system having a central processing unit (CPU) coupled to a system memory for storing the volume data and a graphics processing unit (GPU) having a GPU memory connected to the computer bus. The computer system CPU is configured to predict an MPR image which may be required for display at a future time and to identify blocks of voxels comprising the volume data which will be needed to render the predicted MPR image. The CPU is further operable to retrieve these blocks from the system memory and to queue them for transfer to the GPU memory. The transfer of blocks from the queue to the GPU memory is controlled by a scheduler such that at least some of the queued blocks are transferred to the GPU memory prior to the predicted MPR image becoming required for display. The GPU retrieves blocks from the GPU memory and renders corresponding image parts for assembly into the predicted MPR image should it become required for display.

A fuel injection valve for an internal combustion engines is proposed, in which the control of the fuel injection valve member is controlled through the control of the pressure of a control chamber (25). This chamber is either relieved by means of a control valve (31) or is subjected to a high pressure, which brings the fuel injection valve member into the closed position. At the same time as the relief of the control chamber, a valve member (33) of a safety valve (32) that controls the fuel supply to the fuel injection valve is opened so that upon opening of the fuel injection valve, high-pressure fuel simultaneously also can travel by way of a pressure line (12) from a high-pressure fuel reservoir (14) to the injection openings (8) of the fuel injection valve (1). After the end of the injection, the valve member (33) is closed again, together with the closing of the fuel injection valve member (5). Consequently, in the event of a malfunction, unwanted fuel is prevented from reaching injection for a long period of time and consequently possibly destroying the associated engine due to overdosing.

Described herein are inexpensive high throughput methods to convert a target single stranded DNA (ssDNA) such that each nucleotide (or base) adenine (A), thymine (T), guanine (G) and cytosine (C) is converted to a pre-determined oligonucleotide code, with the sequential order preserved in the converted ssDNA, or RNA. The method does not require the use of DNA polymerases during the cycles and involves the use of an oligonucleotide probe library with repeated cycles of ligation and cleavage. At each cycle, one or more nucleotides on one end (e.g., either the 5′ end or the 3′ end) of a target, e.g., ssDNA, are cleaved and then ligated with the corresponding oligonucleotide code at the other end of the target ssDNA.

A method of making a wall block and a mold box therefore. The wall block design maximizes the use of the mold box. The method produces wall blocks having a large surface area front face compared to the front face size of prior art blocks. The blocks have about one third more front surface area. This results in faster construction of walls and a faster construction sequence. The method of making the blocks makes efficient use of mold space and material, resulting in higher production yields and / or higher total daily production square footage.

In a method for controlling sequential object-oriented system-simulations, presentation of an object of a group of objects to an instance-to-class is carried out in the following manner. The instance is produced by adjusting at least one parameter in the part of a simulation program. The instances produce and treat events for simulating a communication between objects, the simulation process being controlled by the activation of instances. The simulation process control is carried out according to a cycle consisting of determined cycle steps, the events being recorded in an event-recording area which is assigned to a target instance.

A sequencing methodology is disclosed that allows a single DNA or RNA molecule or portion thereof to be sequenced directly and in substantially real time. The methodology involves engineering a polymerase and / or dNTPs with atomic and / or molecular tags that have a detectable property that is monitored by a detection system.

The disclosure provides a novel system of storing information using a charged polymer, e.g., DNA, the monomers of which correspond to a machine-readable code, e.g., a binary code, and which can be synthesized and / or read using a novel nanochip device comprising nanopores; novel methods and devices for synthesizing oligonucleotides in a nanochip format; novel methods for synthesizing DNA in the 3′ to 5′ direction using topoisomerase; novel methods and devices for reading the sequence of a charged polymer, e.g., DNA, by measuring capacitive or impedance variance, e.g., via a change in a resonant frequency response, as the polymer passes through the nanopore; and further provides compounds, compositions, methods and devices useful therein.

The present invention relates to xyloglucanases belonging to family 44 of glycosyl hydrolases and having a relative xyloglucanase activity of at least 30% between pH 5 and pH 8 are derived from the genus Paenibacillus, especially from a strain of Paenibacillus polymyxa or Paenibacillus sp. The xyloglucanases exhibit high performance in conventional detergent compositions.

A system for noninvasively monitoring cancerous cells within bodily fluid accumulated due to ascites, pleural effusion or pericardial effusion is provided including an implantable pump having control circuitry; a charging and communication system configured to periodically charge and communicate with the implantable pump to retrieve performance data; and monitoring and control software, suitable for use with conventional personal computers, for configuring and controlling operation of the implantable pump and charging and communication system. The implantable pump is configured to move fluid containing cancerous cells from a body cavity to the bladder such that the fluid may be excreted during urination, collected and analyzed with an analysis station to assess progress of the cancer or efficacy of a cancer treatment program.

A method for capturing a sequence of images, the method includes the steps of capturing a first image on an image sensor having a plurality of photosensitive areas having a first portion of photosensitive areas and a second portion of photosensitive areas; transferring the first portion of the first captured image to a first plurality of storage mechanisms; capturing a second image on the image sensor; transferring the second portion of the second captured image to a second plurality of the storage mechanisms; capturing a third image on the image sensor; reading out the first portion of the first captured image from the first plurality of storage mechanisms and reading out the second portion of the second captured image from the second plurality of storage mechanisms; and reading out the third image.

A sequencing methodology is disclosed that allows a single DNA or RNA molecule or portion thereof to be sequenced directly and in substantially real time. The methodology involves engineering a polymerase and / or dNTPs with atomic and / or molecular tags that have a detectable property that is monitored by a detection system.

Systems and methods for fast and sensitive standoff surface-hazard detection with high data throughput, high spatial resolution and high degree of pointing flexibility. The system comprises a first hand-held unit that directs an excitation beam onto a surface that is located a distance away from the first unit and an optical subsystem that captures scattered radiation from the surface as a result of the beam of light. The first unit is connected via a link that includes a bundle of optical fibers, to a second unit, called the processing unit. The processing unit comprises a fiber-coupled spectrograph to convert scattered radiation to spectral data, and a processor that analyzes the collected spectral data to detect and / or identify a hazardous substance. The second unit may be contained within a body-wearable housing or apparatus so that the first unit and second unit together form a man-portable detection assembly. In one embodiment, the system can continuously and without interruptions scan a surface from a 1-meter standoff while generating Raman spectral-frames at rates of 25 Hz.

The invention provides improved methods for sequencing nucleic acids, e.g., for medical applications and biomedical research. The disclosed methods can be applied to rapid personalized medicine, genetic diagnosis, pathogen identification, and sequencing species genomes.

The present invention provides a method and apparatus for controlling the moving speed of a substance, both of which can adjust the moving speed of a substance to a desired speed. The control method and control apparatus cause a substance to pass through an internal space, in which an electro-osmotic flow is generated, of a surround electrode formed so as to surround part of the moving path of the substance, whereby the control method and control apparatus change the moving speed of the substance.

The disclosure provides a novel system of storing information using a charged polymer, e.g., DNA, the monomers of which correspond to a machine-readable code, e.g., a binary code, and which can be synthesized and / or read using a novel nanochip device comprising nanopores; novel methods and devices for synthesizing oligonucleotides in a nanochip format; novel methods for synthesizing DNA in the 3′ to 5′ direction using topoisomerase; novel methods and devices for reading the sequence of a charged polymer, e.g., DNA, by measuring capacitive or impedance variance, e.g., via a change in a resonant frequency response, as the polymer passes through the nanopore; and further provides compounds, compositions, methods and devices useful therein.

The invention discloses a colon cancer microsatellite instability detection kit based on a next generation sequencing platform. The colon cancer microsatellite instability detection kit comprises 4.5-6.5mu l of a primer panel solution, wherein the concentration of solute in the primer panel solution is 45-55 mmole / L; the primer panel solution comprises primers of 10 microsatellite loci; the kit further comprises 8-10mu l of Master Mix and 1.3-1.7ml of non-enzyme water; Master Mix comprises 3-7mu l of 10*LA Taq Buffer and 3-5mu l of 2-4mmol / L dNTPs, and 0.5-1mu l of LA Taq enzyme. By adopting the kit disclosed by the invention, all MSI loci of multiple samples can be simultaneously detected by sequencing once, influence caused by artificial operation can be reduced, and the detection result reliability can be improved.

A structure stamp with a flexible stamp which has a microstructured or nanostructured stamp surface for embossing of an embossing structure which corresponds to the stamp surface on an embossing surface, and a frame for clamping the stamp. Moreover, the invention relates to a device for embossing an embossing pattern on an embossing surface with the following features: a stamp receiver for accommodating and moving a structure stamp, an embossing material receiver for accommodating and placing an embossing material opposite the structure stamp, an embossing element drive for moving an embossing element along the structure stamp.

A system for noninvasively monitoring cancerous cells within bodily fluid accumulated due to ascites, pleural effusion or pericardial effusion is provided including an implantable pump having control circuitry; a charging and communication system configured to periodically charge and communicate with the implantable pump to retrieve performance data; and monitoring and control software, suitable for use with conventional personal computers, for configuring and controlling operation of the implantable pump and charging and communication system. The implantable pump is configured to move fluid containing cancerous cells from a body cavity to the bladder such that the fluid may be excreted during urination, collected and analyzed with an analysis station to assess progress of the cancer or efficacy of a cancer treatment program.