Methods of lowering the error rate of massively parallel DNA sequencing using duplex consensus sequencing

    公开(公告)号:US11566287B2

    公开(公告)日:2023-01-31

    申请号:US17392180

    申请日:2021-08-02

    Abstract: Next Generation DNA sequencing promises to revolutionize clinical medicine and basic research. However, while this technology has the capacity to generate hundreds of billions of nucleotides of DNA sequence in a single experiment, the error rate of approximately 1% results in hundreds of millions of sequencing mistakes. These scattered errors can be tolerated in some applications but become extremely problematic when “deep sequencing” genetically heterogeneous mixtures, such as tumors or mixed microbial populations. To overcome limitations in sequencing accuracy, a method Duplex Consensus Sequencing (DCS) is provided. This approach greatly reduces errors by independently tagging and sequencing each of the two strands of a DNA duplex. As the two strands are complementary, true mutations are found at the same position in both strands. In contrast, PCR or sequencing errors will result in errors in only one strand. This method uniquely capitalizes on the redundant information stored in double-stranded DNA, thus overcoming technical limitations of prior methods utilizing data from only one of the two strands.

    Methods of lowering the error rate of massively parallel DNA sequencing using duplex consensus sequencing

    公开(公告)号:US11549144B2

    公开(公告)日:2023-01-10

    申请号:US17392185

    申请日:2021-08-02

    Abstract: Next Generation DNA sequencing promises to revolutionize clinical medicine and basic research. However, while this technology has the capacity to generate hundreds of billions of nucleotides of DNA sequence in a single experiment, the error rate of approximately 1% results in hundreds of millions of sequencing mistakes. These scattered errors can be tolerated in some applications but become extremely problematic when “deep sequencing” genetically heterogeneous mixtures, such as tumors or mixed microbial populations. To overcome limitations in sequencing accuracy, a method Duplex Consensus Sequencing (DCS) is provided. This approach greatly reduces errors by independently tagging and sequencing each of the two strands of a DNA duplex. As the two strands are complementary, true mutations are found at the same position in both strands. In contrast, PCR or sequencing errors will result in errors in only one strand. This method uniquely capitalizes on the redundant information stored in double-stranded DNA, thus overcoming technical limitations of prior methods utilizing data from only one of the two strands.

    ACCELERATING NUCLEIC ACID SEQUENCING DATA WORKFLOWS USING A RAPID COMPUTATION OF HAMMING DISTANCE

    公开(公告)号:US20220415444A1

    公开(公告)日:2022-12-29

    申请号:US17850739

    申请日:2022-06-27

    Abstract: In some embodiments, a computer-implemented method of comparing strings representing nucleotide sequences is provided. A plurality of values representing Hamming distances between first strings and second strings are determined by converting value characters in the first string and the second string to a one hot encoding and converting any unknown characters in the first string and the second string to a zero value to create a first bit representation and a second bit representation; comparing the first bit representation and the second bit representation using a bitwise XOR operation to obtain a bitwise XOR result; counting a number of bits in the bitwise XOR result and multiplying the bitwise XOR result by two to obtain a bitcount result; and adjusting the bitcount result based on unknown characters in at least one of the first string and the second string to obtain the value representing the Hamming distance.

    VORTEX CONTROL ON ENGINE NACELLE STRAKE AND OTHER VORTEX GENERATORS

    公开(公告)号:US20220411046A1

    公开(公告)日:2022-12-29

    申请号:US17756225

    申请日:2020-11-19

    Abstract: Apparatuses and methods for controlling fluid flow over surfaces, e.g. wings, are disclosed. A system can include a surface influenced by a fluid flow moving across the surface, a vortex generator disposed proximate to the surface, the vortex generator for altering a vortex pattern within the fluid flow moving across the surface, and a controller for activating the vortex generator to alter the vortex pattern within the fluid flow moving across the surface. The vortex generator can comprise one or more fluid injectors each for injecting a fluid jet into the fluid flow driven by air pressure. The fluid injectors can be disposed along a leading edge of a strake where the strake is disposed on an engine nacelle and the surface comprises an aircraft wing surface. Activation can occur under open or closed loop control with sensors.

    DEVICE AND METHOD FOR DETECTION OF PATHOGENS

    公开(公告)号:US20220395838A1

    公开(公告)日:2022-12-15

    申请号:US17838807

    申请日:2022-06-13

    Abstract: Fluidic devices, systems, and methods for analyzing an analyte are described. In an embodiment, the fluidic devices include a housing defining a lysis chamber shaped to receive a biological sample; a lysis buffer storage chamber disposed within the housing and carrying a lysis buffer configured to lyse cells of the biological sample; a cap configured to cooperatively couple to the housing; a compressor configured to compress the lysis buffer storage chamber and expel the lysis buffer from the lysis buffer storage chamber and into the lysis chamber when the cap is uncoupled from the housing; and a porous membrane in selective fluidic communication with the lysis chamber.

    MODIFIED CARBAZOLES AS THERAPEUTIC AGENTS

    公开(公告)号:US20220380367A1

    公开(公告)日:2022-12-01

    申请号:US17813318

    申请日:2022-07-18

    Abstract: This disclosure relates to compounds that target microtubules, pharmaceutical compositions comprising them, and methods of using the compounds and compositions for treating diseases. More particularly, this disclosure relates to modified carbazole compounds and pharmaceutical compositions thereof, methods of targeting microtubules with these compounds, and methods of treating diseases affected by microtubule disruption.

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