96 results about "DNA sequencing" patented technology

The invention discloses a biomarker combination for predicting calendar age, a model and application of the biomarker combination. 57 kinds of DNA methylated CpG sites screened from many elderly subjects are creatively introduced, through multiple detection and large-scale parallel DNA sequencing, operation is easy, the result is highly repeatable, and the age prediction model constructed based on the method is good in stability and accuracy and high in sensitivity and has good application prospects. Calendar age can be predicted from trace blood samples associated with forensic cases.

This invention provides a process for sequencing single-stranded DNA by employing a nanopore and modified nucleotides.

The invention discloses a sub-nano two-dimensional heterojunction nanopore preparation method based on HIM pore preforming and STEM closed-loop control, and belongs to the technical field of micro-nano manufacturing and MEMS. HIM is utilized to form a 1-3 nm primary pore in a two-dimensional heterojunction film, and then level convergence of the pore diameter is achieved in the STEM through HAADF image intensity threshold monitoring and PID self-adaptive control; and the nano titanium dioxide is stably controlled in a range of 0.5-0.9 nm. The prepared hole has the characteristics that mu belongs to [0.50, 0.90] nm, sigma is smaller than or equal to 0.10 nm, RMS is smaller than or equal to 0.30 nm, the drift rate is smaller than or equal to 0.02 nm.h <-1 > and the like, the repeatability of the hole preparation process is high, the edge is smooth and stable, and the method is suitable for DNA sequencing, ion screening and environmental combined pollutant detection.

The present disclosure relates to predicting genomic instability status in biological samples using machine learning techniques with comprehensive genomic and immune profiling (CGIP) data. Particularly, aspects are directed towards performing a genomic instability test on a biological sample. Then, multi-omics data for the subject are obtained by DNA sequencing and RNA sequencing assays, including genomic alteration data for a first set of genes and expression data for a second set of immune genes. The multi-omics data are input into a machine learning model having a tree-based architecture, which is configured to analyze features by traversing paths from root nodes to terminal nodes in each tree based on values generated from the data. The model predicts a genomic instability status, which is then provided via a user interface notification or as part of a testing report.

The invention discloses a compression and decompression method for DNA sequencing data, and belongs to the technical field of biological information. The technical problems that in the prior art, when third-generation sequencing data are compressed, flexibility is poor, and the compression rate is low are solved. According to the compression method for the DNA sequencing data, global compression or block compression can be dynamically selected before compression, different compression methods are adopted for different types of data, and the flexibility of the compression method is improved; when the base sequence is compressed, the adopted self-indexing structure is a lossless compression method, the initial positions of all the sequences can be compressed and restored by using smaller data volume, and the compression rate is improved. Due to the fact that a special design is adopted in a run length coding structure, a character part is removed, an obtained run length segment is shorter, lossless compression of the position and the sequence is guaranteed, and meanwhile a better compression effect is provided. The method is mainly used for compression and decompression of DNA sequencing data.

Provided herein are modified Archaeal family B polymerases derived from the Archaeal microorganism Pyrococcus abyssi that exhibit improved incorporation of nucleotide analogues utilized in DNA sequencing.

Example systems and methods for de novo sequencing of DNA or DNA-like sequences using Viterbi-like correlation analysis are described. A sequencing system receives the read data for multiple copies of a DNA strand from a sequence reader, such as a nanopore reader. The sequencing system generates a convolutional matrix based on one copy and a reference matrix based on another copy and uses them to generate a correlation matrix. A most likely path through the correlation matrix is determined to identify and correct errors between the two copies.

Fluorescence imaging systems and methods of are described herein that enable imaging of sequencing samples with a light source of a single color and a single image sensor. The optical systems herein provides higher signal efficiency, simpler optical filter design, and lower costs for DNA sequencing analysis and other imaging applications.

The present disclosure provides flow cell devices, systems, and methods for facilitating and performing DNA sequencing analysis with reduced system complexity and cost, significant cost of goods saving, and reduced contamination level. The sequencing systems described herein permit processing of multiple flow cells simultaneously, such that sequencing and imaging steps, or multiple sequencing methods, can be performed in parallel using a single sequencing system.

The present application relates to the technical field of fluorescent dyes, in particular to an asymmetric pentamethine cyanine compound. The compound comprises a structure as shown in formula I. The compound provided by the present application has good water solubility, near-infrared absorption, high fluorescence quantum yield and good molar absorption coefficient, and can be used in nucleic acid labeling, DNA sequencing, cell imaging, protein labeling or specific recognition of amino acids.

The invention discloses a method for adding name information to a protein or a strain or a cell and enabling a name to be never decayed and application. The method comprises the following steps: creating a name for the protein or the strain or the cell; representing each character in the name of the protein or strain or cell with a specific DNA sequence fragment; connecting the DNA sequence fragments in series to form a tandem DNA sequence; fusing the tandem DNA sequence with name information and the DNA sequence of the protein into a fusion gene; constructing the fusion gene into an expression vector, and transforming the vector into a host strain or cell; and checking the expression condition of the fusion protein in the strain or the cell. According to the invention, tandem DNA or fusion protein with names or strains or cells containing name information can be obtained. The name information of the fusion protein can be read through DNA sequencing or indirectly verified through expression of the fusion protein. The method has the advantages that a name can be added to the protein or the strain or the cell, and the protein or the strain or the cell with the proprietary intellectual property right can be obviously proved compared with a common DNA information storage technology. Besides, the protein, the strain and the cell are named and DNA with name information is added, so that the protein, the strain and the cell are personified, and the protein, the strain and the cell with names are more interesting. And the name can be never decayed along with passage of strains and cells.

A disease prediction method, a model training method and apparatus, and a storage medium, the training method comprising: obtaining pre-training data and fine tuning data, the pre-training data comprising a plurality of DNA sequencing data, the fine tuning data comprising a plurality of DNA sequencing data and a type tag; pre-training a first generative model by using the pre-training data to obtain model pre-training parameters; performing fine tuning on the first generative model by using the fine tuning data to obtain model fine tuning parameters; and combining the model fine tuning parameters with the model pre-training parameters, and loading the combined parameters into the first generative model to obtain a trained disease prediction model.

The present invention relates to a method for determining the sequence of a nucleic acid molecule. Specifically, the present invention provides a method comprising: i. Providing a nucleic acid molecule comprising a 5 '-region and a 3'-region wherein the 5 '-region and the 3'-region are covalently linked by a nucleotide sequence that can bind to a primer wherein the 5 '-region and the 3'-region are covalently linked by a nucleotide sequence that can bind to the primer, the base identity in one of the 5'region or the 3 'region and the base identity in the other region independently provide information about the base identity in the corresponding locus in the original nucleic acid molecule wherein the molecule further comprises: a linker located at the 5'end of the molecule; a linker located at the 3'end of the molecule; ii. Sequencing the molecule provided in step (i) using at least two different primers wherein the at least two different primers bind to at least three, preferably at least four, different regions of the nucleic acid molecule provided in (i), wherein: 1. At least one of the primers is capable of binding at least partially to at least a portion of the linker at the 5'end of said molecule for sequencing at least a portion of the 5 'region of the nucleic acid molecule provided in (i); 2. At least one of the primers is capable of at least partially binding to a nucleotide sequence region covalently linking the 5'region and the 3 'region of the nucleic acid molecule provided in (i) to sequence the 3' region of the nucleic acid molecule provided in (i); 3. At least one of the primers is capable of binding at least partially to at least a portion of the linker at the 3'end of the molecule to sequence at least a portion of the 3 'region of the nucleic acid molecule provided in (i); and / or 4. At least one of the primers is capable of at least partially binding to a region covalently linked to the 5'region and the 3 'region of the nucleic acid molecule provided in a to sequence the 5' region of the nucleic acid molecule provided in (i).

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.

The application provides a method for DNA sequencing by pigeon hash growth tree splicing and a computer readable medium. The application acquires a reads library, determines the length of a pigeon hash table to construct the pigeon hash table, and numbers the reads in the reads library; the head of each read and the tail of each read are obtained through row division fragment processing; each read of the reads library is stored in the pigeon hash table through iterative replacement storage; splicing growth is determined in combination with the pigeon hash table, information of the reads in the splicing growth process is stored in a dynamic pigeon hash table in combination with the position of the successfully matched read head, and DNA sequencing is realized through iterative execution of growth of the growth tree. The application expands when the size of the hash table is insufficient, thereby saving space resources. The application is suitable for DNA splicing sequencing engineering.

A pool of multiple nucleic acid reporter molecule species are for use in a massively parallel DNA sequencing method. All members of an individual reporter molecule species have identical nucleic acid sequences. The members of each reporter molecule species comprise, in order from 3′-end to 5′-end: (i) a first sequencing adapter, (ii) a first identification (ID) sequence, (iii) a first hybridisation sequence, or a first hybridisation sequence and a second hybridisation sequence, (iv) a second ID sequence, and (v) a second sequencing adapter. The combination of the first ID sequence and the second ID sequence are unique to the members of an individual reporter molecule species. The first hybridisation sequence is or the first hybridisation sequence and the second hybridisation sequence are, respectively, shared between a plurality of different reporter molecule species, and the sequencing adapters are shared between all reporter molecule species.

The present disclosure provides flow cell devices, systems, and methods for facilitating and performing DNA sequencing analysis with reduced system complexity and cost, COGS saving and reduced contamination level.

The invention relates to the technical field of gene sequencing, in particular to an enzyme composition for a DNA next-generation sequencing library and a library construction method. The enzyme composition comprises Vvn and a high-fidelity Bst DNA polymerase, and is used for carrying out fragmentation treatment on DNA. The Vvn has no sequence preference for fragmentation of double-stranded DNA (dsDNA), so that the homogeneity of the library is improved, and support is provided for the accuracy of subsequent sequencing results and the integrity of genome coverage. Under the polymerization action of the high-fidelity Bst DNA polymerase, the enrichment of the dsDNA is finally realized, and the sequence authenticity of the enriched product is guaranteed to the maximum extent. The synergistic effect of the Vvn and the high-fidelity Bst DNA polymerase does not depend on sequence specific recognition, various dsDNAs can be efficiently enriched, the method is suitable for library construction of low-abundance nucleic acid, such as construction of a DNA sequencing library with the initial quantity as low as 10 pg, the success rate of library construction can be remarkably increased, and the method is particularly suitable for low-initial-quantity scenes such as precious samples or low-concentration DNA samples, forensic trace DNA and single cell sequencing.

The invention belongs to the technical field of petroleum geology engineering, and particularly provides an analysis method for microorganism DNA sequencing and application of the analysis method in stratigraphic division. The analysis method comprises the following steps that in the drilling process, rock debris is sampled from a vibrating screen at a wellhead, and rock debris samples are collected once every 0.5 m so as to collect rock debris samples of different stratum depths; the collected rock debris is subjected to treatment and DNA sequencing, and the variety and abundance of strains contained in the rock debris are obtained; the strains are preliminarily screened, and the strains from the underground oil reservoir are reserved; the reserved strains are clustered, and the total length of the stratum where the rock debris is collected is preliminarily divided into a plurality of stratums according to the similarity and correlation of the strains in different stratum depths; and each stratum is finely divided into a plurality of small stratums by taking the characteristic strains in each stratum as main characteristics.

The invention belongs to the crossing field of DNA digital storage and bioinformatics, and discloses a DNA sequencing read clustering method and system based on characterization learning, and the method comprises the steps: carrying out the preprocessing of an original DNA sequencing read, and obtaining a sequencing read and a corresponding variant 1 and variant 2 set; carrying out characterization learning on the DNA sequencing read segments through a deep learning model based on the sequencing read segments and the corresponding variant 1 and variant 2 sets; and based on the DNA sequencing read after characterization learning, realizing clustering of the DNA sequencing read through a fine tuning model. According to the method, the problem of clustering difficulty caused by sequencing errors in DNA storage is solved.

The utility model relates to the technical field of dispensing, and discloses a multichannel piezoelectric injection valve controller, a multichannel piezoelectric injection valve system and DNA (Deoxyribose Nucleic Acid) sequencing equipment. The multi-channel piezoelectric injection valve controller comprises a main control unit and a plurality of piezoelectric injection valve driving circuits, and the main control unit is connected with the piezoelectric injection valve driving circuits and outputs multiple paths of pulse width modulation waveform signals to the piezoelectric injection valve driving circuits; and the piezoelectric injection valve driving circuit is used for controlling the voltage at the two ends of the piezoelectric injection valve connected with the piezoelectric injection valve driving circuit according to one path of pulse width modulation waveform signal correspondingly output by the main control unit. Therefore, according to the utility model, the main control unit is connected with the plurality of piezoelectric injection valve driving circuits to output multiple paths of pulse width modulation waveform signals to the plurality of piezoelectric injection valve driving circuits, so that one controller can control the plurality of piezoelectric injection valve driving circuits at the same time, the integration level is high, the number of channels can be freely expanded according to user requirements, and the expansion is easy.

The present invention relates to a method for determining the sequence of a nucleic acid molecule. In particular, the present invention provides: i. a nucleic acid molecule comprising a 5' region and a 3' region, wherein the 5' region and the 3' region are covalently linked by a nucleotide sequence to which a primer can bind, and the base recognition in one of the 5' region or the 3' region and the base recognition in the other region together independently provide information regarding the base recognition at the corresponding locus in the original nucleic acid molecule, and the molecule further comprises: - one adapter at the 5' end of the molecule; - one adapter at the 3' end of the molecule; ii. sequencing the molecule provided in step (i) using at least two different primers, e.g., at least three different primers, preferably at least four different primers, wherein at least two different primers, e.g., at least three different primers, preferably at least four different primers, bind to at least three different regions, preferably at least four different regions in the nucleic acid molecule provided in (i): 1. At least one of the primers binds at least partially to at least a portion of the adapter at the 5' end of the molecule, thereby sequencing at least a portion of the 5' region of the nucleic acid molecule provided in (i); 2. The present invention provides a method comprising: 3. At least one of the primers at least partially binds to a region of a nucleotide sequence covalently linking the 5' and 3' regions of the nucleic acid molecule provided in (i), thereby enabling sequencing of at least a portion of the 3' region of the nucleic acid molecule provided in (i); 4. At least one of the primers at least partially binds to at least a portion of the adapter at the 3' end of the molecule, thereby enabling sequencing of at least a portion of the 3' region of the nucleic acid molecule provided in (i); and / or 5. At least one of the primers at least partially binds to a region of a nucleotide sequence covalently linking the 5' and 3' regions of the nucleic acid molecule provided in (i), thereby enabling sequencing of at least a portion of the 5' region of the nucleic acid molecule provided in (i).

The invention relates to the field of biological detection, biotechnology and nanotechnology, in particular to a DNA (deoxyribonucleic acid) sequencing system based on in-plane heterojunction and surface enhanced Raman scattering, which comprises the in-plane heterojunction with a middle strip, an excitation light source, a current loop mechanism and a spectrograph, metal nanoparticles are arranged on the two sides of the in-plane heterojunction; the excitation light source is used for exciting plasma resonance of the metal nanoparticles; the current loop mechanism is used for driving the DNA sequencing molecules adsorbed on the heterojunction strip to move along the middle strip; the spectrograph is used for detecting the Raman spectrum of the DNA sequencing molecules. According to the invention, sequencing molecules can be efficiently captured and certainly transported to a metal surface plasma electric field enhancement region to complete sequencing based on Raman signals, and the molecules can move back and forth to repeatedly pass through the electric field enhancement region only by changing the direction of an electric field in a current loop so as to realize multiple repeated detection of the same molecule.

The invention discloses a strain of Saccharobacterium tumefaciens and application thereof, and belongs to the field of microorganisms. According to the invention, a strain is separated and purified from leaves of Chuxiong saiai plant in Yunnan, and cell morphology observation, physiological and biochemical characteristic detection, cell chemical composition detection, and sequencing and comparison of genome DNA prove that the strain is a new species of the genus beach bacillus, and is named as beach bacillus saiai, and the strain is a new species of the genus beach bacillus and is named as beach bacillus saiai. Experiments and genome analysis prove that the strain has phosphorus solubilizing potential and can degrade PO4 < 3 + > generated by organophosphorus, so that the strain obtained by screening can be used for preparing reagents for degrading organophosphorus.

The application discloses a DNA sequencing and encryption method based on micro-fluidic technology, and the method is characterized in that: through grey correlation weight factor analysis and feature sequence analysis based on an ant colony algorithm, a DNA fragment with a relatively short length and sufficient feature content is optimized to construct a feature information library; DNA detection is completed through fluorescent coding microspheres and high-precision fluorescence detection technology, information is stored in a single-chip microcomputer after microsatellite repeat sequence analysis; finally, the information is transmitted to an MCU by using a Bluetooth module, and the information is stored in a decentralized manner by using an ECC elliptic curve encryption algorithm and a block chain, so that the permanent storage and calling verification of personal identity information are realized. The application can be widely applied to the technical field of micro-fluidic chips.

This invention discloses a method for calculating a polygenic risk score (PRS or PRS score) for predicting autism and neurodevelopmental disorders (hereinafter collectively referred to as diseases). Its key feature is the improvement in the accuracy of predicting the relative risk of potential diseases by incorporating the genetic effects of rare variants (MAF < 0.1%) and common variants (MAF > 0.1%). This invention uses loss-of-function (LoF) rare variants detected by DNA sequencing (including but not limited to NGS / 3GS) to calculate gene-based PRS scores; and integrates these scores into existing snp-based PRS scores based solely on common variants detected by GWAS; thereby solving the problem of low variance interpretation (pseudo-R) in snp-based PRS scores calculated only based on common variants. 2 (and the problem of low predictive ability.)

The invention discloses a DNA encoding method and device and a DNA decoding method and device, and belongs to the technical field of information storage and security. The DNA encoding method comprises the steps that target information is converted into computer codes; converting the computer code into a DNA coding chain or a DNA coding chain combination; and cross-linking the DNA coding chain and / or the DNA coding chain combination in a storage micro-pool on a DNA information storage medium so as to realize the storage of the target information. According to the method, the information storage process is completely independent of DNA synthesis and DNA sequencing technologies, and the method has the advantages of high parallelism, short access time, good encryption, low cost, strong expansibility and the like.

Fluorescence imaging systems designs and methods of are described herein that enable imaging of sequencing samples with a light source of a single color. The optical systems herein provides higher signal efficiency, simpler optical filter design, and lower costs for DNA sequencing analysis and other imaging applications.

Methods and systems for analysis of image data generated from various reference points. Particularly, the methods and systems provided are useful for real time analysis of image and sequence data generated during DNA sequencing methodologies.