26 results about "Dna barcodes" patented technology

The present invention provides a method for identifying multifactorial interactions in a biological sample, comprising (a) selecting a plurality of analytical target factors, (b) labeling antibody molecules against each of the selected factors with DNA barcodes, (c) contacting a biological sample containing the analytical target factors with the antibody molecules labeled with the DNA barcodes, (d) embedding the biological sample in a hydrogel after step (c), (e) performing, within the hydrogel, a nucleic acid amplification reaction using a plurality of primers designed such that, when two antibodies come in close proximity, the primers produce an amplification product containing both DNA barcode sequences from the antibodies, and (f) analyzing a nucleotide sequence of the produced amplification product to detect a presence of a factor that simultaneously interacts with two or more factors.

The present invention provides a method and system for encrypted storage and inference of DNA barcodes of rare and endangered species, which relates to the field of encrypted inference technology, including: obtaining a rare and endangered species monitoring data set and a corresponding biological sample set; constructing an encrypted database based on the monitoring data set to obtain an anti-parsing database framework; encrypting the DNA barcodes based on the biological sample set to obtain an encrypted barcode set; generating a single valid sequence based on a verification sequence generated by the DNA sample to be identified; performing collaborative inference verification based on the single valid sequence and the encrypted barcode set to generate a species identification code; performing a comprehensive judgment based on the species identification code and the monitoring data set, and outputting an identification result by correlating morphological feature changes with geographic distribution density. By constructing an anti-parsing encrypted database framework and a functionally limited DNA barcode set, the present invention achieves active protection of rare species genetic data and solves the key hidden danger of sensitive biological information being used for poaching tracing.

The application discloses a DNA barcode for screening high-quality Tibetan brown mushroom, primers and application thereof. The DNA barcode for screening high-quality Tibetan brown mushroom comprises one or more of 17 DNA fragments with nucleotide sequences as shown in SEQ ID NO:1-17; the DNA barcode amplification primer for screening high-quality Tibetan brown mushroom comprises one or more of 17 pairs of primers with upper and lower nucleotide sequences as shown in SEQ ID NO:18-51. Compared with traditional breeding methods and other existing DNA barcode technologies, the application has the advantages of time saving, labor saving, money saving, accuracy and high efficiency, plays an active role in the genetic breeding of high-quality Tibetan brown mushroom, and simultaneously provides an effective method for identification and protection of germplasm resources.

The embodiments of the present invention relate to devices, methods and kits for assaying a disease in a subject, by selectively capturing extracellular vesicles (EVs) by click chemistry with functionalized antibodies, selectively labeling the EVs with a plurality of DNA barcodes conjugated antibodies, optionally releasing the plurality of DNA barcodes, and assaying the plurality of DNA barcodes to determine whether the disease is present or predict the stage of the disease in the subject.

The invention discloses a DNA language model optimization method and system based on unsupervised noise contrast learning, and relates to the technical field of species identification by using DNA barcodes. The embedded vectors from the same sequence are used as positive samples, and the embedded vectors from different sequences are used as negative samples; in order to increase sample diversity, global and local feature noise layers are introduced, and positive sample embedded vectors are disturbed. And inputting the enhanced embedded vectors into an encoder, and mapping similar enhanced vectors to similar embedding spaces by integrating information and capturing really important modes in a sequence. By mixing positive and negative samples of an anchor point sample, a difficult negative sample with the characteristics of the two samples is constructed, so that the training difficulty is continuously increased, and the discrimination capability of the model is enhanced; the model is optimized by using an unsupervised comparative learning loss function with positive sample similarity penalty, so that the embedding space distribution of the model is effectively enhanced, and the accuracy of the model in DNA bar code species level classification is remarkably improved.

We provide a system for screening compounds. [Solution] This application provides beads with covalently attached compounds and covalently attached DNA barcodes, as well as methods for using such beads. The beads have many substantially identical copies of compounds and many substantially identical copies of DNA barcodes. The compounds consist of one or more chemical monomers, and the DNA barcodes take the form of barcode modules, each module enabling the identification of corresponding and corresponding chemical monomers. The nucleic acid barcodes may have a chain-like or orthogonal structure. Methods for sequencing bead-bound nucleic acid barcodes, methods for cleaving compounds from beads, and methods for evaluating the biological activity of released compounds are provided.

The application discloses a DNA barcode second-generation sequencing library construction method and application thereof. The method is simple and rapid, and can be used for preparing a sequencing library of a barcode DNA through two rounds of PCR, and can be used for assembling full-length DNA barcodes, accurately identifying species and determining a mixed ratio, and is especially suitable for mixed sample analysis. The sequencing library can be directly used for second-generation sequencing, is especially suitable for mixed sample identification, and has simple and rapid operation and low cost. The application has important application value.

The invention belongs to the field of molecular biology, and particularly relates to a DNA (deoxyribonucleic acid) bar code rpoB-trnC primer suitable for moss plants and application of the DNA bar code rpoB-trnC primer, and the nucleotide sequences of the primer are'rpoB-trnC-D-F, 5 '-ACTCTGCAACWCCATTAAC-3' 'and'rpoB-trnC-D-R, 5'-GRATTGCAGACCTCTGCCT-3 ''. The DNA bar code provided by the invention can be applied to related researches such as species identification and molecular system development of moss plants in the field of plant classification; in the fields of ecology and biodiversity research, the method can be used for protecting moss plants; in the field of gardening research, the method can be used for identifying, introducing and cultivating moss plant varieties (species); in addition, the method can also be used for application work related to moss plant identification and the like in forestry, traditional Chinese medicine research, agriculture and the like.

The invention belongs to the field of molecular biology, and particularly relates to a DNA (deoxyribonucleic acid) bar code ycf2 primer applicable to moss plants and application of the DNA bar code ycf2 primer applicable to the moss plants, and the nucleotide sequence of the primer is' ycf2-D-F, 5 '-GGATCAGATTCCACATTTGAGT-3' 'and' ycf2-D-R, 5 '-TAGACCTTTCGTAGAGAACG-3' '. The DNA bar code provided by the invention can be applied to related researches such as species identification and molecular system development of moss plants in the field of plant classification; in the fields of ecology and biodiversity research, the method can be used for protecting moss plants; in the field of gardening research, the method can be used for identifying, introducing and cultivating moss plant varieties (species); in addition, the method can also be used for application work related to moss plant identification and the like in forestry, traditional Chinese medicine research, agriculture and the like.

The present invention relates to the field of molecular biology and discloses a DNA barcode (clpP) for mosses and its applications. The DNA barcode (clpP) comprises a clpP gene fragment. The primer sequences for obtaining the DNA barcode (clpP) are shown in SEQ ID NOs. 1 and 2. The DNA barcode (clpP) is used to identify mosses and construct a phylogenetic tree of mosses. This technical solution overcomes the problems of poor versatility and low resolution of existing DNA barcodes for mosses.

Disclosed is a method of training a complete DNA basecaller using high complex direct RNA sequencing (DRS) training datasets and applications of the trained complete DNA basecaller. Including a method to sequence single-cell RNA using capture oligonucleotides and oligonucleotides-DNA barcodes. The training of the DNA basecaller use a linked DNA-RNA oligonucleotide, in which the DNA part is complementary to the RNA part.

The present invention relates to a method for estimating or determining fitness of enzyme variants and / or optimizing a nucleotide sequence encoding an enzyme variant comprising generating a DNA variant library and linking a unique DNA barcode to each DNA variant, wherein the DNA variants are subjected to long-read and short-read sequencing. In particular, the present invention relates to a method for predicting or determining fitness of enzyme variants and / or optimizing a nucleotide sequence encoding an enzyme variant by combining DNA barcodes, selection pressure, long-read sequencing, and short-read sequencing. Furthermore, the present invention relates to application of machine learning for predicting enzyme fitness and / or optimizing a nucleotide sequence encoding an enzyme variant based on data obtained from said method.

Target biomarkers, e.g., chemokine ligand 9 (CXCL9), chemokine ligand 10 (CXCL10), etc., are detected in human urinary samples via magnetic particle-antibody complexes. These complexes bind to the target biomarkers in the sample and enable magnetic enrichment of the biomarkers into a portion of that sample. Sandwich structure complexes are prepared via further contact with DNA barcode-antibody complexes that include CRISPR / Cas recognition sites, e.g., for Cas9, Casl2a, Cast 3 a, etc. Cas-RNA complexes activate upon binding with the DNA barcodes, resulting in cleavage of reporter complexes, e.g., fluorophore-biotin (FB) reporter, fluorophore-quencher (FQ) reporter, that can be detected as an indicator of biomarker concentration in the sample. A limit of detection for urinary biomarkers of 18 pg / mL was demonstrated in a patient sample via naked-eye detection using commercially available lateral flow assay test strips configured to bind cleaved portions of the reporter complexes.

Methods for attaching barcodes to polypeptides are provided. Methods for detecting molecular interactions at the single molecule level are provided. Embodiments of the invention are directed to a ONA barcoded protein array technology for parallel protein interaction profiling on a single molecule basis. DNA barcodes are attached to proteins collectively via ribosome display or individually via enzymatic conjugation. Novel methods are described herein that measure protein interactions based on the statistical analysis of co-localized polonies arising from barcoding DNAs of interacting proteins.

The application relates to the technical field of plant quarantine, in particular to an imported grain weed rapid quarantine method based on DNA barcodes of compositae plants. The method aims to solve the problems of high missing detection rate and insufficient identification capacity when identifying highly degraded DNA samples. The scheme comprises the following steps: performing low-depth shotgun sequencing on total DNA of grain samples and filtering background sequences; extracting sequence and evolution features from short fragments by using a pre-trained double-channel deep feature extraction network; decoupling the fragment features into conservation, position coding and degradation features by using a decoupling-collaborative reconstruction network, and reconstructing a synthetic feature sequence representing a complete barcode; and finally comparing the sequence with a standard feature database, calculating an identification confidence, and outputting an identification conclusion. The application is especially suitable for rapid and accurate identification of compositae weed seeds with severely degraded DNA in imported grains.

Methods and reagents for multiplex detection of antibodies are disclosed. In particular, the invention relates to multiplex detection of antibodies using antigen-DNA and antibody-binding agent-DNA conjugates carrying DNA barcodes for identifying and quantitating disease-relevant antibody isotypes, such as those involved in allergic responses, autoimmune diseases, infections, and inflammation.

The invention belongs to the field of molecular biology, and particularly relates to a DNA (deoxyribonucleic acid) bar code accD-psaI primer suitable for moss plants and application of the DNA bar code accD-psaI primer, and the nucleotide sequences of the primer are'accD-psaI-D-F, 5 '-AGCCATTGTAATTGCTGGA-3' 'and'accD-psaI-D-R, 5'-ACCGGTGGAGTTACTGCT-3 ''. The DNA bar code provided by the invention can be applied to related researches such as species identification and molecular system development of moss plants in the field of plant classification; in the fields of ecology and biodiversity research, the method can be used for protecting moss plants; in the field of gardening research, the method can be used for identifying, introducing and cultivating moss plant varieties (species); in addition, the method can also be used for application work related to moss plant identification and the like in forestry, traditional Chinese medicine research, agriculture and the like.

The application relates to a method for monitoring and optimizing fish species based on DNA barcodes and a river basin ecological database, which comprises the following steps: collecting Cytb gene sequence information original data of fish and water quality parameters, habitat parameters and biological parameter original data through original data collection; constructing a tree structure database, forming a tree structure database with the collected data as nodes, and saving the original data to the corresponding nodes; obtaining Cytb gene sequence information average data and ecological parameter data through sample collection and processing; obtaining Cytb gene sequence information average data of the same fish in different years through database data acquisition and processing; preliminarily determining local fish by comparing the to-be-tested fish data with the fish data in the database; analyzing and predicting ecological parameters, obtaining ecological parameter average data from the database and predicting ecological parameter data of the current year; and finally determining and optimizing measures, determining and optimizing the fish species in the river basin according to the collected ecological parameter data and the predicted ecological parameter data. The application can improve the reliability and accuracy of the monitoring results, and can be applied to various river basins, and has a wide application prospect.

The invention relates to the field of biological identification, and particularly discloses a DNA bar code for identifying pennisetum plants and application thereof.The DNA bar code comprises a section of specific nucleotide sequence of a chloroplast gene spacer psbA-trnH, screening finds that the section has enough variation sites between pennisetum species and is highly conservative in the species, and the section of specific nucleotide sequence can be used for identifying the pennisetum plants. Different species of pennisetum, such as pennisetum purpureum, Yu-grain and the like, can be effectively distinguished; the invention further comprises a specific primer pair for amplifying the bar code, a PCR kit containing the primer pair and application of the PCR kit in species identification, genetic relationship analysis, seed purity inspection and Chinese herbal medicine source tracing of the pennisetum plants. The method has the advantages of being high in identification speed, high in accuracy, good in repeatability, free of influences of plant development stages and the environment and the like, and the problems faced by a traditional morphological identification method are solved.

The invention belongs to the technical field of plant gene molecular markers, and particularly relates to a DNA bar code for identifying nitraria tangutorum and nitraria sibirica and application of the DNA bar code. The DNA bar code for identifying the nitraria tangutorum and the nitraria sibirica comprises a specific variation site combination located in an internal transcriptional spacer (ITS), a site matrix with species diagnosability is formed, the sites have stable species specificity, the nitraria tangutorum and the nitraria sibirica can be rapidly identified by detecting a nucleotide sequence of an ITS2 region of a sample, and the DNA bar code for identifying the nitraria tangutorum and the nitraria sibirica can be used for identifying the nitraria tangutorum and the nitraria sibirica. Particularly, the identification accuracy is remarkably improved under the condition that morphological identification is not feasible or uncertain, so that collection, conservation and related scientific research work of germplasm resources are facilitated, and a convenient method is provided for germplasm identification and resource protection.

Methods, compositions and systems for co-sequencing DNA methylation and RNA from the same cell are provided. Also provided herein are gel beads which allow for the compartmentation of single cell nuclei and allow for processing of the nucleic acids therein by addition of DNA barcodes to allow for combinatorial indexing (e.g., three-layer combinatorial indexing) of the nuclei, thereby allowing the parallel processing of single cells in a high throughput manner. The method, compositions, and systems provided herein are capable of providing single cell sequencing data from tens of thousands or more cells in a single parallel experiment.

The application discloses a DNA barcode for screening high-quality Tibetan brown mushroom, primers and application thereof. The DNA barcode for screening high-quality Tibetan brown mushroom comprises one or more of 17 DNA fragments with nucleotide sequences as shown in SEQ ID NO:1-17; the DNA barcode amplification primer for screening high-quality Tibetan brown mushroom comprises one or more of 17 pairs of primers with upper and lower nucleotide sequences as shown in SEQ ID NO:18-51. Compared with traditional breeding methods and other existing DNA barcode technologies, the application has the advantages of time saving, labor saving, money saving, accuracy and high efficiency, plays an active role in the genetic breeding of high-quality Tibetan brown mushroom, and simultaneously provides an effective method for identification and protection of germplasm resources.

The invention discloses a species identification reagent, an identification method and application, belongs to the technical field of species identification, and solves the problems that according to an existing method, DNA bar codes are generated based on repetitive sequences, amplification of the repetitive sequences is easily interfered by genome repetitive areas, and the identification capacity is limited. A sequencing amplification product is purified through an agarose gel electrophoresis recovery method, the sequencing amplification product is purified through a magnetic bead purification reagent, the sequencing amplification product is subjected to bidirectional sequencing, and a sequencing data set is identified and analyzed based on an identification analysis model; according to the species identification method provided by the invention, the to-be-identified sample tissue can be subjected to purification and impurity removal through synergistic cooperation of the identification extraction reagent and the magnetic bead purification reagent, the sequencing quality of a special sample such as a degradation sample or an inhibitor-containing sample is remarkably improved, and the species can be more accurately identified by utilizing the identification analysis model.

The present application relates to the technical field of pepper germplasm resource screening, and particularly relates to a DNA barcode for identifying the genetic relationship of pepper, a primer set and application thereof. The present application provides a DNA barcode and primer set for identifying pepper germplasm resources. The DNA barcode is obtained according to the SSR sequences of Zanthoxylum simulans, Zanthoxylum simulans and hybrid offspring. The barcode is applied to the identification of pepper germplasm resources after the correct amplification of the primer set is screened. The experimental results show that the DNA barcode and primer set can be combined in various forms to identify the genetic relationship of pepper, and the detection cycle is short, the operation is simple, the detection process is economical and saving, the identification result is accurate and reliable, and the repeatability is good. The present application overcomes the shortcomings of the traditional morphological identification method, such as inaccuracy, time-consuming and laboriousness, and plays an active role in the identification of the genetic relationship of high-quality pepper germplasm resources and genetic breeding. Meanwhile, the present application provides an effective method for the identification and protection of germplasm resources.

Compositions and methods for estimating the number of cell fusion events that occur in a liquid culture using multiplexed oligonucleotide molecular barcodes and next-generation sequencing are disclosed. A method for quantifying unique cell fusion events, the method comprising: providing a first quantity of cells, wherein each cell of the first quantity of cells comprises an exogenous nucleic acid vector of a first library of exogenous nucleic acid vectors.

The invention discloses a DNA bar code for identifying chrysanthemum and wild chrysanthemum-based original species and application of the DNA bar code. Relates to the technical field of traditional Chinese medicinal material source variety identification. DNA barcodes, amplification primers, identification methods and uses are provided. The method comprises the following steps: screening a hypervariable region based on a chloroplast genome, designing a primer ycf1-Ch F / ycf1-Ch R by taking the screened hypervariable region ycf1-Ch sequence as a template, carrying out PCR amplification and Sanger sequencing, analyzing and comparing chrysanthemum and wild chrysanthemum samples by utilizing Geneios and MEGA11.0 software, verifying whether the screened species specific DNA bar code has species identification ability, and if the species specific DNA bar code has the species identification ability, determining whether the species specific DNA bar code has the species identification ability, and if the species specific DNA bar code has the species identification ability, determining that the species specific DNA bar code has the species identification ability. The basic nucleotide sequence types of the chrysanthemum and the wild chrysanthemum flower are obtained. And then verifying to evaluate the species identification efficiency of the screened sequence and determine the species-specific DNA bar code for identifying chrysanthemum and wild chrysanthemum.