865 results about "High throughput sequence" patented technology

The invention discloses a microbiological culture scheme customization recommendation method and system based on soil data analysis, and relates to the technical field of microbiological culture plants.The method comprises the steps that soil samples at different positions and depths are collected, soil characteristic data are analyzed, and data processing is carried out; microbial community information is obtained through soil DNA extraction, PCR amplification and high-throughput sequencing, and distribution and functions of microorganisms are evaluated in combination with data preprocessing and diversity analysis; selecting proper microbial strains according to soil characteristics and microbial community analysis results; a microbial culture scheme is combined with agricultural management measures; the conditions of soil and microorganisms are monitored in real time, and a microorganism culture scheme is dynamically adjusted based on a feedback mechanism; through field trials and advanced performance evaluation indexes, the effect of the microbial culture scheme is verified for a long time. The method has high adaptability and sustainability, and customized microorganism management schemes can be provided in different agricultural environments.

The invention discloses a combination of different nucleic acid aptamers with known 291 targets, sequences of the nucleic acid aptamers of the combination are subjected to sequencing analysis through a single-cell high-throughput sequencing technology, and a cell map aiming at peripheral blood-derived mononuclear cells of a biliary tract cancer patient can be constructed. The nucleic acid aptamers covered by the combination have high specific affinity to molecular targets of the nucleic acid aptamers, and after the two ends of the nucleic acid aptamer sequences extend to adapt to joints of a commercial sequencing platform, high-throughput sequencing is carried out on the nucleic acid aptamer sequences which are combined with the surfaces of mononuclear cells and are provided with the sequencing joints; high-throughput analysis of the biomarkers on the surface of the peripheral blood-derived mononuclear cell of a biliary tract cancer patient can be realized, so that the cell map of the peripheral blood-derived mononuclear cell of the biliary tract cancer is constructed.

The invention discloses an aquatic organism diversity rapid evaluation system and method based on GIS and eDNA technologies, and the method comprises the steps: selecting a plurality of sampling points in a target region to collect water samples, and integrating and processing the geographic information data of the sampling points and surrounding regions by adopting a GIS system; extracting eDNA from the collected water sample, performing amplification and sequencing on the eDNA by adopting a high-throughput sequencing technology, obtaining species and relative abundance of the species existing at the sampling point, and forming a species list; importing species distribution information corresponding to the species list into a GIS system, and obtaining a species distribution area and species types; according to the method, a species distribution prediction model is established, aquatic organism diversity change trends of the hot spot area and the potential ecological threat area are monitored in real time, an evaluation report and protection suggestions are formed, and protection measures are updated in time, so that the data acquisition and processing efficiency is improved, and the accuracy of species identification and the comprehensiveness of diversity evaluation are enhanced; and a real-time monitoring and early warning mechanism is provided.

The invention belongs to the technical field of gene sequencing, and particularly relates to a method for efficiently identifying an exogenous DNA insertion site in a genome by using a high-throughput sequencing technology. The method comprises the following steps: (a) extracting a sample, building a database and sequencing; (b) data quality control; (c) comparing data; (d) filtering comparison results; (e) preliminary screening; and (f) screening and identifying the positions of the exogenous insertion elements. According to the method, the high-throughput sequencing data and the genome and exogenous fragment sequences are compared and analyzed to obtain the candidate positions of the insertion sites, so that the test efficiency can be remarkably improved, manual judgment and screening work can be effectively replaced, and the result accuracy can be improved.

The invention discloses a rapid sequencing and traceability analysis system for input infectious diseases, which relates to the field of customs quarantine and comprises a sample preprocessing unit, a high-throughput sequencing unit, a data processing and quality control unit, a rapid comparison and annotation unit and a traceability analysis unit. According to the input infectious disease rapid sequencing and traceability analysis system, a complete link is formed from sample preprocessing, library construction, data cleaning, pathogen recognition and transmission map construction, module splitting and manual intervention are avoided, and tasks can be automatically completed in large-scale and emergency scenes.

The invention discloses a method for evaluating enhancement and release seedling resources based on environmental DNA polymerization analysis. The method comprises the following steps: carrying out gridding partition on a target water area, collecting a water sample through a designed sampling scheme, and carrying out DNA extraction and high-throughput sequencing to obtain species sequence information of each sampling point. Sequencing data is subjected to species identification by using a bioinformatics method, released species are identified, a spatial abundance model is established, and a preliminary distribution map is generated. And establishing a DNA degradation kinetic model in combination with water area environmental parameters, and carrying out reverse correction on abundance distribution. And through a resource inversion model coupled with hydrodynamics, analyzing biomass distribution characteristics and migration laws of the release group, and obtaining a resource evaluation result. And finally, a species environment preference model is constructed based on migration path analysis, an optimal release area is matched in a target water area, a scientific scheme including release point locations, opportunities and quantity is generated, and a whole-process technical support and a decision basis are provided for enhancement and release.

The invention provides a nucleic acid aptamer for specific recognition of morphine and application of the nucleic acid aptamer, and belongs to the technical field of biosensing and detection. The nucleotide sequence of the nucleic acid aptamer is as shown in SEQ ID NO: 1. The screening method is based on a Capture-SELEX technology and comprises the key steps that streptavidin magnetic beads are used for fixing an ssDNA library, estradiol, deabietic acid and totarol are introduced to serve as reverse screening substances so as to remove non-specific sequences, and finally the high-specificity aptamer is obtained through high-throughput sequencing and affinity determination. The dissociation constant of the aptamer and morphine is 127.31 nM, and the aptamer shows high affinity and high specificity. The invention further relates to application of the aptamer in preparation of a sensor and a kit for detecting morphine, and a new technical means is provided for rapid detection of morphine.

The invention relates to a method for regulating and controlling gene expression of lactic acid bacteria in shrimp acid fermentation based on systematic biology. The method comprises the following steps: constructing a gene regulation network of lactic acid bacteria by using whole genome data and a high-throughput sequencing technology comprising RNAseq; through clustering analysis and network reconstruction, transcription factors and enzymes of key metabolic pathways of lactic acid generation, acid resistance and glycometabolism are identified, and a dynamic regulation and control model of gene expression is established; a GeneNet or Cytoscape software tool is used, genomics, transcriptomics and metabonomics data of lactic acid bacteria are fused in a multi-layer network, a metabolism regulation and control system is constructed, and the metabolism regulation and control system comprises gene expression regulation and control and real-time change of metabolic flow; the method comprises the following steps: constructing a metabolic flux dynamic model of lactic acid bacteria based on a metabolic flux analysis MFA and a dynamic system modeling technology, and analyzing a mutual relation between a lactic acid generation path and a byproduct generation path; fBA is analyzed through flow equilibrium, and the metabolic network of lactic acid bacteria is optimized.

The invention relates to the technical field of high-throughput sequencing, and discloses a kit and a library construction method and a target variation detection and analysis method thereof, the kit comprises a pre-library construction reagent and a target region liquid phase hybridization capture reagent; wherein the pre-library construction reagent comprises a repair reagent, a joint, a connection reagent, an amplification reagent and purified magnetic beads; the target area liquid phase hybridization capture reagent comprises a hybridization reagent, a cleaning reagent, an amplification reagent, a purification magnetic bead, a target gene probe and a CNV / LOH probe. The invention provides a rapid, accurate and low-cost construction method of a library containing a targeting gene probe and a CNV / LOH probe and application of the library, through one-time library construction and sequencing, the advantages of a high-throughput targeting sequencing technology and a CNV-Seq technology are integrated; multi-gene point mutation, insertion and deletion, gene copy number variation, large-fragment copy number variation and heterozygosity deletion can be detected at the same time.

The invention discloses a construction method and application of a pathogenic microorganism genome database. The method comprises the steps of genome acquisition, genome screening, target region grabbing, strain verification, target region sequence clustering, redundancy elimination and database merging. The construction method of the pathogenic microorganism genome database is suitable for targeted high-throughput sequencing, and the corresponding amplification relationship between the primer and the corresponding microorganism genome sequence is obtained through the operations of screening, filtering, simulation amplification and the like on pathogenic microorganism genome data; the risk of wrong identification of pathogenic species can be reduced by constraining the corresponding relationship.

The invention discloses a method for monitoring diversity of large benthic invertebrates in a river based on eDNA. The method comprises the following steps: step 1, selecting a river basin to be measured, and querying basic information of the basin; 2, collection and treatment of eDNA samples: designing sampling points and geographic positions, and collection and pretreatment of water samples; 3, measuring physical and chemical indexes; 4, extraction of eDNA, PCR amplification and high-throughput sequencing are carried out; and 5, performing data analysis on the results, wherein the data analysis comprises bioinformatics analysis, alpha diversity analysis, beta diversity analysis and correlation analysis of large benthic invertebrate communities and environmental factors. The diversity of the large benthic invertebrates is more accurately and efficiently investigated and monitored by analyzing DNA fragments existing in the environment.

The invention relates to the technical field of biomedical data analysis, and discloses a data analysis method and system for genetic disease gene detection and a storage medium, and the method comprises the following steps: collecting a patient sample, and carrying out high-throughput sequencing to obtain original data; performing quality control and comparison processing on the data to generate variation detection data, and calculating variation information amount; suspicious variation sites are automatically screened, variation information amount is analyzed based on information entropy, and key variation is screened according to a preset threshold; performing Bayesian inference analysis on the key variation, calculating pathogenicity probability, and performing pathogenicity judgment based on an ACMG standard; calculating the matching degree of the key variation and the phenotype in combination with the phenotype information of the patient, and screening the variation conforming to phenotype characteristics; submitting the screening result to a doctor for auditing, and generating a final screening result; and generating a standardized gene detection report according to a final result. According to the method, pathogenic variation is efficiently and accurately recognized, and the automation level and clinical application value of genetic disease gene detection are improved.

The invention relates to a method for carrying out pathogenic microorganism identification and gene variation state joint detection on a pulmonary alveolar lavage fluid sample based on high-throughput sequencing. The method comprises the following steps: extracting nucleic acid from the pulmonary alveolar lavage fluid sample; constructing a metagenome capture library, and constructing a lung cancer polygene library; carrying out final library pooling; performing high-throughput sequencing; and analyzing data. Compared with the prior art, the scheme provided by the invention is based on a technical path of'macro 'captured by metagenome and'target' of targeted high-throughput sequencing; after the constructed final library is subjected to high-throughput sequencing and data analysis, index output (pathogenic microorganism identification, host chromosome copy number variation, gene mutation, gene fusion, gene copy number variation and methylation state) of multiple biomarkers can be met in one-time detection.

The present invention discloses a combination of different nucleic acid aptamers with 291 known targets. By performing sequencing analysis on the nucleic acid aptamer sequences of this combination through single-cell high-throughput sequencing technology, a cell atlas targeting mononuclear cells derived from the peripheral blood of patients with cholangiocarcinoma can be constructed. The nucleic acid aptamers covered by this combination have high specific affinity for their molecular targets. After extending adapters commercialized for sequencing platforms at both ends of the nucleic acid aptamer sequences respectively, by performing high-throughput sequencing on the nucleic acid aptamer sequences with sequencing adapters bound to the surface of mononuclear cells, high-throughput analysis of biomarkers on the surface of mononuclear cells derived from the peripheral blood of patients with cholangiocarcinoma can be achieved, thereby constructing a cell atlas of mononuclear cells derived from the peripheral blood of cholangiocarcinoma.

The invention discloses a method for evaluating the stability of a river ecosystem based on the proportion of generalization species and specialized species. The invention relates to the technical field of river ecosystem stability evaluation, and solves the problem that an existing evaluation method is insufficient in sensitivity to dynamic response of river system stability. The method comprises the following steps: respectively setting sampling points at different river reaches according to actual conditions of a river, collecting benthic microorganism samples on gravels, sand and bottom mud of a target river reach, and measuring environmental indexes of each sampling point; performing high-throughput sequencing on benthic microorganism samples, and identifying generalization species and specialization species by combining the Levins ecological niche width; the method comprises the following steps: identifying and quantifying generalization species and specialized species of benthic microorganisms, determining a threshold relationship between the proportion of the generalization species and the specialized species and the river ecosystem stability, and constructing a river ecosystem stability evaluation system based on the proportion of the generalization species and the specialized species. The stability evaluation of the water ecosystem is realized; and the basin comprehensive management and the ecosystem construction are promoted.

The invention discloses a variable splicing marker for tuberculosis diagnosis, a screening method and application, and relates to the technical field of marker screening, and the technical key points are as follows: the variable splicing marker is AIM2-Intron3-IR; by combining bioinformatics analysis, in-vitro experiments and clinical queue verification analysis of a large amount of high-throughput sequencing data, variable splicing markers closely related to tuberculosis are mined and determined, and a high-efficiency new tool is provided for tuberculosis diagnosis.

The invention discloses 1 KASP molecular markers closely linked with cotton fiber length, 6 cotton lint and fiber quality on an A6 chromosome, and a screening method thereof. A plurality of SNP difference sites are identified on an A6 chromosome by using a hybrid cotton Ji 1518 segregation offspring as a material in combination with QTL positioning and high-throughput sequencing, the KASP molecular marker is obtained by screening according to the difference sites, and the KASP molecular marker with a remarkable cotton lint / fiber quality screening effect is further identified by using a cotton backbone parent. The method can be used for high-yield high-quality cotton molecular breeding.

The invention relates to the field of noninvasive prenatal diagnosis, and particularly discloses a preeclampsia noninvasive screening method based on deep sequencing 8bp oligonucleotide double-fragment characteristics, which comprises the following steps: collecting preeclampsia and healthy pregnant woman peripheral blood samples, and extracting free DNA for high-throughput sequencing; the method comprises the following steps: extracting core 8-mer sequences' GTGCGCCC 'and' GATGGGGT 'in a long fragment of 150-200bp through bioinformatics analysis; an integrated support vector machine, K-nearest neighbor, extreme gradient lifting, a random forest and a multi-layer perceptron are combined with a logistic regression element classifier to construct a stacking model, the frequency of a core sequence is normalized, machine learning analysis is carried out, and the preeclampsia risk is predicted. According to the invention, two 8bp oligonucleotide characteristic fragments are specifically screened, and a deep learning architecture of multi-model fusion is combined, so that the limitations of low specificity and invasive detection of a traditional screening method are effectively broken through.

The invention relates to the technical field of tumor data processing, in particular to a methylation-based tumor data processing system. The system comprises the following modules: a methylated sample sequencing module, a sequencing difference site recognition module, a tumor gene sequence analysis module and a tumor subtype classification module, performing high-throughput sequencing on the to-be-detected clinical tumor DNA sample to obtain methylated tumor sequencing data; performing methylation level quantification on the methylated tumor sequencing data, and performing tumor difference site analysis to generate tumor difference site data; performing tumor generation key gene sequence identification according to the tumor difference site data to generate tumor methylation characteristic data; and performing tumor subtype tag identification according to the tumor methylation characteristic data to generate tumor type tag data. According to the method, accurate tumor typing is realized on the basis of tumor DNA methylation characteristic analysis, and the false negative rate of low-concentration sample detection is effectively reduced.

The invention discloses an SNP (Single Nucleotide Polymorphism) and InDel site combination for identifying variety of Inner Mongolia cattle, a 5K targeted capture gene chip and application of the 5K targeted capture gene chip. The SNP and InDel site combination for identifying the variety of the Inner Mongolia cattle is firstly disclosed and comprises 5000 SNP and InDel sites, and the physical position information of a cattle reference genome with the version number of AR-UCD1.2 is shown in a table 1. The invention further discloses a 5K targeting capture gene chip comprising the probe targeting the SNP and InDel site combination as well as a synthesis method and application of the 5K targeting capture gene chip. The 5K targeted capture gene chip completes genetic typing through a targeted capture probe by means of a high-throughput sequencing technology, has the characteristics of low cost, high efficiency and high accuracy, and can realize the variety identification function of Mongolian cattle, Sanhue cattle and Sunitt cattle by utilizing genotype data; important technical support and specific means are provided for identification and evaluation of Inner Mongolia cattle germplasm resources.

The invention belongs to the field of meat pigeon breeding, and particularly relates to miRNAs capable of serving as a trichomonad pigeon biomarker and application of the miRNAs. The invention provides application of miRNAs as a trichomonas pigeonae biomarker in preparation of a trichomonas pigeonae diagnostic reagent. According to the invention, high-throughput sequencing and bioinformatics analysis are simultaneously carried out on oral mucosa small RNA and transcriptome of a trichomonad infected positive individual and a healthy individual for the first time, so that an epigenetic molecular mechanism of oral mucosa tissue of a trichomonad infected regulation body is explained by mining a key significant difference miRNA-mRNA network.

The invention discloses a method and system for detecting respiratory tract pathogens, pathogen drug-resistant genes and pathogen virulence genes, and relates to the technical field of gene detection.The method comprises the steps that a respiratory tract sample of a patient is collected, DNA and RNA are extracted, and total nucleic acid is obtained; carrying out first-round PCR amplification on the total nucleic acid, purifying a first-round PCR product, carrying out second-round PCR amplification, and sorting the product to obtain a library building product; performing high-throughput sequencing on the library building product to obtain sequencing data, and detecting pathogens, drug-resistant genes and virulence genes; according to the method and system for detecting the respiratory tract pathogens, the pathogen drug-resistant genes and the pathogen virulence genes, by optimizing library preparation and direct library building of nucleic acid, the process is simplified, and efficiency and accuracy are improved; the balance reagent design guarantees library quality; the kit adapts to pathogen detection requirements in Yunnan and the like, provides efficient diagnosis, shortens detection time, improves treatment effect, regularly updates pathogen information, and keeps technical frontier.

The invention belongs to the technical field of biological detection, and particularly discloses a targeted sequencing primer group and a kit for detecting common pathogens of children and drug-resistant genes thereof. The primer group comprises 145 primer pairs of common children pathogen primer groups and 67 primer pairs of drug-resistant gene primer groups of the common children pathogen primer groups. According to the kit provided by the invention, nucleic acid in a clinical sample is directly extracted, 212 pairs of specific primers are adopted to realize multi-targeted amplification of a pathogen target area, a high-throughput sequencing platform is adopted to accurately identify pathogens and drug-resistant mutant genes thereof, 72 common children pathogens and drug-resistant genes thereof can be detected at the same time, and the kit has a wide application prospect. More accurate diagnosis information is provided for clinic, a key technical support is provided for early-stage accurate treatment of children infectious diseases, and the technical problems that in the prior art, in children pathogen detection, the detection speed is low, the number of missed detection is large, and the drug-resistant blind area is large are solved.

The present invention discloses a cell-labeling microbead, a preparation method and an application thereof, relating to the field of biological detection. The cell-labeling microbead includes a microbead, a universal primer sequence, a cell label and a linking sequence that are sequentially coupled to the microbead; wherein, the universal primer sequence is used to bind to a primer compatible with a sequencer, and dC in the universal primer sequence is 5-Methyl dC; the cell label is used to trace and identify target cells, and the bases in the cell label include A base, T base, G base; the linking sequence is used to link the cell label to the target cells. The technical solution of the present invention avoids base conversion by removing unmethylated C bases in the universal primer sequence and the cell label sequence, and realizes the construction of a high-throughput single-cell DNA methylation library; by labeling multiple sequences on the microbead, the number of primer syntheses and costs are significantly reduced, which helps to promote the development and application of high-throughput sequencing technology for single-cell DNA methylomes.

The invention relates to the technical field of environmental monitoring and water ecological safety, in particular to a eukaryotic algae outbreak early warning method and system based on genus-level specific recognition. The method comprises the following steps: collecting a water body sample at a monitoring position according to a preset sampling plan, collecting an environment measurement value, and respectively obtaining environment parameter data, a water sample sampling identifier and a sampling timestamp; extracting nucleic acid from the water sample at the monitoring position based on the water sample sampling identifier, performing targeted amplification, and performing high-throughput sequencing at the same time to obtain eDNA original sequencing data; therefore, by constructing the eukaryotic algae outbreak early warning process based on genus-level specific recognition, the problems that in a traditional method, sampling disturbance is uncontrollable, sequence judgment precision is insufficient, trend recognition is lagged, and an early warning link is not transparent are solved, and the accuracy, stability and traceability of early judgment of algae outbreak are improved.

The invention discloses a virus data processing method based on high-throughput sequencing data, which comprises the following steps that: a server can analyze original sequencing data through a neural network model so as to determine each virus pedigree to which each virus contained in a target sample belongs by utilizing information contained in the original sequencing data; therefore, virus data processing based on the high-throughput sequencing data can be carried out on the target sample based on the virus pedigree to which each virus belongs in the target sample output by the neural network model, so that the efficiency and accuracy of virus data processing based on the high-throughput sequencing data are improved.

The invention discloses a host exogenous nucleic acid identification method based on a high-throughput sequencing technology. The method comprises the following steps: acquiring sequencing data of a to-be-detected sample; filtering the sequencing data twice by using a host reference genome database to remove a host sequence; species classification is performed on the sequencing data after host filtering, and interference of homologous species sequences is reduced; performing sequence comparison by utilizing an identified species reference genome to obtain an accurate species sequence; low-complexity sequence removal is carried out on the compared sequences, so that the influence of sequence preference is reduced; and carrying out secondary comparison on the species reference genome by using BLAST or comparing the species reference genome to an NT library. By applying the method, the exogenous nucleic acid sequences of different host samples can be accurately and specifically identified, and effective analysis of biomass samples of high-host background and low-exogenous species is realized.

The invention provides a method for evaluating grassland degradation based on microbial community structures and composition, and belongs to the technical field of grassland degradation degree evaluation. The method comprises the following steps: selecting a representative sample plot in a to-be-evaluated grassland degradation area, selecting a sample square in the sample plot, and collecting rhizosphere soil in the sample square; mixing rhizosphere soil of all quadrat belonging to the sample plot to obtain a soil sample; analyzing the OTU number of bacteria and the OTU number of fungi in the soil sample by adopting high-throughput sequencing; calculating a grassland degradation grade evaluation value according to the OTU number of the bacteria and the OTU number of the fungi; according to the grassland degradation grade evaluation value and the grassland degradation grade evaluation standard, grassland degradation evaluation is carried out, and an evaluation result is obtained. The grassland degradation grade evaluation value of the to-be-evaluated area is calculated by taking the microflora structure and composition of the to-be-evaluated area as evaluation indexes, and the grassland degradation grade of the to-be-evaluated area is determined in combination with the grassland degradation grade evaluation standard.

The present application discloses a specific DNA fragment for sex identification of Pelteobagrus ussuriensis and a method for sex identification, specifically relating to the technical field of sex identification of Pelteobagrus ussuriensis. The above-mentioned identification method includes the following steps: Dissect 5 female and 5 male Pelteobagrus ussuriensis of a full-sib family to determine the physiological sex; respectively extract DNA from the muscles of female samples and male samples, construct a paired-end genomic DNA library with an insert fragment size of 300 bp, and perform high-throughput sequencing; based on the GWAS and Fst methods, identify that the sex chromosome of Pelteobagrus ussuriensis is chromosome 8, and then screen for Indels within the sex determination region on chromosome 8; screen a 601-bp male-specific DNA sequence and design and synthesize primers; use PCR amplification and agarose gel electrophoresis detection, and the result without specific bands is female, and the one with a 356-bp band is male. This scheme has the advantages of strong specificity, simple primer composition, and more intuitive identification of the sex of Pelteobagrus ussuriensis.

The invention belongs to the technical field of gene detection and gene molecular breeding, and particularly relates to a meat duck whole genome molecular probe combination based on molecular phenotype screening, a 50K gene chip and application thereof. The molecular probe combination and the gene chip of the marker site combination for meat duck whole genome breeding simultaneously cover 7 representative meat duck varieties and 71 economic characters, have richer polymorphism and higher pertinence in meat duck groups, and are lower in cost and higher in speed compared with high-throughput sequencing detection; the breeding chip is designed according to the growth, feed efficiency, slaughtering, breeding, egg quality and various molecular phenotypes of the meat ducks, and compared with a high-throughput sequencing technology, the breeding chip is higher in seed selection accuracy, has higher breeding value, can be widely applied to breeding genotype detection of the meat ducks, and can be used for detecting the breeding genotypes of the meat ducks. And the method has creative significance in the aspect of meat duck genome selective breeding.