127 results about "Genotype Analysis" patented technology

Methods and apparatus are provided for analysis and correlation of phenotypic and genotypic information for a high throughput sample on a cell by cell basis. Cells are isolated and sequentially analyzed for phenotypic information and genotypic information which is then correlated. Methods for correlating the phenotype-genotype information of a sample population can be performed on a continuous flow sample within a microfluidic channel network or alternatively on a sample preloaded into a nano-well array chip. The methods for performing the phenotype-genotype analysis and correlation are scalable for samples numbering in the hundreds of cells to thousands of cells up to the tens and hundreds of thousand cells.

The invention provides methods and kits for detecting and/or quantifying nucleic acid sequences of interest by using pairs of probes containing donor-acceptor moieties that when hybridized on a target polynucleotide, with one of the probes being hybridized to a sequence of interest in the target polynucleotide, places the donor-acceptor moieties in sufficiently close proximity such that a detectable signal is generated. Methods of the invention are particularly useful for genotyping analysis and gene expression profiling. Methods of the invention are easily adaptable to arrays and automation. The invention also provides probes with enhanced hybridization efficiency and/or specificity comprising a probe portion having a spacer element and/or a minor groove binder molecule, and methods and kits for using these probes.

The invention relates to the technical field of gene knockout, and particularly discloses a method for breeding a tcf25 gene deletion type zebra fish through gene knockout. The method comprises the steps of through a CRISPR/Cas9 gene editing technology, designing an appropriate targeting gene locus on a tcf25 gene of the zebra fish, synthesizing in vitro to obtain specific sgRNA and Cas9-mRNA, microinjecting into a cell of the zebra fish, and after culturing an embryo for 60h, selecting the embryo for carrying out genotyping, so that the effectiveness of the selected locus is verified. The method provided by the invention is lower in off-target rate, removes the tcf25 gene through interference, is beneficial to further revealing the whole process of cardiac morphogenesis and a molecular mechanism regulating the process through researching functions through a genetics means, and is of great importance on understanding a cardiac disease pathology and researching and developing a new therapeutic schedule medically.

A system and methods are provided for melting curve genotyping analysis of nucleic acids. Melting curves are generated by plotting fluorescence of a sample as a function of temperature. In one illustrative example, an exponential algorithm is employed to remove the background from generated melting curves and thereby perform comparative analysis to other melting curves. Additional illustrative examples provide for measuring the differences between two or more melting curves and clustering the genotypes of the provided sample nucleic acids.

The invention relates to magnetic fluorescent microspheres and a preparation method thereof. The particle size of the magnetic fluorescent microspheres is 5-10 mu m, the fluorescence excitation wavelength range is 400-700nm, and the fluorescence intensity is not reduced within 24h. The prepration method comprises the following steps: adding a swelling agent into monodisperse carboxylated polystyrene microspheres, and adding magnetic nano microparticles into a swelling system; shaking on a decolorization shaker for 12-48h; using mixed solution of cyclohexane and ethanol for cleaning sediment, and sequentially carrying out ultrasonic dispersion and centrifugal separation till supernatant liquid is colorless under an ultraviolet lamp; and saving a final sediment product in 1ml of liquor. Compared with the existing magnetic fluorescent microspheres, the magnetic fluorescent microspheres have the advantages of uniform and controllable diameter, good fluorescence stability, simple preparation process, multiple types of fluorescence codes and the like, and can not only carry out fast separation and purification on reactants by being applied in the biological macromolecular detection, but also simultaneously detect a plurality of target molecules in a sample to be detected in a reaction tube and a hole, thereby being widely applied in the fields of immunoassay, nucleic acid hybridization, genotype analysis and the like.

The invention designs two pieces of Taqman mutant type and wild type probe and a pair of primer. Using Taqman probe method of real time fluorescence quantitation carries out genotype analysis for A1555G mutation of deaf gene of maternal inheritance mitochondria so as to diagnose genetic deaf disease of maternal mitochondria. The method is suitable to large-scale screening or preventative inspecting A1555G mutation of deaf mitochondria gene of maternal inheritance. Features are: simple, time saving, high specificity, high sensitivity, intuitive tested result, accurate and reliable.

In arrays and other high density analysis platforms variabilities between data points and/or data sets may arise for a number of reasons. Disclosed are methods for addressing these variabilities and generating correction factors that may be used in conforming the data to expected or desired distributions. The methods may be adapted to operate with existing data analysis approaches and software applications to improve downstream analysis.

A method of combinatorial multimodal optimization uses a genetic algorithm to find simultaneous global optimal solutions to combinatorial problems. Each individual within the population is associated not only with a fitness value but with a fitness vector, using which the persistence of all of the best individuals into the next generation can be guaranteed. Phenotype as well as genotype analysis is an integral part of the method.

Methods, systems and computer software products are provided for determining genotype of a sample using a plurality of probes. In one preferred embodiment, a tentative genotype call is made based upon the relative allele signals. Pattern recognition is then used to validate the tentative call.

The invention discloses a novel genotype analysis method based on multimodal brain images. With utilization of information, including a structural image and a functional image, of two kinds of modes, regression on the rs429358 locus genotype linked to the Alzheimer's disease closely is realized. The method comprises: extracting voxel features from a brain structure images and extracting connecting network features from a brain function image; carrying out feature extraction on the two kinds of features by using an elastic network and keeping brain area and network connection with a high association degree; and then carrying out fusion and genotype regression on selected nodes and side attributes by using a multi-kernel support vector. The method has the following advantages: for the brain image with the complicated structure and functions and genotype data, a novel regression analysis method for a single locus genotype based on structural and functional multimodal brain images is put forward; the analysis effect is good; and complementary information of the two modes is utilized fully.

The invention relates to modified ear tags comprising a mandrel-type plate (10), a counter plate (11), in addition to a container for receiving a sample (1) and a means for obtaining the sample (4). The means for obtaining the sample (4) has a detachable hollow tip and the counter-plate (11) has no through opening for the mandrel. The invention relates more particularly to the use of the ear tags for genotypical analysis of animal populations and to a method for analyzing animal populations with the ear tags.

The invention discloses molecular markers closely linked with multiple-effect major QTL of the grain weight or silique length of rape, and application thereof. The closely-linked molecular markers canbe used for molecular marker-assisted selection of rape and map-based cloning of the QTL. According to the invention, a hybrid F1 and parents are subjected to continuous backcrosses for multiple generations, and a hybrid near-isogenic line is constructed by cooperatively using a molecular marker-assisted selection method; individual plants with high background reversion rate are subjected to selfing so as to obtain a QTL-NIL segregation population; molecular markers are gradually encrypted in a target region so as to realize genotype analysis of the population and searching of crossover individual plants; and thus, the molecular markers BrSF7-101 and BrSF6-2389 are obtained, and the physical distance between the two molecular markers is only 134 kb. The two closely-linked molecular markers are used for genetic typing of linked populations, and it is found that two alleles are greatly different in grain weight and silique length; and thus, the molecular markers can be applied to molecular marker-assisted selection of rape, improve selection efficiency and accelerate breeding progress.

The invention relates to a method for evaluating the inheritance effect of SNP (Single Nucleotide Polymorphism) sites to traits. The method comprises the following steps of: (1) obtaining gene fragments related to traits to be analyzed, and determining SNP sites related to the traits and genotypes of the SNP sites; and (2) analyzing the relevance between the SNP sites and the traits, wherein the specific calculation method is as follows: when the number of the SNP sites is one, the relevance between the SNP site and the traits is the direct influence of the SNP site, and when the number of the SNP sites is more than two, the relevance between the i-th SNP site and the traits is the sum of the direct influence and all indirect influence of the i-th SNP site. The method has the advantages that the problem in the prior art that blanks exist in the screening and evaluating of the inheritance effect of the SNP sites to the traits is solved; the method is simple, convenient and feasible, is high in accuracy and high in analyzing speed, so that many complicated tests are not needed; and the method is time-saving and labor-saving.

The present invention discloses a cucumber variety identification method based on single nucleotide polymorphism markers, wherein 12 single nucleotide polymorphism markers of cucumber are subjected to genotyping analysis by using a pyrosequencing technology so as to achieve authenticity identification on the cucumber variety. With the detection method of the present invention, the cucumber variety authenticity identification can be completed within 5 h, and characteristics of stability, high-throughput, accuracy and the like are provided.

The present invention relates to methods and systems for the analysis of the dissociation behavior of nucleic acids. The present invention includes methods and systems for analyzing dynamic profiles of genotypes of nucleic acids, including the steps of using a computer, including a processor and a memory, to convert dynamic profiles of known genotypes of a nucleic acid to multi-dimensional data points, wherein the dynamic profiles each comprise measurements of a signal representing a physical change of a nucleic acid containing the known genotype relative to an independent variable; using the computer to reduce the multi-dimensional data points into reduced-dimensional data points; and generating a plot of the reduced-dimensional data points for each genotype. The present invention also relates to methods and systems for calculating error statistics for an assay for identifying a genotype in a biological sample using an enhanced Monte Carlo simulation method to generate a set of N random data points for each known genotype within a class of known genotypes, where each set of N random data points has the same mean data point and covariance matrix as a data set for each of the known genotypes.

The invention provides a kit for detecting porcine circovirus type-2 (PCV-2) and subtypes thereof, belonging to the field of biological detection and solving the technical problems of complex process and long period of a method for detecting the PCV-2 and the subtypes thereof. The kit internally comprises fluorescent PCR (Polymerase Chain Reaction) reaction liquid, a TaqMan specific probe a and a TaqMan specific probe b, wherein the fluorescent PCR reaction liquid contains specific primers, the sequence of the upstream primers is as shown in SEQIDNO: 3, and the sequence of the downstream primers is as shown in SEQIDNO: 4; the TaqMan specific probe a aims at a PCV-2a (Porcine Circovirus-2a); and the TaqMan specific probe b aims at a PCV-2b (Porcine Circovirus-2b). The invention also provides a method for detecting the PCV-2 and the subtypes thereof by adopting the kit. The bifluorescence PCR detection kit can fast and accurately detect the PCV-2 and also identify the subtypes of the PCV-2 and is suitable for the fast diagnosis of the PCV-2, epidemiological survey, risk assessment and genotyping analysis.

Methods, systems and computer software products are provided for determining genotype of a sample using a plurality of probes. In one preferred embodiment, a tentative genotype call is made based upon the relative allele signals. Pattern recognition is then used to validate the tentative call.

The invention discloses a method for screening candidate bacterial strains from fish streptococcus agalactiae vaccines. The method comprises the steps: separation and breed conservation of tilapia streptococcicosis agalactiae epidemic strains, identification of the epidemic strains and the establishing of a pathogenic library, PFGE genotype analysis of epidemic strains, toxicity determination of PFGE genotype representative strains, and immunogenicity and protection domain test of the PFGE genotype representative strains so as to obtain a candidate bacterial strains combination of a tilapia streptococcicosis agalactiae immunoprophylaxis vaccine in China. The technology has the characterizes of strong pertinence, high screening efficiency, remarkable effect and the like, and the screen candidate bacterial strains combination of the tilapia streptococcosis agalactiae immunoprophylaxis vaccine in China can protect 90% of genotypes and 96.47% of epidemic strains in the pathogenic library. The technology provides a new method for screening the candidate bacterial strains from the fish streptococcus agalactiae vaccines, is suitable for screening the candidate bacterial strains from the fish streptococcus agalactiae vaccines, and has significance and using value in immune prevention and control on fish streptococcicosis.

The invention relates to the technical field of gene knockout, in particular, the invention discloses a gene knockout breeding method for tnni3k gene deletion zebrafish, which adopts CRISPR/Cas9 geneediting technology to design a suitable target site on the tnni3k gene of zebrafish, and synthesizes specific gRNA and Cas9-protein was co-injected into zebrafish cells. After 48 hours of embryo culture, the embryos were selected for genotypic analysis, which confirmed the validity of the selected sites. The invention can more efficiently and more accurately silence a specific gene in the genome of an organism, and has the advantages of simple production, low cost, and can simultaneously cut a plurality of loci on a target gene and silence any number of single genes. At that same time, zebrafish embryo interfered with the tnni3k gene appear obvious developmental abnormalities.

The invention relates to a detection method and a kit for coronary heart disease susceptibility loci. The method comprises the following steps: (1) extracting a genome deoxyribonucleic acid (DNA) of a sample, and amplifying a region containing rs1801133 loci in a methylene tetrahydrofolate reductase (MTHFR) gene exon of the sample, so as to obtain an amplification product; (2) detecting the genetype of single nucleotide polymorphism (SNP) loci rs1801133 in the amplification product by using a high resolution melting (HRM) analysis technology. The genetype analysis is carried out on the region containing the rs1801133 loci in the amplified MTHFR gene by adopting the HRM analysis technology. The method is simple and quick to operate, low in use cost and accurate in result, and can achieve batch inspection; whether the tested people carry with coronary heart disease susceptibility genes can be clearly judged by using the kit, the coronary heart disease susceptibility people can be screened out from people, the poor living habit is improved, and the target of prevention is achieved.

The invention relates to a plasmodium falciparum drug resistance related gene multiple PCR amplification method, wherein, plasmodium falciparum genome DNA is adopted as template; a multiple PCR primer set designed by the invention is adopted for monotube PCR reaction to realize amplification of five specific gene (plasmodium falciparum chloroquine resistance transport protein gene Pfcrt, plasmodium falciparum multidrug-resistance gene Pfmdrl, plasmodium falciparum dihydropteroic synthetase gene Pfdhps, plasmodium falciparum dihyrofolate reductase gene Pfdhfr and plasmodium falciparum adenosine triphosphatase Sixth subunit gene PfATPase6) target sequences; moreover, the amplification product covers the currently known 21 plasmodium falciparum drug-resistance related SNP sites. With fewer operational procedures, the invention is quick and convenient and saves cost; moreover, the invention which is particularly suitable for high-throughput genotype analysis is sure to accelerate the wide application of plasmodium falciparum resistance related SNP in field monitoring.

The invention relates to a single nucleotide polymorphism sequence of a dairy cattle FGF2 (Fibroblast Growth Factor 2) gene and a detection method of the single nucleotide polymorphism sequence, belonging to the technical field of genetic engineering. The single nucleotide polymorphism sequence of the dairy cattle FGF2 gene comprises a single nucleotide polymorphism sequence of which the 11646th site of a first intron of the dairy cattle FGF2 gene is A or G. The detection method comprises the following steps of: with dairy cattle genome DNA as a template and a primer pair P as a primer, carrying out PCR (Polymerase Chain Reaction) amplification on the dairy cattle FGF2 gene; and sequencing a purified PCR product to determine that the single nucleotide polymorphism 11646th site of the dairy cattle FGF2 is A or G. According to the single nucleotide polymorphism sequence, the SNP (Single nucleotide Polymorphism) site of the dairy cattle FGF2 gene is related to butterfat production, butterfat percentage, somatic cell count and reproductive capacity; and found through genotyping an externally-fertilized embryo, the SNP site is related to the embryo survival rate; and through association analysis study on FGF2 genetic polymorphism and character, the SNP site can be used for dairy cattle molecular mark assisted breeding and increase of the externally-fertilized embryo survival rate.