36 results about "Genetic similarity" patented technology

Methods and devices for clustering a plurality of sub-networks of a larger interaction network using an enhanced hierarchical clustering algorithm are disclosed. The methods provide expression based sub-network generation using differentially expressed markers. The enhanced hierarchical clustering algorithm clusters the generated sub-networks based on a user defined customizable similarity coefficient. The methods use non-Boolean links to cluster similar sub-networks. This provides consideration of indirect relationships among sub-networks. The customizable similarity coefficient enables the methods to be used for diverse applications such as biomarker detection, patient stratification, personalized therapy, drug efficacy prediction, genetic similarity analysis in genetic diseases. The methods enable patient grouping based on the enhanced hierarchical clustering algorithm.

The invention provides a new method for estimating the composition of aquatic animal genome species based on the ADMIXTURE-MCP model, which belongs to the field of aquatic animal species composition. The method includes the steps of: obtaining unknown species aquatic animal genome SNP marker data; screening reference aquatic animals; Animal Genome Variety Composition. Aiming at the problem that the previous ADMIXTURE model generates small components for similar gene sequences of different species of scallops, the present invention uses a sparse optimization method to generate a sparse solution to reduce the estimated GBC noise generated by the genetic similarity of the traditional model. We found that the sparse solution produced by the traditional L1 norm constrained model is unstable. Although the problem of small components of ADMIXTURE can be reduced, the estimated GBC composition often deviates greatly from the real GBC composition. In order to overcome the defect that the traditional algorithm uses the L1 norm constraint to cause serious GBC estimation deviation, the present invention proposes to use the non-convex function MCP constraint to replace the L1 norm constraint, which can reduce the GBC noise and produce a closer unbiased estimate GBC result.

The invention discloses a calculation method of genetic similarity index of codominance molecular marker based on relative correlation coefficient. The technical scheme is as follows: obtaining an electrophoresis pattern of each variety or kind of plant by adopting the current codominance molecular marker method; comparing in pairs according to the amplification strip information of the variety or kind of the plant; respectively calculating a genetic similarity index between each two plant varieties and kinds according to a calculation formula of the genetic similarity index; and taking the genetic similarity index as the estimation of the corresponding relative extent of the individuals. The calculation method of genetic similarity index is applied to the codominance molecular marker. The calculation method of the obtained genetic similarity index can effectively respond the relative relationship extent among the colonies based on the relative correlation coefficient.

The invention provides PCR (polymerase chain reaction) primers, method and kit for analyzing genetic diversity in gramineous plants. According to the technical scheme provided herein, 3 DNA templates different in character are picked from 13 DNA parts, 21 pairs of primers with clear polymorphic bands are screened out of 100 pairs of primers, the 21 pairs of primers are used to mark the 13 DNA parts, electrophoresis, imaging, photographing and data statistics are performed, UPGMA (unweighted pair-group method with arithmetic means) cluster analysis is performed on genetic similarity and genetic distances of the plants, and diversity analysis and interspecific relation research are performed. The research indicates that gramineous plant germplasm resources show rich genetic diversity; the genetic groups of these materials have no great relationship with geographic origin and geographic environment; SRAP (sequence-related amplified molecular polymorphism) marker is a molecular marker suitable for the research on gramineous plant germplasm resources.

The invention relates to the method for identifying the varieties of lilium brownii by adopting an SSR (simple sequence repeat) molecular marking technology. A result shows that: two pairs of high-polymorphism and high-repeatability primers are screened from 13 pairs of primers for detecting 171 fragments comprising 131 polymorphic fragments, 4 to 22 fragments can be detected by each pair of primers with the sizes of 100 to 250bp, 1.69 bands are amplified by each pair of primers, and the polymorphism rate is 76.70 percent; NTSYS-pc2.11 is used for similarity coefficient and cluster analysis, the genetic similarity coefficient is 0.5882 to 09412, and the average similarity coefficient is 0.7647; materials are divided into six major classes by cluster analysis, the genetic differences between 11 lilium brownii germplasms are irrelevant to varietal characteristics, flower forms, the colors of filaments and styluses, but have certain correlation with the colors of petals, flower genes can better reflect genetic relationships between the lilium brownii germplasms, different varieties have different colors, and the primers can be designed by controlling related genes of flowers to provide an important means for further distinguishing the genetic relationships.