5 results about "Phylogenetic tree" patented technology

This invention belongs to the field of infectious disease prevention technology, specifically relating to a method for visualizing infectious disease virus fields based on spatiotemporal trajectory data. The method includes: collecting multi-dimensional data related to infectious diseases, including spatiotemporal trajectory correlation data, virus detection data, and patient-related data (based on data from children with diarrhea at Tianjin Children's Hospital from July 2020 to August 2023); cleaning, standardizing, coding, and statistically analyzing the data; constructing a spatiotemporal distribution field, a genotype distribution field, and a risk correlation field based on a spatiotemporal axis; and visually presenting the data using a combination of various charts such as bar charts, line charts, statistical tables, and phylogenetic trees, combined with an interactive interface. This method integrates multi-source data to accurately display the spatiotemporal epidemic characteristics of infectious diseases, the evolutionary patterns of viral genotype distribution, and the correlation between genotypes and patient characteristics. All results are based on measured data, providing scientific support for infectious disease prevention, control, and treatment, and improving the efficiency and accuracy of data application.

The application discloses a coxsackievirus A16 gene subtype detection kit, which comprises three groups of primer probe combinations and can be used for simultaneously detecting three different gene subtypes (B1a, B1b and B1c) of coxsackievirus A16. Compared with a traditional gene sequencing and phylogenetic tree analysis method, the kit has high throughput, high specificity and high sensitivity in detection of coxsackievirus A16 genotype, and can be used for enterovirus monitoring and prevention of potential extensive infection and disease burden of coxsackievirus A16.

The application discloses a method and device for identifying orthologous gene groups in a pan-genetic family, and belongs to the field of bioinformatics. The method first acquires a phylogenetic tree, a sequence set and a target species number of genes to be grouped, and calculates a similarity matrix of gene pairs; then, a data-driven 5th percentile (P5) is used to automatically infer a split threshold, and an initial gene grouping is performed in combination with the topological structure of the phylogenetic tree; subsequently, a post-processing pipeline including isolated leaf node redistribution, micro-group topological absorption, adjacent group merging and super-large gene group targeted re-splitting is executed; finally, based on a multi-dimensional quality score function and Latin hypercube sampling, parameter optimization iteration is performed, and the best orthologous gene group (OGG) is output. The application breaks the limitation of traditional clustering which only depends on sequence similarity, effectively eliminates over-merging, fragmentation and multi-lineage genome errors, significantly improves the accuracy and evolutionary rationality of gene grouping of complex polyploid species, and has important significance for dividing core and non-core genes in pan-genome analysis. The specific flowchart is shown in FIG. 1.

The present invention discloses a primer combination for KASP markers used in the identification of Elymus sibiricus germplasm resources and application thereof, belonging to the technical field of the biotechnology. The primer is designed to amplify 31 SNP sites. Nucleotide sequences of KASP-SNP primers are provided sequentially as SEQ ID NOs: 1-93. Using the primer, the genetic distance matrix and phylogenetic tree of Elymus sibiricus germplasm can be constructed to determine genetic relationships among individuals. It can be applied to screen materials required for the Elymus sibiricus research and utilization, such as core germplasm construction, breeding population screening and genetic diversity studies, etc. The method provided by present invention offers advantages of high throughput, high accuracy, low cost, simplicity of operation and savings in manpower and material resources, and thus has broad application prospects.

This invention relates to an auxiliary diagnostic method, system, device, and medium based on oral pathology images. The method includes: processing multiple oral pathology images of a patient to generate a structured data pool containing all lesion features and spatial information; quantifying the morphological distance between lesions based on a feature matrix and inferring their clonal evolutionary relationships to construct a phylogenetic tree; fusing the phylogenetic tree, spatial location, and morphological distance for correlation analysis to generate an interpretation report; extracting multidimensional risk factors and fusing them into a risk factor set; calculating a comprehensive recurrence risk index through a risk prediction model, and combining the aforementioned analysis results to generate a structured diagnostic report for assessing tumor biological behavior and assisting in the development of follow-up plans. This method overcomes the limitations of existing technologies that can only analyze multicentric lesions in isolation and cannot automatically correlate and interpret or integrate prognostic predictions, achieving a systematic, quantitative correlation analysis of multiple oral cancer lesions and a comprehensive assessment of recurrence risk.