5 results about "Third generation sequencing" patented technology

The invention provides a method for rapidly detecting microbial species, and particularly, the method comprises the following steps: constructing a double-level database and a corresponding gene cluster; constructing a reference matrix X based on the database and the gene cluster; comparing to-be-detected third-generation sequencing data with the gene cluster to generate equivalence classes, and constructing a counting matrix Y based on the equivalence classes and the gene cluster; based on the counting matrix Y and the reference matrix X, determining the gene abundance in the to-be-detected sample; and determining microbial species in the sample to be detected based on the gene abundance. The rapid pathogen detection method provided by the invention is high in analysis speed, fully utilizes the advantages of the three-generation sequencing data, and can more directly obtain the microorganism composition information of the sample; the method is low in computing resource demand, easy to deploy and high in precision detection capability.

The application discloses a kind of based on third-generation sequencing genome short variation deep learning detection method and system, by setting the image coding mode of genome sequence generated to third-generation sequencing platform, and according to real variation set and corresponding sequence alignment data establish training set, verification set and test set;Convolutional neural network and the deep learning multi-task classifier integrated by bidirectional long short-term memory neural network is constructed, training set and verification set are used to train and verify deep learning classifier, and the accuracy of deep learning classifier is tested using test set;Based on the deep learning classifier trained, the classification prediction of the stacked image generated by sequence alignment or real variation set is carried out;According to the classification prediction result of stacked image, variation site detection is carried out to sequence alignment data, and complete candidate variation information is obtained, to realize the automatic detection of genome SNP and INDEL short variation.

The application discloses a method and device for short tandem repeat sequence typing based on third-generation sequencing data and a storage medium. The method for short tandem repeat sequence typing based on third-generation sequencing data provided by the application first extracts all read segments completely covering the short tandem repeat sequence region according to a short tandem repeat sequence site directory; and filters the read segments by average alignment quality to remove low-quality read segments; then calculates the copy number of the short tandem repeat sequence in each read segment, and combines mutation site information of the short tandem repeat sequence to confirm short tandem repeat sequence typing. The method provided by the application can accurately calculate the repetition number of the short tandem repeat sequence, and combines the mutation site to determine the short tandem repeat sequence typing, so that more accurate genotyping results can be provided. Moreover, the method provided by the application is suitable for third-generation sequencing data of different sequencing platforms, has strong applicability, and can maximize the advantages of the third-generation sequencing read length.

The invention discloses a splicing type library building method based on complementary tail sequence annealing and collaborative extension connection reaction. Dividing a nucleic acid library to be detected into two parts, and respectively adding complementary tail sequences to obtain two parts of reaction products; mixing the two reaction products after the complementation of the tail sequence, performing denaturation cooling treatment, performing specific annealing on the complementation tail sequence to form an inter-fragment bridging structure, and performing annealing-extension-connection in the solution after the reaction to form a continuous controller long-chain molecule so as to obtain a double-chain product; the method comprises the following steps: adding a primer with end repair, adding polymerase, ligase and a nucleotide substrate at the same time, carrying out annealing treatment to obtain a preliminary library, and finally carrying out magnetic bead purification treatment and linker connection to obtain a final spliced library. According to the method, the problems of limited read length and low hole utilization rate in the construction of the third-generation sequencing library are solved, the average read length and the sequencing hole utilization rate are remarkably improved, the library construction process is simplified, and the cost is reduced.

The application relates to the field of information technology and discloses a method for automatically analyzing and typing HLA based on third-generation sequencing; first, the HLA types of first sequencing read data of different data types of a to-be-tested sample are preliminarily judged, then second sequencing read data is selected, then the identified second sequencing read data of different HLA types is compared with corresponding HLA reference sequences for verification and screening, so that the HLA types existing in the to-be-tested sample are determined; the method can effectively process long read length data generated based on third-generation sequencing technology, reduces the calculation amount of accurate comparison, can realize accurate analysis and report generation of typical third-generation HLA data within 15 minutes, and meets the demand of rapid HLA detection and analysis; meanwhile, the method can also analyze short read length data obtained by second-generation sequencing, and has good data compatibility.