37 results about "Genome alignment" patented technology

The invention discloses a method for data analysis of miRNA in animals with reference data based on a miRBase database. The method is characterized by comprising the following steps of preparation, filtration of logout data, genome alignment, small RNA annotation, miRNA feature analysis, miRNA expression quantity analysis, miRNA function and pathway analyses, and result sorting. The method disclosed by the invention has the beneficial effects that an analysis result is complete, and comprises involved miRNA analysis content and other detected small RNA information annotation, automated analysis is achieved, and statistics and sorting of all analysis content and results can be automatically and rapidly conducted only by providing related database information. All operation steps are visible, and thus errors can be conveniently checked, applied command lines and parameters and log results generated in operation can all be recorded when analysis is conducted step by step, and once a program fails during running, the errors can be rapidly queried.

A method (100) for analyzing a target genome, comprising: (i) aligning (120) sequencing data from the target genome to a reference genome; (ii) identifying (130) heterozygous locations, comprising an identification of allele variants and a frequency of each allele, the allele variants comprising both a reference allele variant and a non-reference allele variant; (iii) generating (140) an alternate reference genome, wherein the identified non-reference allele variant for the identified heterozygous locations replaces the reference allele variant in the reference genome; (iv) aligning (150) sequencing data to the alternate reference genome; (v) identifying (160) a frequency of the allele variants at each of the heterozygous locations; (vi) assessing (170) alignment bias at the identified heterozygous locations, comprising comparing the frequency of allele variants from the reference genome alignment to the frequency of allele variants from the alternate genome alignment; and (vii) generating (190) a report comprising the assessment of alignment bias.

The invention discloses a genomic-data storage method. The genomic-data storage method includes the steps that in the genome comparison process, gene-sequence comparison information is obtained, and gene-sequence statistical information is established; the gene-sequence comparison information is stored in a magnetic disk, and according to comparison positions of the gene-sequence comparison information in a genome, corresponding indexes are stored in a memory, wherein the indexes are storage positions of the gene-sequence comparison information in the magnetic disk; genome statistical information is classified, and first statistical information and second statistical information are obtained; the first statistical information is stored in the memory, wherein the first statistical information is statistical information with the access frequency higher than the preset frequency in the variation detection process; the second statistical information is stored in the magnetic disk, wherein the second statistical information is statistical information which cannot be stored in the memory and / or statistical information with the access frequency lower than the preset frequency in the variation detection process. The invention also discloses an electronic device with the genomic-data storage method.

The invention discloses the specific gene sequence of fruit anthracnose bacteria and its application. The present invention obtains the specific gene sequence of the fruit anthracnose bacteria based on the whole genome comparison of the fruit anthracnose bacteria and its close relatives, further uses the specific gene sequence to design PCR amplification primers to detect the fruit anthracnose bacteria, and develops related reagents box. The invention can specifically detect C. fructicola, and distinguish it from closely related species such as C. aenigma, C. siamense, and C. musae ; Has the advantages of fast, simple and accurate.

The invention discloses a kit for detecting a sudden cardiac death-related SNP on the SCN5A gene related to sudden cardiac death and a detection method thereof, specifically comprising the following steps: 1. Using DNA extracted from a sample as a template to prepare Multiplex PCR and its detection method Purification treatment; 2. SNaPshot single base extension reaction (SBE) and its purification treatment; 3. Capillary electrophoresis of SNaPshot single base extension product and its result analysis; 4. Sensitivity detection. The invention can detect 45 sudden cardiac death (SCD) related SNPs on the SCN5A gene at one time, and obtain clear conclusions. This method no longer utilizes first-generation sequencing and next-generation sequencing technologies for comparison of the whole genome. There is no need for special instruments and methods to screen for genetic background related to sudden cardiac death.

The invention discloses a sequencing data processing method and device. Among them, the method includes: splitting the three-generation sequencing data to obtain at least one sub-sequencing data; comparing any sub-sequencing data to the corresponding reference genome to obtain the comparison result corresponding to any sub-sequencing data; For the result, get the merged result. The invention solves the technical problem that a large amount of resources and time are needed to complete the comparison of the genome in the process of genome assembly in the prior art, resulting in slow comparison speed and low efficiency.