19 results about "Bioinformatics software" patented technology

The invention discloses methanogen lyase homologous with a PeiR lyase sequence and application of the methanogen lyase, and aims to solve the problem that PeiR lyase protein of a methanogen cell wall peptide bond can participate in a biological process of hydrolyzing archaea cell walls, effectively kill methanogen and reduce methane production, and protein homologous with the PeiR lyase protein has potential methane reduction potential. According to the invention, a series of biological information software is utilized to identify protein sequences coded by methanogens virus from rumen microbiome sequencing data, and sequence homology between the proteins and PeiR protein is further analyzed to obtain a series of methanogens lyases. In order to realize the expression of the lyase, multiple segments of primers are designed to synthesize a target sequence, and the target sequence is successfully expressed in a prokaryotic expression system. Through the detection of crude enzyme liquid, the effectiveness of the lyase in the aspect of reducing the methane yield is verified in an in-vitro gas production test.

The invention discloses methanogen lyase homologous with high-dimensional characteristics of PeiW lyase and application of the methanogen lyase, and aims to solve the problem that PeiW lyase protein of methanogen cell wall peptide bonds can participate in the biological process of hydrolyzing archaea cell walls, effectively kill methanogen and reduce methane production, and protein homologous with the protein has potential methane reduction potential. According to the method, a series of bioinformatics software is utilized, a protein sequence coded by methanogens virus is identified from a large amount of rumen microorganism virus group sequencing data, the high-dimensional homology of a deep learning model between the protein sequence and PeiW is analyzed, and two methanogens lyases similar to the high-dimensional characteristics obtained by the PeiW model are obtained. In order to realize the expression of the lyase, multiple segments of primers are designed to synthesize a target sequence, and the target sequence is successfully expressed in a prokaryotic expression system. Through detection of a crude enzyme solution, the effectiveness of the lyase in the aspect of reducing the yield of methane is verified in an in-vitro gas production test.

The invention discloses methanogen lyase with the same protein family annotation as PeiR lyase and application of the methanogen lyase, and the methanogen lyase is obtained through homologous screening of Pfam protein family database annotation based on known PeiR lyase characteristics aiming at methanogen cell wall peptide bonds. The PeiR lyase protein can participate in the biological process of hydrolyzing archaea cell walls, methanogens are effectively killed, methane production is reduced, and the protein homologous with the protein has potential methane reduction potential. According to the invention, by integrating metagenome sequencing data of rumen microorganisms, screening methanogenic bacterium virus protein by using series bioinformatics software, and combining Pfam functional domain annotation to carry out homologous relationship analysis, a series of lyase is finally identified and is successfully expressed in a prokaryotic expression system, and meanwhile, an in-vitro gas production experiment result also shows that the methanogenic bacterium virus protein can be successfully expressed in a prokaryotic expression system. The crude enzyme liquid can significantly reduce the methane generation amount.

The invention relates to a vaccine for preventing and treating sheep echinococcosis infection and a preparation method thereof.The preparation method comprises the steps that echinococcosis Eg95 full-length gene antigen epitopes are screened through bioinformatics software, screened fragments with high antigenicity are optimized and then subjected to double-copy connection through a flexible linker, His tag sequences are added to the two ends of a tandem sequence, the sequence is as shown in SEQ ID NO.2, and the vaccine for preventing and treating sheep echinococcosis infection is obtained; and the pEE12.4-double Eg95 plasmid is connected with a CHO eukaryotic cell expression vector, so that the pEE12.4-double Eg95 plasmid is obtained. The plasmid is integrated into a CHO eukaryotic cell expression system, the expression quantity of the purified Eg95 protein reaches 10g / L, and a stable and high-yield veterinary vaccine is provided for large-scale production.

The invention provides an infectious bronchitis virus antigen epitope fusion peptide, and the prepared antigen epitope fusion peptide can be used for preparing an antibody and can also be used as a coating antigen for preparing an indirect ELISA detection product. The amino acid sequence of the provided epitope fusion peptide is SEQ ID NO: 4. After antigen epitope analysis is performed on S1 protein of an infectious bronchitis virus strain through bioinformatics software, a plurality of antigen epitopes are fused to obtain the antigen epitope fusion peptide. Specificity tests show that the prepared antigen epitope fusion peptide is a coating antigen, does not have cross reaction with positive serum of other common pathogens, and only has good reaction with positive serum of GI-19 type IBV, that is, the antigen epitope fusion peptide has good serotype specificity as a detection antigen, and has small cross reaction with non-GI-19 type IBV antibody.

This invention discloses methanogenic lyases with the same protein family annotation as PeiR lyases and their applications. These enzymes are obtained through homology screening based on the known characteristics of PeiR lyases targeting peptide bonds in the methanogenic cell wall, using the Pfam protein family database annotation. PeiR lyase proteins participate in the biological process of hydrolyzing archaea cell walls, effectively killing methanogens and reducing methane production. Proteins homologous to this protein have potential methane-reducing potential. This invention integrates rumen microbial metagenomic sequencing data, uses a series of bioinformatics software to screen methanogenic viral proteins, and combines Pfam functional domain annotation for homology analysis, ultimately identifying a series of lyases. These lyases were successfully expressed in a prokaryotic expression system, and in vitro gas production experiments also showed that the crude enzyme solution significantly reduced methane production.

This invention discloses a methanogenic lyase homologous to PeiR lyase and its applications. The PeiR lyase protein, targeting the peptide bonds of the methanogenic cell wall, participates in the biological process of hydrolyzing the archaea cell wall, effectively killing methanogens and reducing methane production. Proteins homologous to this lyase possess potential methane-reducing potential. This invention utilizes a series of bioinformatics software to identify protein sequences encoded by methanogenic viruses from a large amount of rumen microbial virome sequencing data, and analyzes the structural homology between these proteins and PeiR. Ultimately, this invention successfully obtained a series of methanogenic lyases homologous to PeiR. To achieve the expression of these lyases, this invention designed multiple primers to synthesize the target sequences and successfully expressed them in a prokaryotic expression system. In vitro gas production experiments with the crude enzyme solution showed that these lyases are effective in reducing methane production.

This invention provides a Slurm-based bioinformatics workflow management system. The module management subsystem stores bioinformatics software commands in a database according to a predetermined format, defining them as modules. These modules can be combined into new modules through serialization or network connections, enabling the rapid construction of complex workflows. The task submission system converts these modules into corresponding task scripts. These scripts are generated in a nested manner, consisting of a main job, sub-jobs, and the smallest job unit. The scripts conform to the Slurm job scheduling system specifications and include a progress report. This workflow management system, combined with front-end and back-end technologies, enables visual interaction, improves the management and utilization efficiency of bioinformatics software commands, and promotes the rapid development of life sciences.

The invention discloses methanogen lyase homologous with high-dimensional characteristics of PeiP lyase and application of the methanogen lyase, and aims to solve the problem that PeiP lyase protein of methanogen cell wall peptide bonds can participate in the biological process of hydrolyzing archaea cell walls, effectively kill methanogen and reduce methane production, and protein homologous with the protein has potential methane reduction potential. According to the method, a series of bioinformatics software is utilized, a protein sequence coded by methanogens virus is identified from a large amount of rumen microorganism virus group sequencing data, the high-dimensional homology of a deep learning model TM-Vec between the protein sequence and PeiP is analyzed, and the methanogens lyase homologous with the PeiP on the high-dimensional feature level of the model is obtained. According to the invention, multiple segments of primers are designed to synthesize a target sequence, the expression of the lyase is successfully realized in a prokaryotic expression system, and the effectiveness of the novel lyase in the aspect of reducing the yield of methane is verified in an in-vitro gas production test by detecting a crude enzyme solution.

The invention discloses methanogen lyase homologous with a PeiW lyase structure and application of the methanogen lyase homologous with the PeiW lyase structure, and the methanogen lyase is obtained by screening from rumen microbiome sequencing data through a structure comparison method based on known PeiW lyase characteristics aiming at methanogen cell wall peptide bonds. The PeiW lyase protein can participate in the biological process of hydrolyzing the cell wall of methanogens, the methanogens are effectively killed, methane generation is reduced, and the protein homologous with the protein structure has potential methane reduction potential. According to the invention, rumen metagenome data and virome data are integrated, potential protease is screened by using bioinformatics software, and a sequence homologous with a PeiW structure is identified to obtain two novel lyases. A target sequence is synthesized through multiple segments of primers and is expressed in a prokaryotic expression system, and meanwhile, a crude enzyme liquid in-vitro gas production test shows that the lyase can remarkably reduce the methane yield.

The invention provides a monoclonal antibody aiming at recombinant porcine relaxin, an ELISA (enzyme-linked immunosorbent assay) detection method and application of the monoclonal antibody in a kit for improving the quality and conception rate of frozen semen of pigs. The recombinant porcine relaxin protein is obtained after analysis and optimization by bioinformatics software, and the monoclonal antibody and the polyclonal antibody obtained by using the recombinant porcine relaxin protein as the antigen have the advantages of strong specificity, high binding force with the antigen and the like; and the established ELISA kit is higher in sensitivity during detection. According to the method disclosed by the invention, the relaxin in the seminal plasma is originally and quantitatively detected, the quality of the frozen seminal fluid can be more effectively improved, and various indexes are obviously improved.

The invention discloses a human haplogroup hierarchical tracking and macro haplogroup normalization method, and relates to the field of group genetics and bioinformatics software methods. Comprising the following steps: establishing an adjacency list data structure based on an authoritative phylogenetic tree; constructing a synonym normalization dictionary for processing the heterogeneity problem of haplogroup naming; a hierarchical path backtracking algorithm is realized, backtracking is performed from a target haplogroup node to a root node based on a depth-first search principle, a complete evolutionary path is generated, the hierarchical path backtracking algorithm comprises a path integrity verification mechanism, a broken path or a circular reference error is automatically detected and reported, and the biological rationality of the generated path is ensured; a path output interface is provided, and a positive-sequence path representation mode and a negative-sequence path representation mode are supported. The method has the advantages of being high in standardization degree, high in automation level, high in reproducibility, good in universality and good in user experience.

The present invention provides a monoclonal antibody targeting recombinant porcine relaxin, an ELISA detection method, and its use in a kit for improving the quality and conception rate of frozen porcine semen. The recombinant porcine relaxin protein, obtained through analysis and optimization using bioinformatics software, and the monoclonal and polyclonal antibodies generated using this as an antigen exhibit strong specificity and high antigen binding affinity. The resulting ELISA kit offers enhanced sensitivity. This invention uniquely quantitatively detects relaxin in seminal plasma, effectively improving post-freeze semen quality and significantly enhancing various indicators.

The present invention discloses a multi-sample automated analysis method, system and equipment based on nanopore sequencing, and relates to the field of automated analysis of bioinformatics. First, a task parameter file is configured according to the sample type of multiple samples, including a folder monitoring parameter, a result storage path parameter and a script library parameter; when executing a sequencing task, the task parameter file is read and parsed, and when new sequencing data is monitored, its barcode number is identified and the folder where the sequencing data is located, the file name and the analysis process parameters to be executed are integrated into an analysis task; bioinformatics software and analysis process script files are called, and analysis tasks are executed in parallel, and the analysis results and logs of the analysis tasks are stored; after all analysis tasks are completed, the analysis results are merged in units of barcode numbers. The present invention can effectively avoid analysis errors caused by manually setting analysis parameters, shorten task analysis time, and improve analysis efficiency.

The invention discloses methanogen lyase homologous with a PeiR lyase structure and application of the methanogen lyase and aims to solve the problems that PeiR lyase protein of methanogen cell wall peptide bonds can participate in the biological process of hydrolyzing archaea cell walls, methanogen is effectively killed, methane production is reduced, and protein homologous with the protein has potential methane reduction potential. According to the invention, a series of bioinformatics software is utilized to identify the protein sequence coded by methanogens virus from a large amount of rumen microorganism virus group sequencing data, and the structural homology between the protein and PeiR is analyzed on the basis. Finally, the invention successfully obtains a series of methanogen lyase homologous with the PeiR structure. In order to realize the expression of the lyase, multiple segments of primers are designed to synthesize a target sequence, and the target sequence is successfully expressed in a prokaryotic expression system. An in-vitro gas production test of a crude enzyme solution shows that the lyase is effective in the aspect of reducing the yield of methane.

The invention provides a lipase mutant, a lipase mutant gene, a recombinant expression unit, a recombinant plasmid, a mutation method and application, and relates to the technical field of gene engineering. According to the invention, computer-aided design is combined with various bioinformatics software to predict potential mutation sites capable of improving thermal stability, meanwhile, a multi-amino acid residue combined mutant is constructed, enzyme molecule modification is carried out by utilizing site-directed mutagenesis, and finally, the lipase mutant with good thermal stability is obtained.

The present invention relates to the field of medicinal chemistry and relates to a small molecule peptide with anti-cancer activity and its application. By analyzing the non-ribosomal peptide synthetase (NRPS) sequence of a Rhodococcus erythropolis strain using bioinformatics software, the possible molecular backbone of the non-ribosomal peptide synthesized by this NRPS was predicted, and a series of small molecule peptides were obtained through chemical synthesis. After activity testing, one of the small molecule peptides was screened out to have a relatively obvious inhibitory effect on the cancer cell line HT29, and it has the value for the development of new anti-cancer drugs.

The invention relates to a wormwood karyotype probe and a use method, 11 wormwood karyotype probes are analyzed and designed through bioinformatics software by taking a wormwood genome published on NCBI as a reference, and the probes can generate clear chromosome signals on wormwood chromosomes. The method comprises the following steps: setting 11 karyotype probes into two probe sleeves Multiplex # 1 and Multiplex # 2, preparing a probe staining solution, staining chromosome flakes at the early stage of root tip cell mitosis of Chinese mugwort and Artemisia vulgaris, and finding that rich chromosome banding patterns are generated on Chinese mugwort chromosomes. According to the invention, chromosome high-definition karyotypes of Chinese mugwort and Artemisia vulgaris are constructed for the first time, and it is proved that Maillari variotii has 17 pairs of special heterologous chromosomes. The karyotype probe disclosed by the invention can be used for analyzing karyotype construction of chromosomes of different wormwood varieties and pairing behaviors of chromosomes in a meiosis I-stage final change period, and a new method and a theoretical basis are provided for research on wormwood chromosomes.

The present invention provides an antigenic epitope fusion peptide of infectious bronchitis virus of chickens. The prepared antigenic epitope fusion peptide can be used to prepare antibodies, and can also be used as a coating antigen to prepare indirect ELISA detection products. The provided antigenic epitope fusion peptide has an amino acid sequence of SEQ ID NO:4. After the present invention performs antigenic epitope analysis on the S1 protein of the infectious bronchitis virus strain by bioinformatics software, multiple antigenic epitopes are fused to obtain the antigenic epitope fusion peptide. Specificity tests show that the antigenic epitope fusion peptide prepared by the present invention is a coating antigen and does not cross-react with positive sera of other common pathogens, but only reacts well with positive sera of GI-19 type IBV, that is, it has good serotype specificity as a detection antigen, and has little cross-reaction with non-GI-19 type IBV antibodies.