14 results about "Genomic databases" patented technology

The invention discloses lysozyme, antibacterial peptide derived from the lysozyme and application of the lysozyme in preparation of antibacterial drugs. According to the invention, 1, 640 protein sequences recorded in a ruminant rumen caterpillars genome database are systematically predicted based on a lysozyme prediction model, and finally, the lysozyme with the amino acid sequence as shown in SEQ ID No.1 is relatively strong in antibacterial activity and stable in antibacterial activity, and is slightly influenced by environmental factors. According to the invention, an antibacterial peptide region of the lysozyme is analyzed and determined, three peptide fragments with clear antibacterial activity are identified, and the amino acid sequences of the peptide fragments are respectively shown as SEQ ID No.2, SEQ ID No.3 or SEQ ID No.4. The antibacterial peptide provided by the invention has relatively strong membrane destroying ability and broad-spectrum antibacterial activity, and compared with integral protein, the antibacterial peptide is simpler in structure and more flexible in synthesis and modification, and is easier to break through a bacterial drug-resistant mechanism.

The invention relates to an application of an FOS gene in pig breeding for increasing pig spine number and rib number. The pig capable of increasing the number of spines and the number of ribs is an FOS gene knockout gene editing pig, the number of the FOS gene in an enmbl genome database is ENSSSCG00000002383, the preparation method of the gene editing pig comprises the steps that FOS gene knockout pig fibroblasts are prepared through a CRISPR-Cas9 technology, then the FOS gene knockout pig is produced through a somatic cell cloning technology, and the FOS gene knockout pig is obtained. And finally, selecting pigs with increased spine number and rib number from the FOS gene knockout pigs through phenotype identification. According to the method, the individual proportion of cloned pig fetuses with increased thoracolumbar vertebra number obtained by knocking out the FOS gene is 60%, it is proved that the FOS gene is a key gene influencing the thoracolumbar vertebra number on pig genetic breeding, and a gene edited pig with increased spine number and rib number can be obtained by knocking out the FOS gene, especially knocking out a second exon of the FOS gene.

The invention discloses a micropterus salmoides gene modification method which comprises the following steps: step 1, encoding a precursor gene of micropterus salmoides GLP according to a published micropterus salmoides genome database; 2, obtaining a translated micropterus salmoides GLP precursor protein sequence according to the precursor gene for coding the micropterus salmoides GLP; step 3, successfully predicting a mature protein sequence of the micropterus salmoides GLP according to a comparison result of the cloned sequence for coding the micropterus salmoides GLP precursor gene, a translated protein sequence, a recognition site of 1 / 3 of a prohormone converting enzyme and sequences of different fish GLPs; and 4, transforming the mature protein sequence of the GLP of the micropterus salmoides according to the mature protein sequence of the GLP of the micropterus salmoides and the recognition site of the DPPIV enzyme. The GLP is modified according to a mature protein sequence of the GLP, and the modified protein can realize a regulation effect on fish glycolipid metabolism and is expected to be developed into a feed additive for promoting glycolipid utilization.

Disclosed here is a method of identifying novel CRISPR effectors, comprising: identifying sequences in a genomic or metagenomic database encoding a CRISPR array; identifying one or more Open Reading Frames (ORFs) in said selected sequences within 10 kb of the CRISPR array; discarding all loci encoding proteins which are assigned to known CRISPR-Cas subtypes and, optionally, all loci encoding a protein of less than 700 amino acids; and identifying putative novel CRISPR effectors, and optionally classifying them based on structure analysis.

The invention discloses a cotton breeding material screening method based on SNP (Single Nucleotide Polymorphism) and multi-character decision. The method comprises the following steps: constructing a genome SNP database of cotton breeding materials; key SNP loci related to target characters such as yield, fiber quality and stress resistance are identified through whole genome association analysis; establishing a multi-character comprehensive evaluation system, and carrying out weight distribution on each character; constructing an intelligent decision-making model by utilizing a machine learning algorithm, and integrating SNP marker information and phenotype data; excellent breeding materials are screened through model prediction and comprehensive scoring. According to the method, multiple breeding targets can be considered at the same time, the selection accuracy and efficiency are improved, the breeding period is remarkably shortened, and an efficient technical means is provided for cotton molecular design breeding.

The invention relates generally to medication therapy and more particularly to a system and methods for medication therapy management to support improved adherence and alert clinicians of changes in behavior or symptoms. The system may facilitate interactions between various data sources (e.g., medical health records, genomics databases, and other connected third-party devices) to manage workflow, execute rules, interface with knowledge bases, codify information, schedule events, provide notification, and more. In addition, the system may include a conversational or actionable artificial intelligence persona tailored to each user and configured to, for example, converse, instruct, and / or coach a user according to one or more features of the system. Advantageously, the system may improve adherence and facilitate patient engagement, care transition, and disease management, resulting in, for example, reduced healthcare costs for providers and payers, and enhanced drug use for pharmaceutical manufacturers, pharmacies, and specialty pharmacies.

The invention discloses a high-activity CbCas12a nuclease and an application thereof, and belongs to the technical field of CRISPR (clustered regularly interspaced short palindromic repeats) / Cas12. The amino acid sequence of the CbCas12a nuclease is as shown in SEQ ID NO.1, and the CbCas12a nuclease is a novel Cas12a nuclease homolog identified by the inventor through bioinformatics mining of a public metagenome database. The CbCas12a has remarkable trans-cleavage activity and a wider working temperature range, is very suitable for rapid detection of nucleic acid, is successfully applied to detection of the porcine epidemic diarrhea virus, and has an excellent detection effect.

Methods for processing clinico-genotnic data are described. The methods may comprise, for example, receiving, at one or more processors, input data that specifies a plurality of prognostic features for a disease; extracting, using the one or more processors, a first data set comprising data corresponding to the plurality of prognostic features for the disease from a clinico-genomic database; generating, using the one or more processors, a second data set based on the first data set, wherein the second data set comprises data from the first data set, data derived from data in the first data set, or a combination thereof; and storing using the one or more processors, the second data set in a standardized table format. In one or more embodiments, the methods further comprise outputting the second data set in the standardized table format.

The invention belongs to the technical field of bioinformatics, and discloses a keratinase mining method based on structural analysis and keratinase. According to the method for mining keratinase based on structural analysis, provided by the invention, the steps of protein structure prediction, bioinformatics analysis, metagenome mining and the like jointly form an organic whole, so that funnel type screening of massive protein sequences in a metagenome database is realized; a protein sequence with keratinase activity can be obtained through accurate recognition and screening, and the method has huge application potential in efficient and high-throughput screening of keratinase.

This application provides a method and system for constructing a metagenomic database of clinical pathogenic microorganisms. The method includes: collecting and correcting species information of pathogenic microorganisms; performing searches based on the corrected pathogenic microorganism genome results; filtering and counting bacterial genomes; screening and filtering reference genomes of viral pathogenic microorganisms; downloading the screened pathogenic microorganism genomes; breaking the genomes obtained from the above screening results into fixed-length fragments; classifying reads with overlapping regions to obtain contaminated regions in the genome; labeling contaminated sequences in all genomes; removing contaminated sequences from the genome; constructing an alignment database for the obtained genomes based on the k-mer algorithm and the lowest common ancestor algorithm; managing the database, regularly updating and maintaining the database; optimizing data storage by partitioning the database into different databases according to species boundaries and different setting criteria.

This invention belongs to the field of molecular biology, specifically relating to a molecular marker for identifying the genetic sex of different populations of largemouth bass, its primer pairs, and their applications. This invention provides a molecular marker for identifying the genetic sex of different populations of largemouth bass. The molecular marker is located between positions 35054224 and 35054476 of linkage group 15 in the ASM2243578v1 genome database for genetic sex. The primer pair used includes M-F and M-R. PCR amplification using this primer pair indicates male sex if both 307 bp and 253 bp bands are amplified, and female sex if only the 253 bp band is amplified. This invention can accurately identify the sex of largemouth bass, providing results on the same day with high reproducibility. This method lays a technical foundation for sex-controlled breeding and asexual reproduction in largemouth bass.

The invention discloses an application of an arabidopsis thaliana S gene AtEIJ1. The invention relates to application of an arabidopsis S gene AtEIJ1 with an arabidopsis genome database number of AT2G24860 in enhancing the resistance of plants to Sclerotinia sclerotiorum, Botrytis cinerea and / or Pseudomonas syringae pv.tomata DC3000. The invention discovers that a mutant of the arabidopsis S gene AtEIJ1 shows high resistance to the Sclerotinia sclerotiorum and the Botrytis cinerea, and has relatively strong disease resistance to the Pst.DC3000. The invention further discloses a method for enhancing the resistance of the plants to the Sclerotinia sclerotiorum and the Botrytis cinerea. Therefore, the AtEIJ1 can be used as a potential gene resource and is used for cultivating varieties for resisting sclerotinia rot and gray mold of colza.

The invention discloses a general probe combination design method for pathogenic microorganisms and application, representative genomes of target near-source species are segmented into fragments by adopting a sliding window method, the fragments are compared with all representative genomes, and conserved regions capable of being compared with a plurality of species are screened out. And counting the basic group with the highest screening frequency in each probe region as a final representative consistent basic group of the position, and generating a final representative consistent probe sequence. And counting the number of species capable of being covered by each representative consistent probe, and editing distance and GC content of each species capable of being covered. The method comprises the following steps of: capturing a region sequence by a probe of each species, simulating to generate a fastq sequence, comparing the fastq sequence to a metagenome database, calculating the unique sequence recall rate of each probe capturing region to the species, and screening out the probe with high specificity on the species level. The greedy algorithm is adopted to screen the probe combination from the candidate probe set, the total number of probes is reduced as much as possible, the use efficiency of the probe pool is improved, and the cost is reduced.

The application discloses lysozyme and an antibacterial peptide derived from the lysozyme and application of the antibacterial peptide in preparation of antibacterial drugs. Based on a lysozyme prediction model, 1,640 protein sequences collected in a rumen Haementa ventalina genome database are systematically predicted, and finally it is found that lysozyme with an amino acid sequence shown in SEQ ID No. 1 has relatively strong antibacterial activity and stable antibacterial activity and is less affected by environmental factors. The antibacterial peptide region of the lysozyme is analyzed and determined, and three peptide segments with definite antibacterial activity are identified, and the amino acid sequences of the three peptide segments are shown in SEQ ID No. 2, SEQ ID No. 3 or SEQ ID No. 4. The antibacterial peptide provided by the application has relatively strong membrane damage capacity and broad-spectrum antibacterial activity, is more simple in structure compared with the whole protein, is more flexible in synthesis and modification, and is also easier to break through a bacterial drug resistance mechanism.