144 results about "Tandem repeat" patented technology

The invention relates to the technical field of gene variation detection, in particular to a gene sequence variation detection method based on robust statistics and multi-strategy fusion, which comprises the following steps: comparing to generate a sorted BAM file; preprocessing a missing value and an N position in the data, replacing the missing value by adopting a 0 filling strategy, and removing the data at the N position; extracting an RD signal and an MQ signal as characteristic values; performing GC deviation correction on the extracted RD signal; performing smooth noise reduction processing on the RD signal and the MQ signal; a two-step progressive segmentation strategy is adopted, and continuous fragments with highly consistent RD values are identified; constructing two-dimensional profiles of the RD signal and the MQ signal, and performing standardization processing; carrying out serial repeated detection and calculating an abnormal score; setting a threshold value by using a box plot method, and judging an abnormal value; and refining a tandem repeated region. According to the method, the problem of tandem repeat variation detection under low-coverage sequencing data is effectively solved, and the detection accuracy and reliability are remarkably improved.

The invention relates to the field of biological detection, in particular to a mini STR (short tandem repeat) double-multiplex amplification system and kit for degrading 25 gene loci of a sample. The invention provides a kit. The kit comprises 25 gene loci; the 25 gene loci comprise 23 autosomal STR gene loci, one sex gene locus and one Yindel gene locus. According to the kit provided by the invention, the primers are divided into a group A and a group B, and all gene loci are miniS TR gene loci on the basis of using current mainstream instruments and equipment. The two tubes of primers use the same experiment condition, and amplification and electrophoresis can be carried out at the same time. Compared with the existing miniSTR kit, the kit disclosed by the invention can be independently amplified and does not need to be combined with other autosomal STR kits for use, and the typing of 25 gene loci can be obtained through one-time detection. The effective detection rate of degraded samples is greatly improved, and technical support is provided for detection of difficult cases.

Provided is a pharmaceutical composition, comprising a circular RNA and a drug delivery carrier. It is surprisingly found that compared with conventional linear 1 x siRNAs and circular 1 x siRNAs, increasing the number of tandem repeats in the sense strand to two or more significantly enhances the silencing effect, significantly reduces the expression level of the PCSK9 gene, and mediates the degradation of the PCSK9 protein mRNA. The use of nano-particles for delivering oligonucleotides features improved stability, reduced immunogenicity, improved cholesterol-lowering, aortic plaque load-reducing and anti-atherosclerotic effects, good safety, no significant liver and kidney toxicity, and therefore good prospects in preparing medicaments for treating hypercholesterolemia and a coronary heart disease.

The present disclosure provides a recombinant type XVII collagen with a triple helical structure and use thereof and belongs to the field of protein engineering technology. The recombinant type XVII collagen has an amino acid sequence formed by tandem repeats of n core units, wherein n is an integer of 1 or greater than 1, and the core unit has the amino acid sequence as set forth in SEQ ID NO: 1. The present disclosure also provides methods for constructing multiple expression systems and methods for preparing the recombinant type XVII collagen.

The present invention provides a method for constructing a plasmid containing a tandem repeat sequence, comprising: providing a first upstream primer and a first downstream primer; the first upstream primer and the first downstream primer respectively have a tandem repeat sequence, and the tandem repeat sequence of the first upstream primer is complementary to at least part of the tandem repeat sequence in the tandem repeat sequence of the first downstream primer; annealing the first upstream primer and the first downstream primer under a gradient temperature condition to obtain a first double-stranded nucleic acid fragment having a tandem repeat sequence, wherein the tandem repeat sequence complementary to each other in the double strand is the first double-stranded tandem repeat sequence; connecting the first double-stranded nucleic acid fragment to a first vector backbone with a sticky end to construct a plasmid containing the first double-stranded tandem repeat sequence. The present invention can significantly improve the success efficiency of tandem repeat sequence connection, obtain more positive clones, ensure the success rate of the experiment, and reduce the construction time.

The invention discloses an STR (short tandem repeat) fluorescence labeling composite amplification system, the STR fluorescence labeling composite amplification system comprises 6 STR loci on a human chromosome 15, 12 STR loci on a human chromosome 20 and corresponding 36 primer pairs, and each primer pair carries a fluorescent dye marker. The kit can be used as an effective supplement of an existing kit, the false positive rate can be remarkably reduced, the detection accuracy and reliability are effectively improved, an important basis is provided for prenatal diagnosis and genetic disease detection, and the kit has important clinical application value and wide market prospects.

The invention discloses an annotation method for analyzing a genome centromere region structure, and belongs to the technical field of biological genes. And prerequisites are needed. The method comprises the following steps: firstly, analyzing repetitive monomers of a centromere sequence based on a heuristic strategy, and judging the centromere sequence; when the serial repetition units are identified, an adjacent matrix is obtained based on serial repetition unit information, the analysis problem of the HORs is converted into a graph theory problem of searching a specific structure in the adjacent matrix, and a sliding window strategy is combined to refine the structure analysis result of the HORs. Compared with the prior art, the method has the advantages that the length of the tandem repeat unit can be detected more accurately, and the defect that two continuous tandem repeat units are identified as a single tandem repeat unit by TRASH is effectively overcome. The method has an obvious efficiency advantage. When a human genome centromere area is analyzed, the method is 10 times faster than a current method while the precision is guaranteed.

The invention relates to an mRNA (messenger Ribonucleic Acid) vaccine targeting FomA and application of the mRNA vaccine in immunotherapy of esophageal squamous carcinoma in the technical field of tumor immunotherapy. The problems that in the prior art, a specific targeting vaccine for the fusobacterium nucleatum membrane protein FomA lacks, traditional antibiotics can only kill extracellular bacteria and cannot remove intracellular colonized fusobacterium nucleatum, and cellular immunity cannot be effectively activated to remove fusobacterium nucleatum colonized in tumor tissue; the immunotherapy drug resistance of esophageal squamous carcinoma caused by fusobacterium nucleatum infection is difficult to reverse. According to the technical scheme, an mRNA molecule with a fusobacterium nucleatum FomA extracellular domain tandem repeat sequence and a lipid nanoparticle delivery system are coded, an extramembrane segment tandem repeat immune enhancement technology is adopted for design, two extracellular ring sequences are repeated for 2-5 times and connected through a connector sequence, lipid nanoparticles are composed of optimized quaternary lipids, and the lipid nanoparticles are prepared from the quaternary lipids. And a PD-1 monoclonal antibody is combined to activate FomA specific CD8 + T cell immunoreaction, so that comprehensive removal of intracellular and extracellular bacteria and bacteria targeted immune remodeling are realized.

Provided are techniques for generating expression products using one or more nucleic acid concatemers that include tandem repeats of a nucleic acid sequence encoding the expression product or products. In one embodiment, different expression products may be co-expressed using a concatemer mixture of a first nucleic acid concatemer and a second nucleic acid concatemer having a predefined ratio to one another.

The invention relates to a tandem repeat related gene mutation detection system and a non-disease diagnosis purpose method. The system comprises an acquisition module, a Y-shaped pre-library preparation module, a targeted enrichment module, a single molecule real-time sequencing library construction module and a single molecule real-time sequencing analysis module, wherein target genes comprise ATXN1, ATXN3, ZFHX3, CACNA1A, ATXN7, ATXN8OS, ATXN10, PPP2R2B, TBP, FGF14, BEAN1-TK2, NOP56, DAB1, THAP11, FXN, GLS, RFC1, LRP12, GIPC1, RILPL1, VWA1, AR and DMPK; detection is carried out through three-generation sequencing, mutation setting is accurate, and the problem that an existing detection scheme is not practical is solved.

The invention discloses a preparation method and application of GHK oligopeptide, and belongs to the technical field of biology. According to the method, a nucleotide sequence of the GHK polypeptide is obtained by designing tandem repeat GHK polypeptide ([GHK] 63) and combining preferred codons of bacillus subtilis to optimize a polypeptide coding gene. The GHK oligopeptide is subjected to recombinant expression in bacillus subtilis by utilizing a genetic engineering technology, the obtained recombinant protein is not easy to form an inclusion body and does not contain endotoxin, and the high-yield GHK oligopeptide is obtained after separation, purification and protease digestion treatment. According to the GHK oligopeptide preparation method provided by the invention, extra optimization treatment does not need to be carried out on tandem repeat GHK polypeptides, the yield of the GHK oligopeptide is improved, the whole production process is simplified, the cost is low, and the method is suitable for large-scale production of blue copper peptides and has wide application prospects in the fields of medicines, medical beauty and the like.

The invention belongs to the technical field of gene detection, and particularly discloses an STR fluorescent multiplex amplification detection kit for pigeon individual recognition, a detection method and application of the STR fluorescent multiplex amplification detection kit. The kit comprises 19 STR (short tandem repeat) loci and one sex identification locus of the domestic pigeon, also comprises an allele lader and the like, can more accurately judge the typing of the loci, has high cumulative paternity exclusion rate, can be applied to individual identification and paternity relationship identification of the domestic pigeon, has high detection sensitivity, and can obtain an accurate typing result only by 0.5 ng of DNA (deoxyribonucleic acid).

Methods for evaluating microsatellite instability (MSI) analyze nucleic acid sequence reads corresponding to a plurality of marker regions for MSI. The marker regions may include long homopolymers and / or short tandem repeats (STRs). For a target homopolymer, a histogram of homopolymer signal values is calculated based on flow space signal measurements for the homopolymer region in the sequence reads. A score per marker based on features of the histogram of homopolymer signal values is determined for each marker region corresponding to the target homopolymers. For a target STR, the method includes calculating a histogram of repeat lengths for sequence reads corresponding to the marker region of the target STR. A score per STR marker is calculated based on features of the histogram of repeat lengths. A plurality of per marker scores may be combined to form a total MSI score for the sample.

The present invention relates to the field of biotechnology, and relates to a multiplex amplification system, a kit and an application for 28 short tandem repeats. The multiplex amplification system includes 28 pairs of primers, which can simultaneously amplify 28 loci, and the primer sequences for the 28 loci are disclosed. Through the study of the genetic diversity of STR loci, the 28 loci selected by the present invention are located in the imprinted gene segments of the corresponding chromosomes. These loci have characteristics such as high individual discrimination power and high polymorphic information content, and can effectively and accurately detect the STR polymorphisms of the genome in a specific region. By comparing with the detection results of the parents, uniparental disomy in the corresponding segment can be indicated.

A human sebaceous gland carcinoma cell line and use thereof are provided. The human sebaceous gland carcinoma cell line SHNPH-SeC was deposited in the China Center for Type Culture Collection (CCTCC) on Aug. 31, 2023, with an accession number CCTCC NO: C2023113. The human sebaceous gland carcinoma cell line SHNPH-SeC carries a TP53 mutation, and has been identified as a novel single cell line by short tandem repeat (STR) genotyping. This human sebaceous gland carcinoma cell line exhibits strong adherence and stable cellular characteristics, can be stably passaged for multiple generations, and possesses rapid proliferation and migration capabilities, which are in line with the characteristics of malignant tumor cells.

The present invention belongs to the field of biotechnology, and relates to a composite amplification system and a kit of 23 short tandem repeat sequences, which are used to detect genetic marker genes with polymorphism in the human genome, and belongs to the field of biotechnology. The present invention relates to amplifying multiple short tandem repeat sequences simultaneously in a PCR system, and the specific loci are 22 short tandem repeat sequences with high genetic polymorphism and 1 sex determination site, and primers are designed and labeled with fluorescent groups respectively. The system has extremely high individual recognition rate and non-paternal exclusion rate, large amount of information, and good compatibility. The present invention can be used for forensic individual identification, paternity testing, and population genetics analysis, with higher accuracy and good sensitivity.

The present disclosure provides recombinant type XVII collagen having a triple helix structure and uses thereof, which belong to the field of protein engineering technology. The recombinant type XVII collagen has an amino acid sequence formed by tandem repeats of n or more core units, where n is an integer of 1 or more, and the core unit has the amino acid sequence shown in SEQ ID NO: 1. The present disclosure also provides methods for constructing multiple expression systems and methods for preparing recombinant type XVII collagen. provide.

The invention discloses a rolling circle amplification (RCA) molecular beacon based on DNA synthesized silver nanoclusters (AgNCs / DNA) and application of the rolling circle amplification (RCA) molecular beacon in DNA and RNA virus detection. According to the invention, a padlock template probe PlP with a specific secondary structure is used for carrying out two-enzyme one-step method RCA to generate single-stranded DNA containing a G-rich sequence tandem repeat element. Then H2O2 is added to eliminate the influence of residual dithiothreitol DTT in the RCA reaction, and then AgNCs / DT-GSP-t4 is used as a signal probe to generate a specific fluorescence enhancement signal for a to-be-detected target under the action of a G-rich proximity fluorescence enhancement effect. The RCA reaction does not need primer mediation, so that PlP design and RCA operation steps are simplified; meanwhile, the single-PlP or double-PlP probe is combined with the fluorescent molecular beacon, so that single-base mismatch at a PlP connection point can be recognized, and the probe has the advantage of high specificity.

The invention belongs to the technical field of biology. The invention provides a recombinant protein, an amino acid sequence of the recombinant protein is formed by repeatedly connecting dominant epitopes of canine parvovirus VP2 protein in series, the amino acid sequence of the canine parvovirus recombinant protein is converted into a corresponding nucleotide sequence by adopting escherichia coli preferred codons, the nucleotide sequence is chemically synthesized, and a recombinant expression vector is constructed; therefore, the expression quantity of the recombinant protein in escherichia coli is improved. The invention also relates to a method for establishing a bacteriophage library by immunizing a mouse with the recombinant protein, obtaining a corresponding canine parvovirus VP2 protein single-chain antibody scfv sequence through panning screening, constructing a complete mouse IgG1 antibody sequence expression vector from the obtained scfv sequence, expressing a monoclonal antibody through transient HEK293F cells, and purifying the monoclonal antibody, thereby obtaining the canine parvovirus VP2 protein single-chain antibody. An optimal monoclonal antibody pairing combination is determined through an immunofluorescence orthogonal experiment.

The invention provides a primer group, a kit and a detection method for individual identification of treponema pallidum, the primer group comprises 12 pairs of primers with nucleotide sequences respectively corresponding to SEQ ID NO.1-SEQ ID NO.24. The invention provides a specific DNA fingerprint spectrum of treponema pallidum strains formed by 12 loci, a variable number tandem repeat sequence (microsatellite sequence) of a genome is analyzed, and the specific DNA fingerprint spectrum of the treponema pallidum strains is obtained. The method is used for realizing individual identification of treponema pallidum strains. The primer group provided by the invention has high sensitivity, accuracy and specificity, and the detection method based on the primer group can carry out individual identification, genetic identification and genetic typing analysis at the same time, and has wide application prospects in the fields of population genetics and the like.

This invention provides a method, electronic device, and storage medium for detecting short tandem repeat expansion and genotyping. The method includes the following steps: obtaining third-generation sequencing data and aligning it to a reference genome; extracting STR region sequences based on the coordinate information of the STR in the reference genome and the alignment results; aligning the extracted STR region sequences with a template sequence containing multiple preset STR repeat units and calculating the repeat count; and / or using a method based on adjacent coordinate pairs with the same kmer to calculate the repeat units and repeat counts in the STR region sequences de novo; calculating the repeat count peak using a Gaussian mixture model based on the repeat counts of the STR sequences in multiple reads to obtain the genotyping of the STR in the sample. The method provided by this invention is faster than repeatHMM and also allows for the calculation of the changed repeat unit motif and repeat count when the repeat unit motif changes.

In certain embodiments, the present invention provides protomers and asymmetrical circular tandem repeat proteins (cTRPs). Asymmetric cTRPs are provided as assemblage of two or more protomers having amino acid substitutions with cysteine or with non-canonical amino acids at different amino acid residue positions on respective terminal α-helical structural units, thereby facilitating disulfide bonding or click conjugation in between adjacent protomers so as to form hetero-oligomer cTRPs with interface bonding / conjugation. Preferably cargo molecules are operably linked to the protomers, so as to form an asymmetrical cTRPs with different cargo molecules.

The disclosure provides methods, systems, and algorithms to identify and report genome or chromosome level structural information, such as the presence of structural variations. In some cases, structural variations include copy number variations, inversions, deletions, tandem duplications, or inverted duplications. Further provided herein are methods, systems and algorithms for assembling read-paired genomic data, including creating and optimizing scaffo

A strategy to produce short peptides through tandem repetitive recombinant protein has been developed as disclosed herein. Furthermore, the production of tandem repetitive recombinant proteins in Pichia pastoris and optimized protease cleavage conditions for purification of bioactive peptides has been improved using techniques disclosed herein. Provided herein is the production of flavor and cosmetics peptides, and the technology is applied to production of various short peptides biologically. These techniques incorporate novel applications of signal peptides, design spacers for generating tandem repetitive recombinant protein and increasing copy number, co-expression of chaperones and optimization of protease cleavage conditions. Specifically, provided herein are methods using designed tandem repeated genes, optimized gene spacers and signal peptides useful for improved production of short peptide in Pichia and E. coli. These novel applications afford improvements in short peptide production and high efficiency biological production of bioactive peptides.

Disclosed herein are methods and systems for determining a score for the copy number of repeat units in a variable number tandem repeat (VNTR) locus in a target polynucleotide. Also disclosed herein are methods and systems for determining the nucleotide sequence of a sample nucleic acid having repeat units, where the methods and systems may utilize the most likely copy number of repeat units determined according to the aforementioned methods and systems. Also disclosed herein are methods and systems for predicting a feature of a subject, wherein the methods and systems may utilize the score for the copy number of repeat units in a VNTR locus in a target polynucleotide determined according to the aforementioned methods and systems.

The present application relates to antibacterial active peptide technology, aiming to provide a kind of Lactobacillus reuteri Small molecule antibacterial peptide and its tandem repeat derivative peptide application.The present application provides the small molecule antibacterial peptide X507 with amino acid sequence as shown in SEQ ID NO.1 and antibacterial peptide X507-4 as shown in SEQ ID NO.2;The latter is the derivative prepared by repeating tandem based on the amino acid sequence of antibacterial peptide X507, which consists of 12 amino acids.The antibacterial peptide and derivative peptide provided by the present application have less amino acids, simple synthesis, low cost, easy industrialization and application;Gram-negative bacteria, gram-positive bacteria and corresponding drug-resistant bacteria growth have broad-spectrum antibacterial activity, good stability, no obvious cytotoxicity advantage, for solving the problem of drug-resistant bacteria infection, promoting green medical treatment and the development of breeding has important significance.

The invention discloses a primer group for MLVA typing of bordetella pertussis and application of the primer group. The primer group for MLVA typing of bordetella pertussis comprises primer sequences of VNTR 1-6, a primer sequence of VNTR 2-6, a primer sequence of VNTR 3-6, a primer sequence of VNTR 4-6 and a primer sequence of VNTR 5-6, through selection of the primer group for pertussis bordetella MLVA typing, the primer group can be directly applied to clinical detection of pertussis positive samples, the sample types can be sputum, throat swab, alveolar lavage fluid and other clinical common sample types, and isolated culture is not needed; besides, the Bordetella pertussis MLVA typing method is short in experimental period, a large amount of sequencing sequence data can be obtained at a time, six groups of primers designed in the invention can be carried out in the same reaction tube, one experiment takes about 24 hours, sequencing results of a plurality of samples can be obtained in combination with an NGS sequencing technology, and the detection efficiency is high.

Provided herein are novel TRPs comprising a N-terminal region, two or more tandem repeats and a C-terminal region. Provided herein are also a fusion polypeptide comprising the TRP fused to a fusion partner, or a gene editing system comprising the fusion polypeptide, as well as a method for gene editing with the fusion polypeptide.

The invention provides a sequencing data error correction method and device, electronic equipment and a storage medium. The method comprises the steps that long-read-long sequencing data are obtained, and the long-read-long sequencing data comprise tandem repeat areas; coding the tandem repeat region and the upstream and downstream sequencing data of the tandem repeat region by adopting a first coding mode to obtain a base continuity characteristic; encoding the upstream and downstream sequencing data of the tandem repeat region by adopting a second encoding mode to obtain upstream and downstream features; and inputting the base continuity feature and the upstream and downstream features into a pre-trained correction model to perform error correction on a tandem repeat region in the long read length sequencing data, thereby realizing combination of the tandem repeat region in the long read length sequencing data and upstream and downstream sequencing data of the tandem repeat region in a depth model. Error correction is carried out on a long-read-length sequencing sequence, so that efficient and universal sequencing data error correction is achieved, the accuracy of sequencing data is improved, and subsequent assembly performance is improved.

Disclosed are compositions, kits, and methods for use in applications involving electrophoretic separation of nucleic acids, including capillary electrophoresis applications in which nucleic acid samples are labelled with dyes, size-separated, and subjected to short tandem repeat (STR) analysis. A sample containing DNA is mixed with a composition that includes at least one set of primers that target an STR region of the sample nucleic acid, a set of short quantification primers (QS primers) that target a first multi-copy sequence (QS sequence) of the sample nucleic acid, and a set of long quantification primers (QL primers) that target a second multi-copy sequence (QL sequence) of the sample nucleic acid, wherein the QS sequence is shorter than the QL sequence.