41 results about "Single locus" patented technology

The present invention provides a method of identifying putative fusion transcripts. The method comprises: (a) computationally aligning a first database of annotated polynucleotide sequences with a second database of expressed polynucleotide sequences; and (b) identifying in the second database an expressed polynucleotide sequence complementary to at least two non-contiguous sequences of the first database, the at least two non-contiguous sequences being selected from the group consisting of non-homologous polynucleotide sequences mapped to different chromosomes, polynucleotide sequences mapped to different loci of a single chromosome and polynucleotide sequences mapped to a single locus and not being a part of a splice isoform, the expressed polynucleotide sequence identified being a putative fusion transcript.

The invention discloses a novel genotype analysis method based on multimodal brain images. With utilization of information, including a structural image and a functional image, of two kinds of modes, regression on the rs429358 locus genotype linked to the Alzheimer's disease closely is realized. The method comprises: extracting voxel features from a brain structure images and extracting connecting network features from a brain function image; carrying out feature extraction on the two kinds of features by using an elastic network and keeping brain area and network connection with a high association degree; and then carrying out fusion and genotype regression on selected nodes and side attributes by using a multi-kernel support vector. The method has the following advantages: for the brain image with the complicated structure and functions and genotype data, a novel regression analysis method for a single locus genotype based on structural and functional multimodal brain images is put forward; the analysis effect is good; and complementary information of the two modes is utilized fully.

The invention is directed to methods for highly-multiplexed simultaneous detection of nucleic acids encoding paired adaptive immune heterodimers from a large number of biological samples containing lymphocytes of interest. Methods of the invention comprise performing a single pairing assay on a pool of source samples to determine nucleic acids encoding paired cognate receptor heterodimer chains in the combined pool. Separately, single-locus, high-throughput sequencing is performed on each individual sample to determine the plurality of sequences encoding one of the two receptor polypeptide chains. Pairs of cognate sequences determined in the pooled sample may then be mapped back to a single source sample by comparing the expression patterns of the single-locus sequences.

The invention discloses a kit for detecting folic acid utilization ability gene and a detection method of the kit, relating to the technical field of gene detection, wherein the kit for detecting folic acid utilization ability gene comprises (1) a PCR (polymerase chain reaction) reaction reagent including dNTP, 5* and 10*PCR buffer liquid, Mg<2+> ion, de-ionized water, FastTaq enzyme, SNaPshot Mix mixed liquid; (2), a mixture obtained by mixing 16 pairs of PCR primers according to a certain proportion; (3), a mixture obtained by mixing 16 extended primers according to a certain proportion; (4), SAP enzyme for purification, Exon I enzyme and buffer liquid matched with the enzymes; (5), positive and negative control DNA with single locus subjected to homozygous or heterozygous mutation; (6), an instruction manual. The method provided by the invention is simple, high in flux, high in effect and low in cost, and is suitable for detecting folic acid utilization ability gene for Chinese population.

A method of determining the presence of a novel structural variation in a genome using long-read genome sequence fragments includes a process of aligning, filtering ranking and linking long-read sequence fragments against a reference genome. Presence of a novel structural variation is present in said genome can be determined when said linked alignment contains multiple linked fragments that are mapped to a single locus, referred to as a split-read.

The present invention is a novel protocol for the massively parallel production of improved MIPs. The molecular improvements to the MIP cover the manufacturing of the probes, the workflow, the addition of unique sequence elements which connote sample specificity, and a sequence tag which uniquely identifies a specific molecule present in the initial sample population. Lastly, this invention also is combined with an empirical optimization strategy that overcomes issues of both locus representation and allelic bias. This improved technique is scalable and can be utilized to amplify targets comprised of a single locus' amplicon up to targeting more than 1 million loci.

The invention is directed to methods for highly-multiplexed simultaneous detection of nucleic acids encoding paired adaptive immune heterodimers from a large number of biological samples containing lymphocytes of interest. Methods of the invention comprise performing a single pairing assay on a pool of source samples to determine nucleic acids encoding paired cognate receptor heterodimer chains in the combined pool. Separately, single-locus, high-throughput sequencing is performed on each individual sample to determine the plurality of sequences encoding one of the two receptor polypeptide chains. Pairs of cognate sequences determined in the pooled sample may then be mapped back to a single source sample by comparing the expression patterns of the single-locus sequences.

The cauliflower (Brassica oleracea L. var. botrytis) Or gene is a semi-dominant, single-locus mutation. It induces the accumulation of high levels of beta-carotene in various tissues that are normally devoid of carotenoids, turning them orange. Using a map-based cloning strategy, we identified a single gene representing Or and successfully verified its identity by functional complementation in the wild type cauliflower. The Or gene encodes a plastid membrane protein containing the DnaJ zinc figure domain. A likely gain-of-function mutation from a 4.3-kb retrotransposon insertion in the Or allele confers the orange phenotype in the mutant. Southern blot analysis revealed that Or is a single-copy sequence in the cauliflower genome. High level of expression of the Or gene and the protein was found in very young leaves, curds, and flowers at comparable abundance between wild type and the Or mutant. Or likely functions in regulating the differentiation of some non-photosynthetic plastids into chromoplasts, which provide the deposition “sink” for carotenoid accumulation. Successful demonstration of Or in conferring carotenoid accumulation in potato tubers indicates its potential use to improve the nutritional value in staple crops.

The present invention describes primers, methods and kits for amplifying and identifying HLA alleles. Using these primers, all HLA alleles at a single locus can be amplified using either a multiplex or non-multiplex PCR approach. Within sets of the primers, control primer pairs may be used to produce control amplicons of a predetermined size from an HLA allele only if a particular HLA locus is present in the sample. The present invention further describes primers for sequencing HLA alleles following amplification. Methods and kits for using the primers are also disclosed.

A method, kit and primers for determining alleles present in a DNA sample that is sourced from either a mouse or a cell line derived from a mouse. A set of STR marker loci are selected that can be amplified together in a multiplex amplification reaction. The set of STR marker loci are selected from the group consisting of: 18-3, 4-2, 6-7, 15-3, 6-4, 12-1, 5-5, X-1, Mo11-1, Mo19-2, Mo1-2, Mo7-1, Mo1-1, Mo3-2, Mo8-1, Mo2-1, Mo11-2, Mo17-2, Mo13-1, D8S1106 and D4S2408. A set of oligonucleotide primer pairs are provided. Each oligonucleotide primer pair flanks a single locus in the set of STR marker loci, which are co-amplified in a multiplex amplification reaction, with the product(s) comprising a mixture of amplified alleles from each of the co-amplified loci in the set of STR marker loci. The products are evaluated to determine the alleles present at each of the loci analyzed.

The invention provides a verifying method of a high-throughput sequencing mutation detection result and a method for mutation searching through the high-throughput sequencing result. According to the verifying method, mathematical calculation and statistical formulas are combined, whether interested single-locus special base substitution exists in a high-throughput sequencing sample or not is determined by calculating the mutation frequency of the interested single-locus special base substitution, and whether interested continuous-locus base deletion or interested continuous-locus special base substitution exists or not is determined by calculating the variation coefficient of the interested continuous-locus base deletion or the interested continuous-locus special base substitution.

The invention relates to an adeno-associated virus (AAV) producer cell comprising nucleic acid sequences encoding: rep / cap gene; helper virus genes; and the DNA genome of the AAV vector particle, wherein the nucleic acid sequences are all integrated together at a single locus within the AAV producer cell genome. The invention also relates to nucleic acid vectors comprising a non-mammalian origin of replication and the ability to hold at least 25 kilobases (kb) of DNA, characterized in that the nucleic acid vectors comprise nucleic acid sequences encoding: rep / cap gene, and helper virus genes. The invention also relates to uses and methods using the nucleic acid vectors in order to produce stable AAV packaging and producer cell lines.

We have established and studied a colony of mice with a unique trait of host resistance to both ascites and solid cancers induced by transplantable cells. One dramatic manifestation of this trait is age-dependent spontaneous regression of advanced cancers. This powerful resistance segregates as a single-locus dominant trait, is independent of tumor burden and is effective against cell lines from multiple types of cancer. During spontaneous regression or immediately following exposure, cancer cells provoke a massive infiltration of host leukocytes which form aggregates and rosettes with tumor cells. The cytolytic destruction of cancer cells by innate leukocytes is rapid and specific without apparent damage to normal cells. The mice are healthy, cancer-free and have a normal life span. These observations suggest a previously unrecognized mechanism of immune surveillance that may have potential for therapy or prevention of cancer.

The invention relates to a recombinant consensus interferon mutant polyethylene glycol conjugate, and a preparation method and applications thereof, and is characterized in that a recombinant consensus interferon mutant is chemically modified at a single locus at an amino terminal by an aldehyde group-activated polyethylene glycol molecule with a molecular weight of 10 KD-40 KD. The modified recombinant consensus interferon mutant polyethylene glycol conjugate has the characteristics of prolonged in-vivo half life, reduced immunogenicity, and long-term antiviral activity in vivo. The invention also discloses a preparation method of the recombinant consensus interferon mutant polyethylene glycol conjugate, and provides applications of its combined medicaments in the treatment and prevention of viral infection or hyperplastic diseases, or the regulation of immune functions.

The invention provides an identification method of pig fat deposition related PNPLA2 mRNA m6A methylation single locus. According to m6A-seq sequencing, m6A methylation locus exists in a fragment of about 100nt, and method is characterized in that confirmation of a m6A single locus position of a PNPLA2 gene is carried out according to a RRACH(R=G,A;H=A,C,T) sequence with highly conserved methylation. Bioinformatics analysis is used, and according to a conserved sequence of m6A, the concrete locus of m6A is identified; the invention provides a primer sequence and a concrete method for identification of methylation level of PNPLA2 mRNA m6A in pigs; gene single locus mutation changes PNPLA2 m6A level proves that the PNPLA2 m6A locus has function for influencing fat deposition.

Transgenic plants are provided comprising a plurality of transgenes comprised in a single locus. In certain aspects, 7 or more transgenes may be expressed from a first locus. Methods are provided for transformation of plant cells with a plurality of transgenes. Also provided are methods for expressing and enhancing the expression of one or more transgenes in a plant.

The invention relates to a pair of single-locus specific primers for amplifying class II major histocompatibility complex genes for antibacterial potential detection of the alligator sinensis and a typing method, wherein the specific sequences of the primers are as shown in SEQ ID NO. 1-SEQ ID NO. 2. The amplification primers disclosed by the invention are stable in single-locus specific amplification capacity in an alligator sinensis population; a product obtained from amplification can conduct genotyping on various individuals through a subsequent single strand conformation polymorphism (SSCP) experiment, so that the polymorphism of the class II MHC genes of alligator sinensis individuals in the population is assessed and the potential of the alligator sinensis individuals in resisting bacterial diseases is detected; therefore, an important reference is provided for such operations of new population founder selection, reintroduction individual selection, artificial mating selection and the like in alligator sinensis protection work.

The invention discloses a poppy species specificity genetic marker detecting system. A primer pair set for identifying poppy is provided and is composed of a primer pair P12 (sequence 1 and 2), a primer pair P13 (sequence 3 and 4), a primer pair P5 (sequence 5 and 6) and a primer pair P14 (sequence 7 and 8). Four STR loci of poppy are amplified at the same time, and the amplification is more accurate and rapid compared with amplification of a single locus; the system has higher species specificity when identifying poppy and affinis plants, and an effective method is provided for further studying poppy STR loci and inspecting and identifying the poppy species in a case; in an optimized poppy STR composite amplification system, amplification of all loci can be balanced, sensitivity is high, stability is high, and frequently-seen corrosion check materials in a drug-related case can be easily inspected; accuracy is high, parting of four loci of each of poppy samples from different producing areas can be achieved through detection and data statistic analysis.

The invention provides a method for detecting a differential methylation region of plant genomes, and belongs to the technical field of genomics and bioinformatics. Single-locus methylation data on whole genomes of a treatment group and a control group is obtained separately through methylation sequencing of the whole plant genomes; single-locus methylation information on the whole genomes of thetreatment group and the control group is read separately and stored by section; stored methylation information of each section of the whole genomes is stored with 200 bp as a window and 50 bp as a step length sliding window, and the scanned methylation information is stored into a python dictionary by section; the methylation information, stored in the python dictionary, of each section of the whole genomes is screened, and the methylation information of each section in each window is counted according to the obtained single-locus methylation information on the effective whole genomes. By means of the method, the python dictionary is utilized for storing a whole chromosome with 50 bp as a section, subsequent operations are facilitated, and a lot of time is saved.

The invention discloses a method for detecting a chicken tenderness character by using single nucleotide polymorphism (SNP) and primers. The method comprises the following steps: carrying out SNPs detection on CDS (Coding Sequence) regions of CAPN1 (Calcium-Activated Neutral Protease) and CAST (Calpastatin) genes of a chicken, and detecting one SNP locus on an exon 6 of the CAPN1 gene by using a primer F1, wherein the SNP locus is concretely the 3535th position G->A on a GenBank sequence (GenBank NO:NC-006090.1); detecting one SNP locus on an exon 11 of the CAST gene by using a primer F2, wherein the SNP locus is concretely the 37752nd position A->T on a GenBank sequence (GenBank NO:NC-006127.2); and analyzing the relationship between different gene types of a single locus and the tenderness character in a high-quality broiler chicken.

The present disclosure describes a method for identifying a strain or species of bacteria using a single locus sequence typing technique. The single locus useful in the method is the promoter region of the 16S rRNA operon. The method is useful to identify infectious bacteria in a subject, to identifying contaminants in a food source, as well as strain typing and genetic fingerprinting of bacterial families.

The cauliflower (Brassica oleracea L. var. botrytis) Or gene is a semi-dominant, single-locus mutation. It induces the accumulation of high levels of beta-carotene in various tissues that are normally devoid of carotenoids, turning them orange. Using a map-based cloning strategy, we identified a single gene representing Or and successfully verified its identity by functional complementation in the wild type cauliflower. The Or gene encodes a plastid membrane protein containing the DnaJ zinc figure domain. A likely gain-of-function mutation from a 4.3-kb retrotransposon insertion in the Or allele confers the orange phenotype in the mutant. Southern blot analysis revealed that Or is a single-copy sequence in the cauliflower genome. High level of expression of the Or gene and the protein was found in very young leaves, curds, and flowers at comparable abundance between wild type and the Or mutant. Or likely functions in regulating the differentiation of some non-photosynthetic plastids into chromoplasts, which provide the deposition “sink” for carotenoid accumulation. Successful demonstration of Or in conferring carotenoid accumulation in potato tubers indicates its potential use to improve the nutritional value in staple crops.

The invention provides a human tumor necrosis factor-alpha (hTNF-alpha) mutant protein, and discloses the characteristic of generating or enhancing the immune response aiming at TNF-alpha molecules in an organism. With a genetic code expansion technology, a non-natural amino acid p-nitrophenylalanine (pNO2Phe) is introduced to the 11 and / or 87 locus in hTNF-alpha, such that hTNF-alpha mutant protein is obtained. Through immunizing animals, the mutant protein can stimulate an organism to produce cross antibodies to react with the disease-related natural inflammatory factor TNF-alpha, such that the immune tolerance of hTNF-alpha as an autologous protein vaccine is broken through. Compared with prototype hTNF-alpha and a single-locus mutant, the immunogenicity of the two-locus mutant protein is enhanced. The mutant protein can be used as a candidate molecule for treating autoimmune diseases.

The invention discloses a transgenic vector of salivary gland tissue specific expression foreign protein and a construction method thereof; the expression vector is constructed by inserting a recombinant fusion gene constructed by glucanase gene, xylanase gene, and phytase gene into a parotid gland-specific transgenic vector; the vector is introduced into pig genome, and transgenic pigs is produced by a somatic cell nucleus transplant technique. The transgenic vector of the invention has hydrolytic action on glucanase in barley raw materials, xylanase in wheat and corn, and phytase in vegetable feed; the pig salivary gland is used as a reactor to realize secretion for the whole life; the addition of the enzyme preparations into feed is replaced permanently, which gives better play to the enzymes; the expression vector of the invention has a piggyback transposon, which greatly increases the transgenosis efficiency, changes the transgenic integration model of common plasmid serial recombination into single locus single copy integration, and thus better simulates the internal environment of biological genes.

The present invention describes primers, methods and kits for amplifying and identifying HLA alleles. Using these primers, all HLA alleles at a single locus can be amplified using either a multiplex or non-multiplex PCR approach. Within sets of the primers, control primer pairs may be used to produce control amplicons of a predetermined size from an HLA allele only if a particular HLA locus is present in the sample. The present invention further describes primers for sequencing HLA alleles following amplification. Methods and kits for using the primers are also disclosed.

The present invention is a novel protocol for the massively parallel production of improved MIPs. The molecular improvements to the MIP cover the manufacturing of the probes, the workflow, the addition of unique sequence elements which connote sample specificity, and a sequence tag which uniquely identifies a specific molecule present in the initial sample population. Lastly, this invention also is combined with an empirical optimization strategy that overcomes issues of both locus representation and allelic bias. This improved technique is scalable and can be utilized to amplify targets comprised of a single locus' amplicon up to targeting more than 1 million loci.

The invention discloses a fusion protein based on CjCas9 and VPR core structure domains, a corresponding DNA targeting activation system and application of the system. The fusion protein comprises twoheterologous polypeptide structure domains, and one polypeptide structure domain comprises VPR protein with the transcription activation activity; the other polypeptide structure domain comprises theCjCas9 protein, the CjCas9 protein is in a dCjCas9 subtype or a mini-dCjCas9 subtype or a CjCas9 wild type, and the dCjCas9 subtype contains D8A and H559A single-locus amino acid mutation; the mini-dCjCas9 subtype contains D8A single-locus amino acid mutation and deficiency of most HNH structure domains. The DNA targeting activation system comprises the fusion protein and one or more kinds of guide RNA, and the guide RNA comprises a sequence with the length of 14-22 bp and a framework sequence with the length of 80 bp, wherein the sequences are designed for a target gene promoter area. The DNA targeting activation system is applied to targeting activation of a gene. The DNA targeting activation system has the advantages of being small in size, capable of achieving high specificity, a highactivation effect and easy synthesis, low in cost and the like.

The invention relates to an adeno-associated virus (AAV) producer cell comprising nucleic acid sequences encoding: rep / cap gene; helper virus genes; and the DNA genome of the AAV vector particle, wherein the nucleic acid sequences are all integrated together at a single locus within the AAV producer cell genome. The invention also relates to nucleic acid vectors comprising a non-mammalian origin of replication and the ability to hold at least 25 kilobases (kb) of DNA, characterized in that the nucleic acid vectors comprise nucleic acid sequences encoding: rep / cap gene, and helper virus genes. The invention also relates to uses and methods using the nucleic acid vectors in order to produce stable AAV packaging and producer cell lines.

The invention relates to retroviral producer cell comprising nucleic acid sequences encoding: gag and pol proteins; envelope protein or a functional substitute thereof; amplifiable selection marker; and the RNA genome of the retroviral vector particle, wherein said nucleic acid sequences are all integrated at a single locus within the retroviral producer cell genome. The invention also relates to nucleic acid vectors comprising a non-mammalian origin of replication and the ability to hold at least 25 kilobases (kb) of DNA, characterized in that said nucleic acid vector comprises retroviral nucleic acid sequences encoding: gag and pol proteins, and an env protein or a functional substitute thereof. The nucleic acid vector additionally comprises nucleic acid sequences encoding an amplifiable selection marker. The invention also relates to uses and methods using said nucleic acid vector in order to produce stable retroviral packaging and producer cell lines.