36 results about "Restriction map" patented technology

A method and system are provided for comparing ordered segments of a first DNA restriction map with ordered segments of a second DNA restriction map to determine a level of accuracy the first DNA map and / or the second DNA map. In particular, the first and second DNA maps can be received (the first DNA map corresponding to a sequence DNA map, and the second DNA map corresponding to a genomic consensus DNA map as provided in an optical DNA map). Then, the accuracy of the first DNA map and / or the second DNA map is validated based on information associated with the first and second DNA maps. In addition, a method and system are provided for aligning a plurality of DNA sequences with a ordered DNA restriction map. The DNA sequences and the DNA map are received (the DNA sequences being fragments of a genome and the DNA map corresponding to a genomic consensus DNA map which relates to an optical ordered DNA map). Then, a level of accuracy of the DNA sequences and the DNA map is obtained based on information associated with the DNA sequences and the DNA map by means of the method and system described above. The locations of the DNA map at which the DNA sequences are capable of being associated with particular segments of the DNA map are located. Furthermore, it is possible to obtain locations of the DNA map (without the validation) by locating an optimal one of the locations for each of the DNA sequences for each of the locations.

This disclosure relates to methods of determining an antibiotic resistance profile of a bacterium, and methods of treating a patient with a therapeutically effective antibiotic. The methods include comparing the restriction map of the nucleic acid with a restriction map database, and determining antibiotic resistance of the bacterium by matching regions of the nucleic acid to corresponding regions in the database.

The invention relates to a gene detection and / or gene typing composition and a method thereof. Concretely speaking, the invention relates to the gene detection and / or gene typing composition, and the method for detecting and / or typing gene by using the composition, and more specifically relates to the composition by using Argonaute enzyme and a positioning primer for gene detection or gene typing and the method for gene detection or gene typing by using the composition. The composition and the method overcome the technical defect of the current technologies of multiple PCR and restriction map, and can rapidly and easily perform gene detection or gene typing.

Method and system to remove background noise with a differential approach in optical imaging is disclosed. The differential approach moves the sample position laterally over a small distance, and a differential image is generated from the images recorded before and after the lateral translation. This approach can significantly improve the image quality of objects, including single DNA molecules, for label-free optical imaging techniques, such as surface plasmon resonance imaging. Disclosed imaging technique provides high-resolution genome-wide restriction maps of single DNA molecules.

A method of analysing a nucleic acid sequence comprises digesting the sequence with a restriction enzyme which cleaves the nucleic acid to produce fragments with overhangs containing at least one partially random or at least one semi-random base. The fragment mixture may be analysed to determine the relative size of the fragments and the sequences of their ends. Alternatively the fragment mixture may be analysed to determine the identity of at least one of said random or semi-random bases and optionally to determine the relative size of the fragments to obtain sequence data that can be used to order the fragments relative to each other to generate partial or complete restriction maps of said nucleic acid sequence.

The invention discloses a method for identifying the polymorphism of human breast cancer genes RAD51 rs7180135 by the aid of BccI. The method is implemented by the aid of polymerase chain reaction-restriction fragment length polymorphism processes, and includes amplifying target DNA (deoxyribonucleic acid) fragments by means of polymerase chain reaction; digesting to-be-detected DNA fragments by the aid of restriction incision enzymes; identifying and cutting specific sequences by the aid of the restriction incision enzymes; carrying out electrophoresis on digested products; analyzing specific cleavage sites of the sequences of the fragments by the aid of restriction maps; comparing the differences of the gene sequences from different sources by the aid of the diversity of the fragments. The method has the advantages that briefly speaking, the corresponding target fragments are amplified by means of PCR (polymerase chain reaction) at first, then digestion reaction is carried out by the aid of the restriction incision enzymes, the restriction maps are observed and compared after electrophoresis is carried out, and accordingly the difference between the sequences can be analyzed; the method is good in repeatability, easy to implement and low in cost, and digestion results are easy to identify; the method and detection reagent kits which are easy to implement, low in cost and wide in application range can be provided for detecting the polymorphism of the human breast cancer susceptible genes RAD51 rs7180135.

Methods, computer-accessible medium, and systems for generating a genome wide probe map and / or a genome wide haplotype sequence are provided. In particular, a genome wide probe map can be generated by obtaining a plurality of detectable oligonucleotide probes hybridized to at least one double stranded nucleic acid molecule cleaved with at least one restriction enzyme, and detecting the location of the detectable oligonucleotide probes. For example, genome wide haplotype sequence can be generated by analyzing at least one genome wide restriction map in conjunction with at least one genome wide probe map to determine distances between restriction sites of the at least one genome wide restriction map and locations of detectable oligonucleotide probes of the at least one genome wide probe map and defining a consensus map indicating restriction sites based on each of the at least one genome wide restriction map and locations of detectable oligonucleotide probes based on each of the at least one genome wide probe map.

Disclosed is a computer-implemented method of determining at least one optimal alignment of at least part of a first map to at least part of a second map or a plurality of second maps, wherein the maps are physical genome maps and / or restriction maps. The method comprises: receiving first map data indicative of a first ordered list of distances between features of the first map, receiving second map data indicative of a second ordered list of distances between features of the second map or second maps; generating, from the second map data, seed data indicative of a plurality of seeds, each seed comprising at least one of the distances in the second ordered list, wherein the features are restriction sites and distances are fragment sizes. The said method further comprises generating a plurality of candidate alignments from the seed data by searching at least part of the first ordered list to find at least approximate matches for respective seeds, and extending the approximate matches bydynamic programming; determining respective alignment scores for respective candidate alignments; and selecting one or more of the candidate alignments as an optimal alignment or optimal alignments,based on the alignment scores.

The invention discloses a method for detecting a gene cassette array in a bacterium integron by using an EcoRII enzyme digestion map library, which comprises the following steps of: firstly, carrying out enzyme digestion on the gene cassette array by adopting the restriction enzyme EcoRII when a new screened gene cassette array is determined; comparing the gene cassette array with the constructed EcoRII enzyme digestion map library so as to determine the novelty of the gene cassette array; and selecting connection, transformation and sequencing analysis so as to realize purposeful sequencing if maps in the library are not matched with the gene cassette array. The method is accurate, rapid and economic and is convenient for information sharing. The method is more suitable for relevant departments such as hospitals, quarantine inspection, forecast, preventive treatment and the like to realize the effective monitoring and prevent the outbreak prevalent of drug-resistant bacteria caused by the horizontal transferring and spreading of the drug-resistant bacteria containing the integron under the condition that antibiotic misuse is not well restrained.

The present invention belongs to the field of Chinese medicine material quality identifying technology, and aims at providing one kind of PCR-RFLP method for identifying fritillary bulb and similar medicine material accurately. PCR amplification adopts the primer series including P1:5'-CGT AAC AAG GTT TCC GTA GGTGAA-3' and P2: 5' -GCT ACG TTC TTC ATC GAT-3'; the characteristic base sequence of fritillary bulb is 5'-TGCCCGCCCTGCCCGGGACCTCGC-3'; and the restriction endonuclease Sma I and its isoschizomer can identify and incise the sequence. The identification process includes: extracting medicine DNA, PCR amplification with the primers P1 and P2, digesting the PCR product with restriction endonuclease Sma I, agarose gel electrophoresis to obtain the analysis result, compared with fritillary bulb PCR-RFLP characteristic result to judge whether the sample is fritillary bulb.

The invention provides a polymerase chain reactino-restrictive enzyme-cut chart molecule (PCR-RFLP) method accurately identifying honeysuckle in genuine producing areas (Henan, Shandong) and nongenuine producing areas (other producing areas). The characteristic DNA alkali sequence of honeysuckle in genuine: 5'-GCCCCCCCGC CCCGCCTCCC ACAGGGTCGC G-3'; restrictive inner cut enayme EcoNi and its same cut-enzyme can identify and cut this sequence. The identifying course: extracting DNA of medical materials; using a pair of guide matters to make PCR increase; using restrictive inner cut enayme EcoNI and its same cut enayme to digest PCR product; analyzing the result by using gelation and electrophoresis of gelose; in contrast with the characteristic result of PCR-RFLP of genuine honeysuckle, judging if the tested product is genuine honeysuckle.

Disclosed is a PCR-RFLP identification method for different subgroups of sugarcane white leaf disease phytoplasma, wherein a tuf gene of a sugarcane white leaf disease phytoplasma is taken as an object for designing specific primers, a tuf gene fragment is obtained by PCR amplification, and a restriction endonuclease Msp I is then used to digest the tuf gene fragment obtained by amplification, and different subgroups of the sugarcane white leaf disease phytoplasma are distinguished by a differentiated RFLP restriction map. Therefore, a sugarcane white leaf disease phytoplasma subgroup 16SrXI-B and a sugarcane white leaf disease phytoplasma subgroup 16SrXI-D can be identified without sequencing.

The invention discloses a method and a kit for detecting a genotype of rs1801394 polymorphic locus of an MTRR gene. According to the method, the genotype of the rs1801394 locus of the MTRR gene is detected by a PCR-RFLP method; a PCR product carries an internal control restriction enzyme cutting site of NdeI or an isoschizomer thereof; a rapid restriction endonuclease is used for digestion of thePCR product to obtain a restriction map for genotyping, so that a typing time can be shortened; meanwhile, results can be comprehensively judged according to residual PCR products, residual digestionintermediate products and characteristic strips of each genotype sample after complete digestion so as to avoid genotype misjudgment caused by incomplete digestion of traditional methods.