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1. 发明授权

EP3066218B1 METHODS FOR DETECTING NUCLEIC ACIDS 审中-公开
公开(公告)号：EP3066218B1
公开(公告)日：2018-12-26
申请号：EP14859794.1
申请日：2014-11-05
申请人： HTG Molecular Diagnostics, Inc.
发明人： ROUNSEVILLE, Matt , MODUR, Vijay
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6827 , C12Q1/6834 , C12Q2521/327 , C12Q2521/501 , C12Q2521/514 , C12Q2525/161 , C12Q2533/107 , C12Q2537/125 , C12Q2561/125 , C12Q2565/519 , C12Q2521/319
摘要： Disclosed herein are methods for detecting a target nucleic acid molecule in a sample. The methods can include contacting a sample with a detectably labeled probe (detection probe) that specifically binds to a first target sequence in the target nucleic acid molecule, a bifunctional oligonucleotide including a portion that specifically binds to a second target sequence in the target nucleic acid molecule and a portion that specifically binds to an anchor, and a surface comprising the anchor. Specifically bound detection probe and bifunctional oligonucleotide are ligated and a reagent that specifically removes substantially all of the target nucleic acid is added. Unligated detection probe is removed and presence of the detectable label is detected. In other embodiments, the ligation and/or removal of target nucleic acid are omitted and the detection probe specifically bound to the target nucleic acid is detected.

2. 发明公开

EP3411495A1 PLANT BREEDING USING NEXT GENERATION SEQUENCING 审中-公开
公开(公告)号：EP3411495A1
公开(公告)日：2018-12-12
申请号：EP17702047.6
申请日：2017-01-25
申请人： Fraunhofer-Gesellschaft zur Förderung der angewandten Forschung e.V.
发明人： SCHROPER, Florian , FRITSCH, Leonie , SCHILLBERG, Stefan
IPC分类号： C12Q1/68 , A01H1/04
CPC分类号： A01H1/04 , C12Q1/686 , C12Q1/6869 , C12Q2525/161 , C12Q2525/185 , C12Q2525/191 , C12Q2535/122 , C12Q2537/143 , C12Q2563/179 , C12Q2531/113
摘要： The technology provided herein relates to novel methods for screening/detecting of plants, in particular by a multiplex PCR-based combined with a next-generation sequencing approach to analyze a plurality of characteristics (e.g. target sequences) of an individual plant in parallel.

3. 发明授权

EP3174997B1 METHOD FOR SELECTING A TARGET NUCLEIC ACID SEQUENCE 有权
公开(公告)号：EP3174997B1
公开(公告)日：2018-12-05
申请号：EP15744927.3
申请日：2015-07-31
申请人： Olink Bioscience AB
发明人： LANDEGREN, Ulf , NONG, Yuan
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6806 , C12Q1/6827 , C12Q2525/131 , C12Q2525/161 , C12Q2525/301 , C12Q2525/307 , C12Q2531/125 , C12Q2533/107 , C12Q2537/149 , C12Q2537/159
摘要： The present invention relates to a method of selecting a target region of interest (ROI) in a target nucleic acid molecule using a nucleic acid probe comprising sequences capable of directing the cleavage of a target nucleic acid molecule to release a fragment comprising the ROI and sequences capable of templating the circularisation and ligation of the target fragment. The circularised molecule thus obtained contains the selected ROI and may be subjected to further analysis and/or amplification etc. Also provided are probes and kits for use in such methods.

4. 发明授权

EP3030680B1 MELT DISCRIMINATION AND MULTIPLEXING IN NUCLEIC ACID ASSAYS 有权
公开(公告)号：EP3030680B1
公开(公告)日：2018-10-03
申请号：EP14834166.2
申请日：2014-08-11
申请人： Luminex Corporation
发明人： WHITMAN, Doug , ARAB, Nicolas , COLLINS, Chuck
IPC分类号： C12Q1/6818 , G01N33/53
CPC分类号： C12Q1/6818 , C12Q2525/186 , C12Q2527/107 , C12Q2561/109 , C12Q2525/161 , C12Q2525/301 , C12Q2533/101 , C12Q2537/143
摘要： Methods and compositions for the detection and quantification of nucleic acids are provided. In certain embodiments, methods involve the use of primers or probes that comprise a non-natural nucleotide linked to a reporter. Target nucleic acids are detected by the polymerization of a complementary probe or primer that incorporated a cognate non-natural nucleotide linked to a quencher.

5. 发明公开

EP3377652A1 A METHOD AND A KIT FOR NUCLEIC ACID DETECTION 审中-公开
公开(公告)号：EP3377652A1
公开(公告)日：2018-09-26
申请号：EP16823042.3
申请日：2016-11-17
申请人： Fondazione Istituto Italiano di Tecnologia
发明人： POMPA, Pier Paolo , VALENTINI, Paola
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6832 , C12Q1/682 , C12Q1/6823 , C12Q1/6827 , C12Q1/6848 , C12Q2521/301 , C12Q2525/131 , C12Q2525/161 , C12Q2537/143
摘要： Methods for detecting DNA or RNA target nucleic acids are provided. Such methods are based on isothermal amplification of nucleic acids mediated by cooperative hybridization, designated as exponential CHAMP. Kits for implementing methods for detecting DNA or RNA target nucleic acids based on isothermal amplification of nucleic acids mediated by cooperative hybridization are also provided.

6. 发明授权

EP3049539B1 METHODS FOR DETECTING NUCLEIC ACID FRAGMENTS 有权
公开(公告)号：EP3049539B1
公开(公告)日：2018-09-05
申请号：EP14850060.6
申请日：2014-09-25
申请人： Bio-Id Diagnostic Inc.
发明人： VINAYAGAMOORTHY, Thuraiayah
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6806 , C12Q1/6853 , C12Q1/6858 , C12Q1/6886 , C12Q2600/156 , C12Q2525/186 , C12Q2525/155 , C12Q2525/161 , C12Q2525/207 , C12Q2525/307 , C12Q2531/113 , C12Q2535/122 , C12Q2535/125
摘要： Provided are methods for detecting and analyzing polynucleotides in a biological sample or sample derived therefrom for example, using a synthetic template polynucleotide. In some aspects, a target polynucleotide in the sample hybridizes to the template polynucleotide and is extended by a polymerase, generating an extended target polynucleotide. In some examples, the extended target polynucleotide is amplified, for example, by polymerase chain reaction, and sequences of the target polynucleotide determined, for example, by priming in the region of the extended target polynucleotide generated by extension and sequencing towards the region having identity to the target polynucleotide. In some aspects, the target polynucleotide is thereby detected in the sample and its sequence identified. In some aspects, the provided methods can be used to capture polynucleotide fragments in a biological sample, for example, plasma, and determine respective biomarkers they carry, for example, for cancer diagnosis and prognosis.

7. 发明授权

EP3056574B1 METHOD TO DETECT REPEAT SEQUENCE MOTIFS IN NUCLEIC ACID 有权
公开(公告)号：EP3056574B1
公开(公告)日：2018-08-22
申请号：EP16151944.2
申请日：2011-02-04
申请人： Quest Diagnostics Investments Incorporated
发明人： HANTASH, Feras , SUN, Weimin , TSAO, David C. , ROOT, Dana Marie , STROM, Charles M.
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6883 , C12Q1/6827 , C12Q1/683 , C12Q1/6858 , C12Q2600/154 , C12Q2600/156 , C12Q2600/158 , C12Q2600/16 , G06F19/10 , C12Q2525/151 , C12Q2525/155 , C12Q2525/161 , C12Q2537/16
摘要： Methods for determining the presence or absence of expansion of CGG repeat sequence in the FMR1 gene presence or absence of expansion of CCG repeat sequence in the FMR2 gene are provided. The methods are useful in identifying an individual with normal/intermediate, versus premutation or full mutation allele of FMR1 gene and FMR2 gene due to the expansion of CGG repeats and CCG repeats in the 5'-untranslated region respectively. The methods are also useful for screening newborns for fragile X syndrome or for screening women to determine heterozygosity status with full premutation of the CCG repeat tract. The methods are also useful in estimating the premutation and full mutation carrier frequency and estimating the prevalence of FXTAS AND FXPOI in a population. The methods are simple, rapid and require small amount of sample.

8. 发明公开

EP3359683A1 A NOVEL METHOD FOR THE PREPARATION OF BAR-CODED PRIMER SETS 审中-公开
公开(公告)号：EP3359683A1
公开(公告)日：2018-08-15
申请号：EP16775753.3
申请日：2016-10-05
申请人： Helmholtz Zentrum München - Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH)
发明人： DRUKKER, Micha , OPPERER, Florian , KRENDL, Christian , SÖNMEZER, Can
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6806 , C12Q2525/155 , C12Q2525/161 , C12Q2563/179 , C12Q2565/514
摘要： The present invention relates to a method of producing a set of primers suitable for the reverse transcription and/or amplification of a plurality (N) of nucleic acid molecules of interest, wherein for each nucleic acid molecule of interest at least one primer is produced and wherein the primers carry a bar-code, the method comprising the steps of: (a)(i) combining (1 ) a first oligonucleotide, wherein said first oligonucleotide comprises a first bar-code nucleic acid sequence linked at its 3' end to a first adapter nucleic acid sequence with (2) a plurality (N) of second oligonucleotides, wherein each second oligonucleotide comprises the reverse complementary sequence of a forward primer specific for a nucleic acid molecule of interest, wherein said reverse complementary sequence of the forward primer is linked at its 3' end to the reverse complementary sequence of the first adapter nucleic acid sequence; and/or (a)(ii) combining (1 ) a third oligonucleotide, wherein said third oligonucleotide comprises a second bar-code nucleic acid sequence linked at its 3' end to a second adapter nucleic acid sequence with (2) a plurality (N) of fourth oligonucleotides, wherein each fourth oligonucleotide comprises the reverse complementary sequence of a reverse primer specific for said nucleic acid molecule of interest, wherein said reverse complementary sequence of the reverse primer is linked at its 3' end to the reverse complementary sequence of the second adapter nucleic acid sequence; wherein steps (a)(i) and (a)(ii) are carried out under conditions that enable the annealing of the first and second adapter nucleic acid sequences to the respective reverse complementary sequences thereof; (b) extending the oligonucleotides of (a)(i) and (a)(ii) by polymerase-mediated oligonucleotide synthesis; and (c) optionally, removing the second and fourth oligonucleotides. The present invention further relates to methods of producing a plurality (M) of nucleic acid amplification products of interest carrying at least one sample-specific bar-code as well as to a method for multiplex sequencing of a plurality (M) of nucleic acid amplification products of interest from a plurality (X) of samples in a single reaction chamber and identifying the individual sample from which each nucleic acid amplification product is derived. Furthermore, the present invention relates to a target- unspecific bar-code-adapter panel, its use in the methods of the invention as well as a kit comprising same.

9. 发明公开

EP3354746A1 NOVEL SPIKE-IN OLIGONUCLEOTIDES FOR NORMALIZATION OF SEQUENCE DATA 有权转让
公开(公告)号：EP3354746A1
公开(公告)日：2018-08-01
申请号：EP17153689.9
申请日：2017-01-30
申请人： Gregor Mendel Institute of Molecular Plant Biology GmbH
发明人： NODINE, Michael Douglas
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6869 , C12Q1/6809 , C12Q2525/207 , C12Q2535/122 , C12Q2545/101 , C12Q2525/161 , C12Q2525/179
摘要： The invention relates to novel spike-in oligonucleotides specifically for use in normalization of small RNA sequence data. The invention specifically provides sets each comprising at least two subsets of single stranded nucleic acid molecules, each nucleic acid molecule comprising a 5'phosphate, a sequence of at least 3 randomized nucleotides, a core sequence of at least 8 core nucleotides containing at least one mismatch compared to a target sequence, a sequence of at least 3 randomized nucleotides, and a 3'modification, wherein each subset comprises a plurality of nucleic acid molecules having an identical core nucleotide sequence and different randomized nucleotides, and wherein the nucleic acid molecules of each subset differ in at least one nucleotide of the core nucleotide sequence and the generation of a library containing the sets. The invention also relates to reference values in nucleotide sequencing and a method for determining the amount of target sequences in a sample.

10. 发明公开

EP3152331A4 METHOD FOR IDENTIFICATION AND ENUMERATION OF NUCLEIC ACID SEQUENCE, EXPRESSION, COPY, OR DNA METHYLATION CHANGES, USING COMBINED NUCLEASE, LIGASE, POLYMERASE, AND SEQUENCING REACTIONS 有权
公开(公告)号：EP3152331A4
公开(公告)日：2018-05-09
申请号：EP15802743
申请日：2015-06-08
申请人： UNIV CORNELL
发明人： BARANY FRANCIS , EFCAVITCH JOHN WILLIAM
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6874 , C12N15/1068 , C12Q1/6806 , C12Q1/6809 , C12Q1/6816 , C12Q1/6844 , C12Q1/6848 , C12Q1/6855 , C12Q1/6869 , C12Q2531/125 , C12Q2535/122 , C12Q2537/143 , C12Q2565/501 , C12Q2521/319 , C12Q2521/325 , C12Q2521/331 , C12Q2521/501 , C12Q2525/155 , C12Q2525/161 , C12Q2525/179 , C12Q2525/191 , C12Q2525/307 , C12Q2563/179
摘要： The present invention relates to a method for the highly specific, targeted capture of regions of human genomes and transcriptomes from the blood, i.e. from cell free circulating DNA, exosomes, microRNA, circulating tumor cells, or total blood cells, to allow for the highly sensitive detection of mutation, expression, copy number, translocation, alternative splicing, and methylation changes using combined nuclease, ligation, polymerase, and massively parallel sequencing reactions. The method generates a collection of different circular chimeric single-stranded nucleic acid constructs, suitable for sequencing on multiple platforms. In some embodiments, each construct of the collection comprised a first single stranded segment of original genomic DNA from a host organism and a second single stranded synthetic nucleic acid segment that is linked to the first single stranded segment and comprises a nucleotide sequence that is exogenous to the host organism. These chimeric constructs are suitable for identifying and enumerating mutations, copy changes, translocations, and methylation changes. In other embodiments, input mRNA, IncRNA, or miRNA is used to generate circular DNA products that reflect the presence and copy number of specific mRNA's, IncRNA's splice-site variants, translocations, and miRNA.

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