WO2014152397A3 - Selective purification of rna and rna-bound molecular complexes - Google Patents
Selective purification of rna and rna-bound molecular complexes Download PDFInfo
- Publication number
- WO2014152397A3 WO2014152397A3 PCT/US2014/027298 US2014027298W WO2014152397A3 WO 2014152397 A3 WO2014152397 A3 WO 2014152397A3 US 2014027298 W US2014027298 W US 2014027298W WO 2014152397 A3 WO2014152397 A3 WO 2014152397A3
- Authority
- WO
- WIPO (PCT)
- Prior art keywords
- target nucleic
- rna
- sample
- interest
- nucleic acid
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Ceased
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Classifications
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6813—Hybridisation assays
- C12Q1/6816—Hybridisation assays characterised by the detection means
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
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- Chemical & Material Sciences (AREA)
- Organic Chemistry (AREA)
- Life Sciences & Earth Sciences (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Analytical Chemistry (AREA)
- Biophysics (AREA)
- Immunology (AREA)
- Microbiology (AREA)
- Molecular Biology (AREA)
- Biotechnology (AREA)
- Physics & Mathematics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Abstract
Disclosed are methods for isolating a target nucleic molecule of interest from a sample. The methods include contacting a sample comprising a target nucleic molecule of interest with at least one single stranded nucleic acid targeting probe comprising a nucleic acid sequence between about 30 nucleotide and the length of the target nucleic acid length that hybridizes to the target nucleic molecule of interest under highly stringent hybridization conditions. The probe comprises a capture moiety covalently linked to one or more nucleotide bases in the probe. The targeting probes can be captured with a specific binding agent that specifically binds the capture moiety, thereby isolating the target nucleic molecule of interest. In some embodiments, the sample is further contacted with a crosslinking agent before contacting the sample with a targeting probe. Thus, complexes formed with the target nucleic acid can also be isolated.
Priority Applications (1)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US14/774,635 US20160040218A1 (en) | 2013-03-14 | 2014-03-14 | Selective Purification of RNA and RNA-Bound Molecular Complexes |
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US201361784069P | 2013-03-14 | 2013-03-14 | |
| US61/784,069 | 2013-03-14 |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| WO2014152397A2 WO2014152397A2 (en) | 2014-09-25 |
| WO2014152397A3 true WO2014152397A3 (en) | 2014-12-04 |
Family
ID=51581704
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| PCT/US2014/027298 Ceased WO2014152397A2 (en) | 2013-03-14 | 2014-03-14 | Selective purification of rna and rna-bound molecular complexes |
Country Status (1)
| Country | Link |
|---|---|
| WO (1) | WO2014152397A2 (en) |
Cited By (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US11597968B2 (en) | 2016-05-12 | 2023-03-07 | Agency For Science, Technology And Research | Ribonucleic acid (RNA) interactions |
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| EP4234716A3 (en) | 2013-06-25 | 2023-12-06 | Prognosys Biosciences, Inc. | Methods for determining spatial patterns of biological targets in a sample |
| EP4119677B1 (en) | 2015-04-10 | 2023-06-28 | Spatial Transcriptomics AB | Spatially distinguished, multiplex nucleic acid analysis of biological specimens |
| CN118599963A (en) | 2017-09-22 | 2024-09-06 | 华盛顿大学 | In situ combinatorial labeling of cellular molecules |
| US11519033B2 (en) | 2018-08-28 | 2022-12-06 | 10X Genomics, Inc. | Method for transposase-mediated spatial tagging and analyzing genomic DNA in a biological sample |
| US12385083B2 (en) | 2018-12-10 | 2025-08-12 | 10X Genomics, Inc. | Methods of using master / copy arrays for spatial detection |
| JP2022512058A (en) * | 2018-12-21 | 2022-02-02 | イルミナ インコーポレイテッド | RNA depletion using nucleases |
| US11649485B2 (en) | 2019-01-06 | 2023-05-16 | 10X Genomics, Inc. | Generating capture probes for spatial analysis |
| US11926867B2 (en) | 2019-01-06 | 2024-03-12 | 10X Genomics, Inc. | Generating capture probes for spatial analysis |
| EP3976820A1 (en) | 2019-05-30 | 2022-04-06 | 10X Genomics, Inc. | Methods of detecting spatial heterogeneity of a biological sample |
| CN110205365B (en) * | 2019-07-02 | 2023-07-25 | 中山大学孙逸仙纪念医院 | A high-throughput sequencing method for efficiently studying the RNA interactome and its application |
| EP4025711A2 (en) | 2019-11-08 | 2022-07-13 | 10X Genomics, Inc. | Enhancing specificity of analyte binding |
| WO2021133849A1 (en) | 2019-12-23 | 2021-07-01 | 10X Genomics, Inc. | Methods for spatial analysis using rna-templated ligation |
| WO2021133842A1 (en) | 2019-12-23 | 2021-07-01 | 10X Genomics, Inc. | Compositions and methods for using fixed biological samples in partition-based assays |
| US12365942B2 (en) | 2020-01-13 | 2025-07-22 | 10X Genomics, Inc. | Methods of decreasing background on a spatial array |
| US12405264B2 (en) | 2020-01-17 | 2025-09-02 | 10X Genomics, Inc. | Electrophoretic system and method for analyte capture |
| US11702693B2 (en) | 2020-01-21 | 2023-07-18 | 10X Genomics, Inc. | Methods for printing cells and generating arrays of barcoded cells |
| US11732299B2 (en) | 2020-01-21 | 2023-08-22 | 10X Genomics, Inc. | Spatial assays with perturbed cells |
| US20210230681A1 (en) | 2020-01-24 | 2021-07-29 | 10X Genomics, Inc. | Methods for spatial analysis using proximity ligation |
| US12076701B2 (en) | 2020-01-31 | 2024-09-03 | 10X Genomics, Inc. | Capturing oligonucleotides in spatial transcriptomics |
| US11898205B2 (en) | 2020-02-03 | 2024-02-13 | 10X Genomics, Inc. | Increasing capture efficiency of spatial assays |
| US12110541B2 (en) | 2020-02-03 | 2024-10-08 | 10X Genomics, Inc. | Methods for preparing high-resolution spatial arrays |
| US11732300B2 (en) | 2020-02-05 | 2023-08-22 | 10X Genomics, Inc. | Increasing efficiency of spatial analysis in a biological sample |
| US12129516B2 (en) | 2020-02-07 | 2024-10-29 | 10X Genomics, Inc. | Quantitative and automated permeabilization performance evaluation for spatial transcriptomics |
| US12281357B1 (en) | 2020-02-14 | 2025-04-22 | 10X Genomics, Inc. | In situ spatial barcoding |
| US11891654B2 (en) | 2020-02-24 | 2024-02-06 | 10X Genomics, Inc. | Methods of making gene expression libraries |
| EP4549582A3 (en) | 2020-04-22 | 2025-06-18 | 10x Genomics, Inc. | Methods for spatial analysis using targeted rna depletion |
| EP4553168A3 (en) | 2020-05-22 | 2025-08-27 | 10x Genomics, Inc. | Spatial analysis to detect sequence variants |
| WO2021236929A1 (en) | 2020-05-22 | 2021-11-25 | 10X Genomics, Inc. | Simultaneous spatio-temporal measurement of gene expression and cellular activity |
| WO2021242834A1 (en) | 2020-05-26 | 2021-12-02 | 10X Genomics, Inc. | Method for resetting an array |
| US12031177B1 (en) | 2020-06-04 | 2024-07-09 | 10X Genomics, Inc. | Methods of enhancing spatial resolution of transcripts |
| ES2981265T3 (en) | 2020-06-08 | 2024-10-08 | 10X Genomics Inc | Methods for determining a surgical margin and methods of using it |
| WO2021252591A1 (en) | 2020-06-10 | 2021-12-16 | 10X Genomics, Inc. | Methods for determining a location of an analyte in a biological sample |
| EP4450639B1 (en) | 2020-06-25 | 2025-10-15 | 10X Genomics, Inc. | Spatial analysis of dna methylation |
| US11761038B1 (en) | 2020-07-06 | 2023-09-19 | 10X Genomics, Inc. | Methods for identifying a location of an RNA in a biological sample |
| US12209280B1 (en) | 2020-07-06 | 2025-01-28 | 10X Genomics, Inc. | Methods of identifying abundance and location of an analyte in a biological sample using second strand synthesis |
| US11981960B1 (en) | 2020-07-06 | 2024-05-14 | 10X Genomics, Inc. | Spatial analysis utilizing degradable hydrogels |
| WO2022025965A1 (en) * | 2020-07-31 | 2022-02-03 | 10X Genomics, Inc. | De-crosslinking compounds and methods of use for spatial analysis |
| US11981958B1 (en) | 2020-08-20 | 2024-05-14 | 10X Genomics, Inc. | Methods for spatial analysis using DNA capture |
| US11926822B1 (en) | 2020-09-23 | 2024-03-12 | 10X Genomics, Inc. | Three-dimensional spatial analysis |
| US11827935B1 (en) | 2020-11-19 | 2023-11-28 | 10X Genomics, Inc. | Methods for spatial analysis using rolling circle amplification and detection probes |
| EP4121555A1 (en) | 2020-12-21 | 2023-01-25 | 10X Genomics, Inc. | Methods, compositions, and systems for capturing probes and/or barcodes |
| WO2022221425A1 (en) | 2021-04-14 | 2022-10-20 | 10X Genomics, Inc. | Methods of measuring mislocalization of an analyte |
| WO2022236054A1 (en) | 2021-05-06 | 2022-11-10 | 10X Genomics, Inc. | Methods for increasing resolution of spatial analysis |
| EP4582555A3 (en) | 2021-06-03 | 2025-10-22 | 10X Genomics, Inc. | Methods, compositions, kits, and systems for enhancing analyte capture for spatial analysis |
| EP4196605B1 (en) | 2021-09-01 | 2024-12-04 | 10X Genomics, Inc. | Methods for blocking a capture probe on a spatial array |
| EP4419707A1 (en) | 2021-11-10 | 2024-08-28 | 10X Genomics, Inc. | Methods, compositions, and kits for determining the location of an analyte in a biological sample |
| WO2023102118A2 (en) | 2021-12-01 | 2023-06-08 | 10X Genomics, Inc. | Methods, compositions, and systems for improved in situ detection of analytes and spatial analysis |
| WO2023245190A1 (en) | 2022-06-17 | 2023-12-21 | 10X Genomics, Inc. | Catalytic de-crosslinking of samples for in situ analysis |
| WO2025196123A1 (en) * | 2024-03-20 | 2025-09-25 | Leibniz-Institut für Polymerforschung Dresden e. V. | System and method for capturing, separating, and purifying biomolecules |
Citations (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2000053811A1 (en) * | 1999-03-11 | 2000-09-14 | Orion Genomics, Llc | Genome chips and optical transcript mapping |
| US20100029498A1 (en) * | 2008-02-04 | 2010-02-04 | Andreas Gnirke | Selection of nucleic acids by solution hybridization to oligonucleotide baits |
-
2014
- 2014-03-14 WO PCT/US2014/027298 patent/WO2014152397A2/en not_active Ceased
Patent Citations (2)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| WO2000053811A1 (en) * | 1999-03-11 | 2000-09-14 | Orion Genomics, Llc | Genome chips and optical transcript mapping |
| US20100029498A1 (en) * | 2008-02-04 | 2010-02-04 | Andreas Gnirke | Selection of nucleic acids by solution hybridization to oligonucleotide baits |
Cited By (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US11597968B2 (en) | 2016-05-12 | 2023-03-07 | Agency For Science, Technology And Research | Ribonucleic acid (RNA) interactions |
Also Published As
| Publication number | Publication date |
|---|---|
| WO2014152397A2 (en) | 2014-09-25 |
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