EP3347497A4 - Nucleic acid analysis by joining barcoded polynucleotide probes - Google Patents

Nucleic acid analysis by joining barcoded polynucleotide probes Download PDF

Info

Publication number
EP3347497A4
EP3347497A4 EP16845310.8A EP16845310A EP3347497A4 EP 3347497 A4 EP3347497 A4 EP 3347497A4 EP 16845310 A EP16845310 A EP 16845310A EP 3347497 A4 EP3347497 A4 EP 3347497A4
Authority
EP
European Patent Office
Prior art keywords
joining
nucleic acid
acid analysis
polynucleotide probes
barcoded polynucleotide
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.)
Pending
Application number
EP16845310.8A
Other languages
German (de)
French (fr)
Other versions
EP3347497A2 (en
Inventor
Heather Koshinsky
John D. Curry
Robert O'CALLAHAN
Adam MCCOY
Daniel Fitzpatrick
Philip H. Dickinson
Anthony C. Schweitzer
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Affymetrix Inc
Original Assignee
Affymetrix Inc
Priority date (The priority date 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 date listed.)
Filing date
Publication date
Application filed by Affymetrix Inc filed Critical Affymetrix Inc
Publication of EP3347497A2 publication Critical patent/EP3347497A2/en
Publication of EP3347497A4 publication Critical patent/EP3347497A4/en
Pending legal-status Critical Current

Links

Classifications

    • 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6853—Nucleic acid amplification reactions using modified primers or templates

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
EP16845310.8A 2016-01-31 2016-11-08 Nucleic acid analysis by joining barcoded polynucleotide probes Pending EP3347497A4 (en)

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US201662289303P 2016-01-31 2016-01-31
US201662317879P 2016-04-04 2016-04-04
US201662353088P 2016-06-22 2016-06-22
PCT/US2016/060991 WO2017044993A2 (en) 2015-09-08 2016-11-08 Nucleic acid analysis by joining barcoded polynucleotide probes

Publications (2)

Publication Number Publication Date
EP3347497A2 EP3347497A2 (en) 2018-07-18
EP3347497A4 true EP3347497A4 (en) 2019-01-23

Family

ID=62083370

Family Applications (1)

Application Number Title Priority Date Filing Date
EP16845310.8A Pending EP3347497A4 (en) 2016-01-31 2016-11-08 Nucleic acid analysis by joining barcoded polynucleotide probes

Country Status (3)

Country Link
EP (1) EP3347497A4 (en)
CN (1) CN108026568A (en)
WO (1) WO2017044993A2 (en)

Families Citing this family (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JPWO2019004080A1 (en) * 2017-06-27 2020-04-23 国立大学法人 東京大学 Probes and methods for detecting transcripts resulting from fusion genes and / or exon skipping
EP3755812A1 (en) * 2018-02-22 2020-12-30 10X Genomics, Inc. Ligation mediated analysis of nucleic acids
US11639928B2 (en) 2018-02-22 2023-05-02 10X Genomics, Inc. Methods and systems for characterizing analytes from individual cells or cell populations
CN111100935B (en) * 2018-10-26 2023-03-31 厦门大学 Method for detecting drug resistance gene of bacteria
EP3906321A1 (en) * 2018-12-31 2021-11-10 HTG Molecular Diagnostics, Inc. Methods of detecting dna and rna in the same sample
CN110408717A (en) * 2019-07-23 2019-11-05 四川省农业科学院生物技术核技术研究所 The specific amplification primer of Ganoderma mitochondria rns gene and its application
EP4424843A3 (en) * 2019-12-23 2024-09-25 10X Genomics, Inc. Methods for spatial analysis using rna-templated ligation
US20230332205A1 (en) * 2020-10-01 2023-10-19 Google Llc Linked dual barcode insertion constructs
WO2022178185A1 (en) * 2021-02-17 2022-08-25 Act Genomics (Ip) Co., Ltd. Dna fragment joining detecting method and kit thereof
AU2022227563A1 (en) 2021-02-23 2023-08-24 10X Genomics, Inc. Probe-based analysis of nucleic acids and proteins

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005001113A2 (en) * 2003-06-27 2005-01-06 Thomas Jefferson University Methods for detecting nucleic acid variations
WO2005021794A2 (en) * 2003-09-02 2005-03-10 Keygene N.V. Ola-based methods for the detection of target nucleic acid sequences

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5912124A (en) * 1996-06-14 1999-06-15 Sarnoff Corporation Padlock probe detection
EP1727913B8 (en) * 2004-03-24 2009-08-19 Applied Biosystems, LLC Ligation and amplification reactions for determining target molecules
WO2006086502A2 (en) * 2005-02-09 2006-08-17 Stratagene California Key probe compositions and methods for polynucleotide detection
DK1991698T3 (en) * 2006-03-01 2014-03-10 Keygene Nv "High-throughput" -sekvensbaseret detection of SNPs using ligeringsassays
WO2013106807A1 (en) * 2012-01-13 2013-07-18 Curry John D Scalable characterization of nucleic acids by parallel sequencing
CN104830993B (en) * 2015-06-08 2017-08-18 中国海洋大学 The general typing method of a kind of high flux, polytype molecular labeling

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005001113A2 (en) * 2003-06-27 2005-01-06 Thomas Jefferson University Methods for detecting nucleic acid variations
WO2005021794A2 (en) * 2003-09-02 2005-03-10 Keygene N.V. Ola-based methods for the detection of target nucleic acid sequences

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
L. KVASTAD ET AL: "Single cell analysis of cancer cells using an improved RT-MLPA method has potential for cancer diagnosis and monitoring", SCIENTIFIC REPORTS, vol. 5, no. 1, 12 November 2015 (2015-11-12), XP055535938, DOI: 10.1038/srep16519 *

Also Published As

Publication number Publication date
WO2017044993A3 (en) 2017-04-27
CN108026568A (en) 2018-05-11
EP3347497A2 (en) 2018-07-18
WO2017044993A2 (en) 2017-03-16

Similar Documents

Publication Publication Date Title
EP3347497A4 (en) Nucleic acid analysis by joining barcoded polynucleotide probes
HK1250245A1 (en) Spatially distinguished, multiplex nucleic acid analysis of biological specimens
SG10202108763UA (en) Methods and compositions for nucleic acid analysis
SG10201913820TA (en) Nucleic Acid Analysis Apparatus
EP3161162A4 (en) Analysis of nucleic acid sequences
EP3169793A4 (en) Isothermal methods for amplifying nucleic acid samples
EP3372693A4 (en) Method for preparing nucleic acid sample
EP3201350A4 (en) Method for nucleic acid analysis directly from an unpurified biological sample
EP3173786A4 (en) Analysis method for diluted biological sample component
EP3304077A4 (en) Fluid sample analysis system
EP3611508A4 (en) Nucleic acid analysis apparatus using catridge
SG10202007321RA (en) Sample preparation for nucleic acid amplification
EP3134550A4 (en) High-throughput structure determination using nucleic acid calipers
EP3216852A4 (en) Method for introducing nucleic acid, method for detecting nucleic acid, method for analyzing biological component, array device for biological component assay, and kit for analyzing biological component
GB201403216D0 (en) Nucleic acid sample preparation
EP3512965C0 (en) Methods of nucleic acid sample preparation for analysis of cell-free dna
EP3385709A4 (en) Liquid sample analysis system
EP3272865A4 (en) High-sensitivity method for detecting target nucleic acid
HK1248818A1 (en) Improved biosensor system analyte measurement
EP3158088A4 (en) Nucleic acid sample preparation
GB201413318D0 (en) Nucleic acid sample preparation
GB2548733B (en) Nucleic acid analysis device
GB201513128D0 (en) Nucleic acid detection method
GB201418621D0 (en) Improved nucleic acid sample preparation using concatenation
GB201506669D0 (en) Nucleic acid sample enrichment

Legal Events

Date Code Title Description
STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: THE INTERNATIONAL PUBLICATION HAS BEEN MADE

PUAI Public reference made under article 153(3) epc to a published international application that has entered the european phase

Free format text: ORIGINAL CODE: 0009012

STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: REQUEST FOR EXAMINATION WAS MADE

17P Request for examination filed

Effective date: 20180406

AK Designated contracting states

Kind code of ref document: A2

Designated state(s): AL AT BE BG CH CY CZ DE DK EE ES FI FR GB GR HR HU IE IS IT LI LT LU LV MC MK MT NL NO PL PT RO RS SE SI SK SM TR

AX Request for extension of the european patent

Extension state: BA ME

A4 Supplementary search report drawn up and despatched

Effective date: 20190104

RIC1 Information provided on ipc code assigned before grant

Ipc: C12Q 1/68 20180101AFI20181220BHEP

Ipc: G01N 33/00 20060101ALI20181220BHEP

DAV Request for validation of the european patent (deleted)
DAX Request for extension of the european patent (deleted)
STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: EXAMINATION IS IN PROGRESS

17Q First examination report despatched

Effective date: 20200707

STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: EXAMINATION IS IN PROGRESS

STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: EXAMINATION IS IN PROGRESS