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WO2019046768A8 - Symbolic sequencing of dna and rna via sequence encoding - Google Patents

Symbolic sequencing of dna and rna via sequence encoding Download PDF

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Publication number
WO2019046768A8
WO2019046768A8 PCT/US2018/049173 US2018049173W WO2019046768A8 WO 2019046768 A8 WO2019046768 A8 WO 2019046768A8 US 2018049173 W US2018049173 W US 2018049173W WO 2019046768 A8 WO2019046768 A8 WO 2019046768A8
Authority
WO
WIPO (PCT)
Prior art keywords
sequence encoding
dna
sequencing
symbolic
rna via
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
Application number
PCT/US2018/049173
Other languages
French (fr)
Other versions
WO2019046768A1 (en
Inventor
David Yu Zhang
Yan Yan
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.)
William Marsh Rice University
Original Assignee
William Marsh Rice University
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 William Marsh Rice University filed Critical William Marsh Rice University
Publication of WO2019046768A1 publication Critical patent/WO2019046768A1/en
Publication of WO2019046768A8 publication Critical patent/WO2019046768A8/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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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
    • C12Q1/6869—Methods for sequencing
    • 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
    • C12Q1/6827—Hybridisation assays for detection of mutation or polymorphism
    • 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
    • C12Q1/6862—Ligase chain reaction [LCR]

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (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)

Abstract

Provided herein are new compositions and methods for profiling DNA and RNA using next-generation sequencing (NGS). In particular, target nucleic acid sequences are sequence encoded. Sequence encoding stoichiometrically "translates" the target nucleic acid sequences into rationally-designed short Codewords that compactly and error-resiliently encode the targets' sequence information and can be efficiently and accurately sequenced by short-read NGS platforms.
PCT/US2018/049173 2017-08-31 2018-08-31 Symbolic squencing of dna and rna via sequence encoding Ceased WO2019046768A1 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201762552652P 2017-08-31 2017-08-31
US62/552,652 2017-08-31

Publications (2)

Publication Number Publication Date
WO2019046768A1 WO2019046768A1 (en) 2019-03-07
WO2019046768A8 true WO2019046768A8 (en) 2019-12-05

Family

ID=65526066

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2018/049173 Ceased WO2019046768A1 (en) 2017-08-31 2018-08-31 Symbolic squencing of dna and rna via sequence encoding

Country Status (1)

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WO (1) WO2019046768A1 (en)

Families Citing this family (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2018094108A1 (en) 2016-11-16 2018-05-24 Catalog Technologies, Inc. Nucleic acid-based data storage
US10650312B2 (en) 2016-11-16 2020-05-12 Catalog Technologies, Inc. Nucleic acid-based data storage
KR20200132921A (en) 2018-03-16 2020-11-25 카탈로그 테크놀로지스, 인크. Chemical methods for storing nucleic acid-based data
WO2020028912A2 (en) 2018-08-03 2020-02-06 Catolog Technologies, Inc Systems and methods for storing and reading nucleic acid-based data with error protection
CA3139819A1 (en) 2019-05-09 2020-11-12 Catalog Technologies, Inc. Data structures and operations for searching, computing, and indexing in dna-based data storage
CA3157804A1 (en) 2019-10-11 2021-04-15 Catalog Technologies, Inc. Nucleic acid security and authentication
JP2023546315A (en) * 2020-09-08 2023-11-02 カタログ テクノロジーズ， インコーポレイテッド Systems and methods for sequencing-based writing of nucleic acids
US12474994B2 (en) 2022-12-05 2025-11-18 Western Digital Technologies, Inc. Preprocessing for correcting insertions and deletions in DNA data storage
US20250088203A1 (en) * 2023-09-11 2025-03-13 Western Digital Technologies, Inc. Multi-Tier Error Correction Codes for DNA Data Storage

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7361489B2 (en) * 2001-10-15 2008-04-22 Mount Sinai School Of Medicine Of New York University Nucleic acid amplification methods
WO2007041621A2 (en) * 2005-10-03 2007-04-12 Xingsheng Sean Ling Hybridization assisted nanopore sequencing
WO2011021105A2 (en) * 2009-08-19 2011-02-24 University Of Sao Paulo Generation and reproduction of dna sequences and analysis of polymorphisms and mutations by using error-correcting codes
US9745616B2 (en) * 2011-05-17 2017-08-29 Dxterity Diagnostics Incorporated Methods and compositions for detecting target nucleic acids
US20140302486A1 (en) * 2011-09-02 2014-10-09 President And Fellows Of Harvard College Systems and methods for detecting biomarkers of interest
CN104995309B (en) * 2012-12-07 2020-12-08 因维蒂公司 Multiplex nucleic acid detection method

Also Published As

Publication number Publication date
WO2019046768A1 (en) 2019-03-07

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