WO2014200905A3 - Early developmental genomic assay for characterizing pluripotent stem cell utility and safety - Google Patents

Early developmental genomic assay for characterizing pluripotent stem cell utility and safety Download PDF

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Publication number
WO2014200905A3
WO2014200905A3 PCT/US2014/041513 US2014041513W WO2014200905A3 WO 2014200905 A3 WO2014200905 A3 WO 2014200905A3 US 2014041513 W US2014041513 W US 2014041513W WO 2014200905 A3 WO2014200905 A3 WO 2014200905A3
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WO
WIPO (PCT)
Prior art keywords
stem cell
scorecard
early
suitability
early developmental
Prior art date
Application number
PCT/US2014/041513
Other languages
French (fr)
Other versions
WO2014200905A2 (en
Inventor
Alexander Meissner
Alexander TSANKOV
Veronika AKOPIAN
Original Assignee
President And Fellows Of Harvard College
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 President And Fellows Of Harvard College filed Critical President And Fellows Of Harvard College
Priority to JP2016519572A priority Critical patent/JP6697380B2/en
Priority to EP14811445.7A priority patent/EP3008229B1/en
Priority to US14/897,410 priority patent/US11085067B2/en
Publication of WO2014200905A2 publication Critical patent/WO2014200905A2/en
Publication of WO2014200905A3 publication Critical patent/WO2014200905A3/en
Priority to US15/983,209 priority patent/US10626445B2/en

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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
    • C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
    • 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
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2506/00—Differentiation of animal cells from one lineage to another; Differentiation of pluripotent cells
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2506/00—Differentiation of animal cells from one lineage to another; Differentiation of pluripotent cells
    • C12N2506/03—Differentiation of animal cells from one lineage to another; Differentiation of pluripotent cells from non-embryonic pluripotent stem cells
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/158—Expression markers
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/16—Primer sets for multiplex assays

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Zoology (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • Physics & Mathematics (AREA)
  • Biochemistry (AREA)
  • Microbiology (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)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Abstract

The present invention generally relates to a set of early developmental reference data or "lineage scorecard" for stem cells, and methods, systems and kits to generate a lineage scorecard for predicting the functionality and suitability of stem cell lines. In some aspects, methods for generating a scorecard comprises measuring the gene expression of a plurality of early developmental genes, such as pluripotent, early ectoderm, early mesoderm and early endoderm genes to predict the pluripotency and differentiation potential of the stem cell line and its functionality and/or suitability for a desired use. In some embodiments, a reference scorecard can be compared with the test stem cell line scorecard to accurately predict the utility and/or identify specific characteristics of the stem cell line, e.g., to determine its suitability for downstream applications, e.g., therapeutic use, drug screening, toxicity assays, differentiation into a desired cell lineage, etc.
PCT/US2014/041513 2013-06-10 2014-06-09 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety WO2014200905A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
JP2016519572A JP6697380B2 (en) 2013-06-10 2014-06-09 Early developmental genomic assay to characterize the utility and safety of pluripotent stem cells
EP14811445.7A EP3008229B1 (en) 2013-06-10 2014-06-09 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety
US14/897,410 US11085067B2 (en) 2013-06-10 2014-06-09 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety
US15/983,209 US10626445B2 (en) 2013-06-10 2018-05-18 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201361833092P 2013-06-10 2013-06-10
US61/833,092 2013-06-10

Related Child Applications (2)

Application Number Title Priority Date Filing Date
US14/897,410 A-371-Of-International US11085067B2 (en) 2013-06-10 2014-06-09 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety
US15/983,209 Continuation US10626445B2 (en) 2013-06-10 2018-05-18 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety

Publications (2)

Publication Number Publication Date
WO2014200905A2 WO2014200905A2 (en) 2014-12-18
WO2014200905A3 true WO2014200905A3 (en) 2015-03-05

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PCT/US2014/041513 WO2014200905A2 (en) 2013-06-10 2014-06-09 Early developmental genomic assay for characterizing pluripotent stem cell utility and safety

Country Status (4)

Country Link
US (2) US11085067B2 (en)
EP (1) EP3008229B1 (en)
JP (1) JP6697380B2 (en)
WO (1) WO2014200905A2 (en)

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WO2018052224A1 (en) 2016-09-13 2018-03-22 한국전자통신연구원 Video encoding/decoding method and device, and recording medium having bitstream stored therein
US10767164B2 (en) 2017-03-30 2020-09-08 The Research Foundation For The State University Of New York Microenvironments for self-assembly of islet organoids from stem cells differentiation
WO2018225868A1 (en) * 2017-06-10 2018-12-13 株式会社 島津製作所 METHOD FOR PREDICTING DIFFERENTIATION POTENCY OF iPS CELLS IN CARTILAGE CELLS USING GENE EXPRESSION PROFILES
WO2019045775A1 (en) * 2017-09-01 2019-03-07 Orig3N, Inc. Ipsc-derived secretome compositions, and related systems and methods
WO2019078342A1 (en) * 2017-10-20 2019-04-25 国立大学法人大阪大学 Method for selecting pluripotent stem cell having directivity of differentiation to cardiomyocyte
CN113646424A (en) * 2019-03-29 2021-11-12 富士胶片株式会社 Method for producing pluripotent stem cells having ability to differentiate into specific cells, and use thereof
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US10968493B1 (en) * 2020-03-12 2021-04-06 New England Biolabs, Inc. Rapid diagnostic test using colorimetric LAMP
CN115885048A (en) * 2020-06-19 2023-03-31 富士胶片株式会社 Biomarker determination method and cell production method
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Also Published As

Publication number Publication date
US10626445B2 (en) 2020-04-21
US11085067B2 (en) 2021-08-10
US20180251818A1 (en) 2018-09-06
JP2016532435A (en) 2016-10-20
EP3008229B1 (en) 2020-05-27
JP6697380B2 (en) 2020-05-20
EP3008229A2 (en) 2016-04-20
EP3008229A4 (en) 2017-03-01
WO2014200905A2 (en) 2014-12-18
US20160122803A1 (en) 2016-05-05

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