NZ763540B2 - Genetic regulation - Google Patents

Genetic regulation

Info

Publication number
NZ763540B2
NZ763540B2 NZ763540A NZ76354018A NZ763540B2 NZ 763540 B2 NZ763540 B2 NZ 763540B2 NZ 763540 A NZ763540 A NZ 763540A NZ 76354018 A NZ76354018 A NZ 76354018A NZ 763540 B2 NZ763540 B2 NZ 763540B2
Authority
NZ
New Zealand
Prior art keywords
chromosome
probe
absence
process according
nucleic acid
Prior art date
Application number
NZ763540A
Other versions
NZ763540A (en
Inventor
Alexandre Akoulitchev
Ewan Hunter
Aroul Selvam Ramadass
Original Assignee
Oxford BioDynamics PLC
Filing date
Publication date
Application filed by Oxford BioDynamics PLC filed Critical Oxford BioDynamics PLC
Priority claimed from PCT/GB2018/053196 external-priority patent/WO2019086898A2/en
Publication of NZ763540A publication Critical patent/NZ763540A/en
Publication of NZ763540B2 publication Critical patent/NZ763540B2/en

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
    • C12Q1/686—Polymerase chain reaction [PCR]
    • 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
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • 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
    • C12Q2600/106—Pharmacogenomics, i.e. genetic variability in individual responses to drugs and drug metabolism

Abstract

process for determining how responsive an individual is to anti-PD-1 or anti-PD-L1 therapy comprising detecting the presence or absence of at least 10 chromosome interactions in the individual represented by specific probes.

Claims (11)

1. A process for determining how responsive an individual is to anti-PD-1 or anti-PD-L1 therapy comprising detecting the presence or absence of at least 10 chromosome interactions in the individual represented by any 10 probes shown in Table 1, and wherein the presence or absence of at least chromosome interaction ORF712_9_120888366_120893320_120913546_120919710_RR corresponding to probe AGTGCTGGGTTCCACACCTCTCAGCTCTTCGACCTCCAGGTCCCCCGCCACTTCCACGGC is detected.
2. A process according to claim 1 in which the presence or absence of the chromosome interactions is detected by detecting the presence or e of a DNA loop at the site of the chromosome interactions.
3. A process according to claim 1 in which the presence or absence of the chromosome interactions is detected by ing the presence or absence of distal regions of a chromosome being brought together in a chromosome conformation.
4. A process according to claim 1 in which the presence or absence of the chromosome interactions is detected by detecting the presence of a ligated nucleic acid whose sequence comprises two regions each corresponding to the regions of the chromosome which come together in the chromosome interaction.
5. A process according to claim 4 wherein detection of the ligated nucleic acid is by a probe that has at least 70% ty to any of the specific probe sequences mentioned in Table 1.
6. A process ing to any one of the preceding claims, wherein the process is carried out to select an individual for a medical treatment.
7. A process ing to claim 4 or 5, wherein determining the presence or absence of the chromosome interactions comprises ic detection of the ligated nucleic acid by tative PCR (qPCR) which uses primers capable of amplifying the d nucleic acid and a probe which binds the ligation site during the PCR reaction, wherein said probe comprises sequence which is complementary to sequence from each of the chromosome regions that have come together in the chromosome interaction.
8. A s according to claim 7 wherein said probe comprises a phore covalently attached to the 5’ end of the probe.
9. A process according to claims 7 or 8 wherein said probe comprises a quencher covalently attached to the 3’ end of the probe.
10. A process ing to any one of claims 7 to 9, wherein said probe comprises a nucleic acid sequence of length 10 to 40 nucleotide bases.
11. A process according to claim 10 wherein said probe has a length of 20 to 30 nucleotide bases.
NZ763540A 2018-11-02 Genetic regulation NZ763540B2 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201762581287P 2017-11-03 2017-11-03
GB2018052818 2018-10-03
PCT/GB2018/053196 WO2019086898A2 (en) 2017-11-03 2018-11-02 Genetic regulation

Publications (2)

Publication Number Publication Date
NZ763540A NZ763540A (en) 2025-03-28
NZ763540B2 true NZ763540B2 (en) 2025-07-01

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