SG11202000444PA - Sequencing output determination and analysis with target-associated molecules in quantification associated with biological targets - Google Patents
Sequencing output determination and analysis with target-associated molecules in quantification associated with biological targetsInfo
- Publication number
- SG11202000444PA SG11202000444PA SG11202000444PA SG11202000444PA SG11202000444PA SG 11202000444P A SG11202000444P A SG 11202000444PA SG 11202000444P A SG11202000444P A SG 11202000444PA SG 11202000444P A SG11202000444P A SG 11202000444PA SG 11202000444P A SG11202000444P A SG 11202000444PA
- Authority
- SG
- Singapore
- Prior art keywords
- target
- spike
- international
- associated molecules
- molecules
- Prior art date
Links
Classifications
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- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
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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
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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
- C12Q1/6844—Nucleic acid amplification reactions
- C12Q1/6851—Quantitative amplification
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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
- C12Q1/6869—Methods for sequencing
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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
- C12Q1/6876—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
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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
- C12Q1/6876—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
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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
- C12Q2535/00—Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
- C12Q2535/101—Sanger sequencing method, i.e. oligonucleotide sequencing using primer elongation and dideoxynucleotides as chain terminators
Abstract
performingone or more sequencing operations, such as based on the one or more spike-in mixtures S determining one or more abundance metrics, such as based on the one or more sequencing operations for the one or more spike-in mixtures S140 facilitating characterization of one or more conditions (e.g., based on the one or more abundance metrics) S150 r (12) INTERNATIONAL APPLICATION PUBLISHED (19) World Intellectual Property Organization International Bureau UNDER THE PATENT COOPERATION TREATY (PCT) vitivio VIII oviolo v1111 tomo vimiE (10) International Publication Number WO 2019/028470 A2 (43) International Publication Date 07 February 2019 (07.02.2019) WIP0 I PCT (72) Inventors: TSAO, David; 2627 Hanover Street, Palo Alto, CA 94304 (US). ATAY, Oguzhan; 2627 Hanover Street, Palo Alto, CA 94304 (US). (74) Agent: SCHOX, Jeffrey; 500 3rd Street, Suite 215, San Francisco, CA 94107 (US). (81) Designated States (unless otherwise indicated, for every kind of national protection available): AE, AG, AL, AM, AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DJ, DK, DM, DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, LU, LY, MA, MD, ME, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. (51) International Patent Classification: C12Q 1/6869 (2018.01) (21) International Application Number: PCT/US2018/045419 (22) International Filing Date: 06 August 2018 (06.08.2018) English English (25) Filing Language: (26) Publication Language: (30) Priority Data: 62/541,565 04 August 2017 (04.08.2017) US (71) Applicant: BILLIONTOONE, INC. [US/US]; 2627 Hanover Street, Palo Alto, CA 94304 (US). (54) Title: SEQUENCING OUTPUT DETERMINATION AND ANALYSIS WITH TARGET-ASSOCIATED MOLECULES IN QUANTIFICATION ASSOCIATED WITH BIOLOGICAL TARGETS r validating one or more sample processing and/or computational processing approaches S105 processing a set of reference- associated molecules S115 generating a set of target-associated molecules associated with one or more biological targets S110 generating at least one spike-in mixture (e.g., based on the set of target-associated molecules, the set of reference-associated molecules, and one or more biological samples) S120 repeat with additional biological sample(s); for any suitable conditions facilitating treatment for the one or more conditions (e.g., based on the one or more abundance metrics) S160 FIGURE 1A (57) : Embodiments of a method and/or system can include generating a set of target- associated molecules (e.g., spike-in molecules) associated with one or more biological targets; generating one or more spike-in mixtures based on processing the set of target- associated molecules with one or more samples including the one or more biological targets; performing one or more Sanger sequencing operations on the one or more spike- in mixtures; determining one or more abundance metrics based on chromatogram- related outputs from the one or more Sanger sequencing operations; and/or facilitating characterization of one or more medical conditions based on the one or more abundance metrics. C N 00 C 1-1 C [Continued on next page] WO 2019/028470 A2 MIDEDIMOHIMIRDEIHNIMUMEHMEDIMIE (84) Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, ST, SZ, TZ, UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, EE, ES, FI, FR, GB, GR, HR, HU, IE, IS, IT, LT, LU, LV, MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, KM, ML, MR, NE, SN, TD, TG). Published: without international search report and to be republished upon receipt of that report (Rule 48.2(g))
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
US201762541565P | 2017-08-04 | 2017-08-04 | |
PCT/US2018/045419 WO2019028470A2 (en) | 2017-08-04 | 2018-08-06 | Sequencing output determination and analysis with target-associated molecules in quantification associated with biological targets |
Publications (1)
Publication Number | Publication Date |
---|---|
SG11202000444PA true SG11202000444PA (en) | 2020-02-27 |
Family
ID=65234231
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG11202000444PA SG11202000444PA (en) | 2017-08-04 | 2018-08-06 | Sequencing output determination and analysis with target-associated molecules in quantification associated with biological targets |
Country Status (12)
Country | Link |
---|---|
US (2) | US11430543B2 (en) |
EP (1) | EP3662085B1 (en) |
JP (2) | JP6955732B2 (en) |
KR (1) | KR102372572B1 (en) |
CN (1) | CN111094583A (en) |
AU (1) | AU2018312117B2 (en) |
BR (1) | BR112020002260A2 (en) |
CA (2) | CA3202766A1 (en) |
ES (1) | ES2923478T3 (en) |
IL (1) | IL272399A (en) |
SG (1) | SG11202000444PA (en) |
WO (1) | WO2019028470A2 (en) |
Families Citing this family (7)
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US20210057038A1 (en) * | 2019-07-25 | 2021-02-25 | Prime Discoveries, Inc. | Systems and methods for microbiome based sample classification |
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EP4314336A1 (en) * | 2021-03-23 | 2024-02-07 | BillionToOne, Inc. | Fragment analysis for quantitative diagnostics of biological targets |
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2018
- 2018-08-06 US US16/056,112 patent/US11430543B2/en active Active
- 2018-08-06 WO PCT/US2018/045419 patent/WO2019028470A2/en unknown
- 2018-08-06 CN CN201880057463.8A patent/CN111094583A/en active Pending
- 2018-08-06 EP EP18841428.8A patent/EP3662085B1/en active Active
- 2018-08-06 ES ES18841428T patent/ES2923478T3/en active Active
- 2018-08-06 AU AU2018312117A patent/AU2018312117B2/en active Active
- 2018-08-06 CA CA3202766A patent/CA3202766A1/en active Pending
- 2018-08-06 BR BR112020002260-8A patent/BR112020002260A2/en unknown
- 2018-08-06 SG SG11202000444PA patent/SG11202000444PA/en unknown
- 2018-08-06 KR KR1020207006309A patent/KR102372572B1/en active IP Right Grant
- 2018-08-06 CA CA3071366A patent/CA3071366C/en active Active
- 2018-08-06 JP JP2020504691A patent/JP6955732B2/en active Active
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2020
- 2020-02-02 IL IL272399A patent/IL272399A/en unknown
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2021
- 2021-09-22 JP JP2021153867A patent/JP7387110B2/en active Active
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2022
- 2022-08-01 US US17/816,662 patent/US20230197202A1/en active Pending
Also Published As
Publication number | Publication date |
---|---|
AU2018312117B2 (en) | 2022-05-12 |
EP3662085B1 (en) | 2022-06-22 |
JP7387110B2 (en) | 2023-11-28 |
KR20200098475A (en) | 2020-08-20 |
JP2022008482A (en) | 2022-01-13 |
JP2020529202A (en) | 2020-10-08 |
US11430543B2 (en) | 2022-08-30 |
US20190095577A1 (en) | 2019-03-28 |
CA3202766A1 (en) | 2019-02-07 |
CN111094583A (en) | 2020-05-01 |
BR112020002260A2 (en) | 2020-09-08 |
WO2019028470A2 (en) | 2019-02-07 |
ES2923478T3 (en) | 2022-09-27 |
EP3662085A4 (en) | 2021-05-05 |
KR102372572B1 (en) | 2022-03-08 |
CA3071366C (en) | 2023-08-01 |
CA3071366A1 (en) | 2019-02-07 |
EP3662085A2 (en) | 2020-06-10 |
IL272399A (en) | 2020-03-31 |
AU2018312117A1 (en) | 2020-02-06 |
JP6955732B2 (en) | 2021-10-27 |
US20230197202A1 (en) | 2023-06-22 |
WO2019028470A3 (en) | 2019-06-06 |
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