CA3176922A1 - Sequential encoding methods and related kits - Google Patents

Sequential encoding methods and related kits

Info

Publication number
CA3176922A1
CA3176922A1 CA3176922A CA3176922A CA3176922A1 CA 3176922 A1 CA3176922 A1 CA 3176922A1 CA 3176922 A CA3176922 A CA 3176922A CA 3176922 A CA3176922 A CA 3176922A CA 3176922 A1 CA3176922 A1 CA 3176922A1
Authority
CA
Canada
Prior art keywords
tag
binding agent
nucleic acid
macromolecule
binding
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
CA3176922A
Other languages
English (en)
French (fr)
Inventor
Mark S. Chee
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.)
Encodia Inc
Original Assignee
Encodia 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 Encodia Inc filed Critical Encodia Inc
Publication of CA3176922A1 publication Critical patent/CA3176922A1/en
Pending legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B70/00—Tags or labels specially adapted for combinatorial chemistry or libraries, e.g. fluorescent tags or bar codes
    • 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
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1065—Preparation or screening of tagged libraries, e.g. tagged microorganisms by STM-mutagenesis, tagged polynucleotides, gene tags
    • 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

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biomedical Technology (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Plant Pathology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • General Chemical & Material Sciences (AREA)
  • Medicinal Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Peptides Or Proteins (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
CA3176922A 2020-08-19 2021-08-16 Sequential encoding methods and related kits Pending CA3176922A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US202063067744P 2020-08-19 2020-08-19
US63/067,744 2020-08-19
PCT/US2021/046164 WO2022040098A1 (en) 2020-08-19 2021-08-16 Sequential encoding methods and related kits

Publications (1)

Publication Number Publication Date
CA3176922A1 true CA3176922A1 (en) 2022-02-24

Family

ID=80350651

Family Applications (1)

Application Number Title Priority Date Filing Date
CA3176922A Pending CA3176922A1 (en) 2020-08-19 2021-08-16 Sequential encoding methods and related kits

Country Status (8)

Country Link
US (1) US12668793B2 (enExample)
EP (2) EP4196581B1 (enExample)
JP (1) JP2023538074A (enExample)
CN (1) CN116685725A (enExample)
AU (1) AU2021329812B2 (enExample)
CA (1) CA3176922A1 (enExample)
ES (1) ES3073780T3 (enExample)
WO (1) WO2022040098A1 (enExample)

Families Citing this family (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2023201365A1 (en) * 2022-04-15 2023-10-19 Encodia, Inc. High throughput peptide identification using conjugated binders and kinetic encoding
IL328221A (en) * 2023-11-09 2026-07-01 2026 Df Peptide Acquisition Llc Methods for identifying polypeptides

Family Cites Families (41)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
SE9400088D0 (sv) 1994-01-14 1994-01-14 Kabi Pharmacia Ab Bacterial receptor structures
US5834252A (en) 1995-04-18 1998-11-10 Glaxo Group Limited End-complementary polymerase reaction
JP3124507B2 (ja) 1996-05-24 2001-01-15 セイコーインスツルメンツ株式会社 タンパク質あるいはペプチドのカルボキシ末端からのアミノ酸配列を決定する方法
WO2003062444A2 (en) 2001-11-13 2003-07-31 Emory University Array systems and methods
ATE447626T1 (de) 2003-09-18 2009-11-15 Nuevolution As Methode zur gewinnung struktureller informationen kodierter moleküle und zur selektion von verbindungen
US20060183863A1 (en) 2005-02-14 2006-08-17 Ciphergen Biosystems, Inc. Zwitterionic polymers
LT3018206T (lt) 2005-12-01 2021-12-10 Nuevolution A/S Fermentiniai kodavimo būdai, skirti didelių bibliotekų efektyviai sintezei
CN100510069C (zh) 2006-07-13 2009-07-08 上海交通大学 等温单向生长的基因合成方法
CN101560538A (zh) 2008-04-17 2009-10-21 上海青兰生物科技有限公司 一种等温双向生长的基因合成方法
CA2745197A1 (en) 2008-12-01 2010-06-10 Research Triangle Institute Concurrent identification of multitudes of polypeptides
US9566335B1 (en) 2009-09-25 2017-02-14 The Governing Council Of The University Of Toronto Protein sequencing method and reagents
US20110143955A1 (en) 2009-10-11 2011-06-16 Weiner Michael P Protein Capture, Detection and Quantitation
WO2012049285A1 (en) 2010-10-14 2012-04-19 Octapharma Ag A method for the quantitative glycosylation analysis of proteins
WO2012064975A1 (en) * 2010-11-12 2012-05-18 Gen9, Inc. Protein arrays and methods of using and making the same
WO2012099832A2 (en) 2011-01-17 2012-07-26 Life Technologies Corporation Enzymatic ligation of nucleic acids
EP2726494B1 (en) 2011-06-28 2017-01-04 Whitehead Institute For Biomedical Research Using sortases to install click chemistry handles for protein ligation
US9335292B2 (en) 2011-10-13 2016-05-10 Auburn University Electrochemical proximity assay
US9435810B2 (en) 2013-03-15 2016-09-06 Washington University Molecules and methods for iterative polypeptide analysis and processing
CN104212791B (zh) 2013-06-03 2019-03-08 无锡青兰生物科技有限公司 一种基于双向等温延伸的核酸合成方法
CN111500680B (zh) 2013-06-25 2024-04-16 普罗格诺西斯生物科学公司 检测样品中生物靶标的空间分布的方法和系统
US20170212101A1 (en) 2014-07-18 2017-07-27 Cdi Laboratories, Inc. Methods and compositions to identify, quantify, and characterize target analytes and binding moieties
ES3062422T3 (en) 2015-02-10 2026-04-10 Illumina Inc Compositions for analyzing cellular components
KR102516168B1 (ko) 2016-05-02 2023-03-30 엔코디아, 인코포레이티드 암호화 핵산을 사용한 거대분자 분석
WO2018005720A1 (en) * 2016-06-30 2018-01-04 President And Fellows Of Harvard College Method of determining the molecular binding between libraries of molecules
IL265478B2 (en) 2016-09-26 2024-10-01 Becton Dickinson Co Measurement of protein expression using reagents with barcoded oligonucleotide sequences
CN109906274B (zh) * 2016-11-08 2023-08-25 贝克顿迪金森公司 用于细胞标记分类的方法
JP2020514746A (ja) 2016-12-01 2020-05-21 ノーティラス バイオテクノロジー インコーポレイテッド タンパク質をアッセイする方法
WO2018204854A1 (en) * 2017-05-05 2018-11-08 The United States Of America, As Represented By The Secretary, Department Of Health And Human Services Methods of preparing a re-usable single cell and methods for analyzing the epigenome, transcriptome, and genome of a single cell
WO2019089846A1 (en) 2017-10-31 2019-05-09 Encodia, Inc. Methods and compositions for polypeptide analysis
US20210396762A1 (en) 2020-06-19 2021-12-23 Encodia, Inc. Methods for peptide analysis employing multi-component detection agent and related kits
MX2020004559A (es) 2017-10-31 2020-10-05 Encodia Inc Kits para análisis utilizando codificación y/o etiqueta de ácido nucleico.
US20210355483A1 (en) 2017-10-31 2021-11-18 Encodia, Inc. Methods and kits using nucleic acid encoding and/or label
AU2019301750A1 (en) 2018-07-12 2021-01-28 Board Of Regents, The University Of Texas System Molecular neighborhood detection by oligonucleotides
AU2019334983A1 (en) 2018-09-04 2021-03-18 Encodia, Inc. Proximity interaction analysis
MX2021011726A (es) 2019-03-26 2021-10-22 Encodia Inc Escindasas modificadas, usos de las mismas y kits relacionados.
US11427814B2 (en) 2019-03-26 2022-08-30 Encodia, Inc. Modified cleavases, uses thereof and related kits
CN114793437A (zh) 2019-04-30 2022-07-26 Encodia 公司 用于从多肽上切割n端氨基酸的方法和试剂
EP3963070A4 (en) 2019-04-30 2023-02-22 Encodia, Inc. METHODS OF PREPARATION OF ANALYTES AND RELATED KITS
US11926820B2 (en) * 2019-09-13 2024-03-12 Google Llc Methods and compositions for protein and peptide sequencing
US11169157B2 (en) 2020-01-07 2021-11-09 Encodia, Inc. Methods for stable complex formation and related kits
CA3240747A1 (en) 2021-12-14 2023-06-22 Daniel Masao Estandian Single-molecule peptide sequencing through molecular barcoding and ex-situ analysis

Also Published As

Publication number Publication date
EP4759938A2 (en) 2026-06-17
EP4196581A1 (en) 2023-06-21
WO2022040098A1 (en) 2022-02-24
JP2023538074A (ja) 2023-09-06
EP4759938A3 (en) 2026-07-01
US20230136966A1 (en) 2023-05-04
EP4196581B1 (en) 2026-02-25
US12668793B2 (en) 2026-06-30
AU2021329812A1 (en) 2023-03-09
EP4196581A4 (en) 2024-05-29
AU2021329812B2 (en) 2026-05-07
ES3073780T3 (en) 2026-07-15
CN116685725A (zh) 2023-09-01

Similar Documents

Publication Publication Date Title
KR102567902B1 (ko) 변형된 클리바아제, 이의 용도 및 관련 키트
US11634709B2 (en) Methods for preparing analytes and related kits
JP2022065157A (ja) 核酸エンコーディングを使用した巨大分子解析
US12498378B2 (en) Methods for spatial analysis of proteins and related kits
US11169157B2 (en) Methods for stable complex formation and related kits
US20210396762A1 (en) Methods for peptide analysis employing multi-component detection agent and related kits
JP7578294B2 (ja) 空間分析のための方法および関連キット
US20230220589A1 (en) Polypeptide terminal binders and uses thereof
AU2021329812B2 (en) Sequential encoding methods and related kits
US20220127754A1 (en) Methods and compositions of accelerating reactions for polypeptide analysis and related uses
US20220214350A1 (en) Methods for stable complex formation and related kits
US20230056532A1 (en) Methods for information transfer and related kits
US20240294981A1 (en) Sequential encoding methods and related kits
WO2021141924A1 (en) Methods for stable complex formation and related kits
US12474346B2 (en) Methods and kits for multicycle encoding assay
US20240042446A1 (en) Automated treatment of macromolecules for analysis and related apparatus

Legal Events

Date Code Title Description
EEER Examination request

Effective date: 20220926

MFA Maintenance fee for application paid

Free format text: FEE DESCRIPTION TEXT: MF (APPLICATION, 3RD ANNIV.) - STANDARD

Year of fee payment: 3

U00 Fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U00-U101 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE REQUEST RECEIVED

Effective date: 20240809

U11 Full renewal or maintenance fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U11-U102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE FEE PAYMENT PAID IN FULL

Effective date: 20240809

MFA Maintenance fee for application paid

Free format text: FEE DESCRIPTION TEXT: MF (APPLICATION, 4TH ANNIV.) - STANDARD

Year of fee payment: 4

U00 Fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U00-U101 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE REQUEST RECEIVED

Effective date: 20250808

U11 Full renewal or maintenance fee paid

Free format text: ST27 STATUS EVENT CODE: A-2-2-U10-U11-U102 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: MAINTENANCE FEE PAYMENT PAID IN FULL

Effective date: 20250808

D15 Examination report completed

Free format text: ST27 STATUS EVENT CODE: A-2-2-D10-D15-D126 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: EXAMINER'S REPORT

Effective date: 20250915

B12 Application deemed to be withdrawn, abandoned or lapsed

Free format text: ST27 STATUS EVENT CODE: N-2-6-B10-B12-B303 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: DEEMED ABANDONED - FAILURE TO RESPOND TO AN EXAMINER'S REQUISITION

Effective date: 20260115

R00 Party data change recorded

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R00-R119 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: REVOCATION OF AGENT REQUEST

Effective date: 20260220

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: A-2-2-W10-W00-W111 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: CORRESPONDENT DETERMINED COMPLIANT

Effective date: 20260220

R17 Change to representative recorded

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R17-R121 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: REVOCATION OF AGENT REQUIREMENTS DETERMINED COMPLIANT

Effective date: 20260427

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: A-2-2-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT

Effective date: 20260427

R00 Party data change recorded

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R00-R116 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: APPOINTMENT OF AGENT REQUEST

Effective date: 20260512

R11 Change to the name of applicant or owner or transfer of ownership requested

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R11-R127 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: TRANSFER RECORDAL REQUEST OR RESPONSE

Effective date: 20260512

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: A-2-2-W10-W00-W111 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: CORRESPONDENT DETERMINED COMPLIANT

Effective date: 20260512

R14 Transfer of ownership recorded

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R14-R129 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: TRANSFER REQUIREMENTS DETERMINED COMPLIANT

Effective date: 20260602

R17 Change to representative recorded

Free format text: ST27 STATUS EVENT CODE: A-2-2-R10-R17-R117 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: APPOINTMENT OF AGENT REQUIREMENTS DETERMINED COMPLIANT

Effective date: 20260602

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: A-2-2-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT

Effective date: 20260602

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: N-6-6-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT

Effective date: 20260710

W00 Other event occurred

Free format text: ST27 STATUS EVENT CODE: N-6-6-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT

Effective date: 20260729