IL309786A - Quality score calibration of BASECALLING systems - Google Patents
Quality score calibration of BASECALLING systemsInfo
- Publication number
- IL309786A IL309786A IL309786A IL30978623A IL309786A IL 309786 A IL309786 A IL 309786A IL 309786 A IL309786 A IL 309786A IL 30978623 A IL30978623 A IL 30978623A IL 309786 A IL309786 A IL 309786A
- Authority
- IL
- Israel
- Prior art keywords
- sensor data
- range
- clusters
- computer
- subset
- Prior art date
Links
- 238000000034 method Methods 0.000 claims 17
- 239000002773 nucleotide Substances 0.000 claims 13
- 125000003729 nucleotide group Chemical group 0.000 claims 13
- 238000013507 mapping Methods 0.000 claims 6
- 238000004590 computer program Methods 0.000 claims 2
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
- G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR
-
- 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
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
-
- 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
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
- G06N3/00—Computing arrangements based on biological models
- G06N3/02—Neural networks
- G06N3/04—Architecture, e.g. interconnection topology
- G06N3/045—Combinations of networks
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
- G06N3/00—Computing arrangements based on biological models
- G06N3/02—Neural networks
- G06N3/04—Architecture, e.g. interconnection topology
- G06N3/0464—Convolutional networks [CNN, ConvNet]
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
- G06N3/00—Computing arrangements based on biological models
- G06N3/02—Neural networks
- G06N3/08—Learning methods
- G06N3/084—Backpropagation, e.g. using gradient descent
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
- G06N3/00—Computing arrangements based on biological models
- G06N3/02—Neural networks
- G06N3/08—Learning methods
- G06N3/09—Supervised learning
-
- 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
- G16B40/20—Supervised data analysis
Landscapes
- Engineering & Computer Science (AREA)
- Physics & Mathematics (AREA)
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- Theoretical Computer Science (AREA)
- Biophysics (AREA)
- General Health & Medical Sciences (AREA)
- Data Mining & Analysis (AREA)
- Medical Informatics (AREA)
- Software Systems (AREA)
- Artificial Intelligence (AREA)
- Evolutionary Computation (AREA)
- Molecular Biology (AREA)
- Biotechnology (AREA)
- Spectroscopy & Molecular Physics (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- Chemical & Material Sciences (AREA)
- Evolutionary Biology (AREA)
- Bioinformatics & Computational Biology (AREA)
- General Physics & Mathematics (AREA)
- Mathematical Physics (AREA)
- Computing Systems (AREA)
- Computational Linguistics (AREA)
- Biomedical Technology (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Public Health (AREA)
- Bioethics (AREA)
- Databases & Information Systems (AREA)
- Analytical Chemistry (AREA)
- Epidemiology (AREA)
- Computer Vision & Pattern Recognition (AREA)
- Organic Chemistry (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Microbiology (AREA)
- Immunology (AREA)
- Signal Processing (AREA)
- Biochemistry (AREA)
- Genetics & Genomics (AREA)
Applications Claiming Priority (3)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US202163226707P | 2021-07-28 | 2021-07-28 | |
| US17/839,387 US20230029970A1 (en) | 2021-07-28 | 2022-06-13 | Quality score calibration of basecalling systems |
| PCT/US2022/038729 WO2023009758A1 (en) | 2021-07-28 | 2022-07-28 | Quality score calibration of basecalling systems |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| IL309786A true IL309786A (en) | 2024-02-01 |
Family
ID=83149575
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| IL309786A IL309786A (en) | 2021-07-28 | 2022-07-28 | Quality score calibration of BASECALLING systems |
Country Status (7)
| Country | Link |
|---|---|
| EP (1) | EP4377960A1 (ko) |
| JP (1) | JP2024532049A (ko) |
| KR (1) | KR20240037882A (ko) |
| AU (1) | AU2022319125A1 (ko) |
| CA (1) | CA3223746A1 (ko) |
| IL (1) | IL309786A (ko) |
| WO (1) | WO2023009758A1 (ko) |
Families Citing this family (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN118053503A (zh) * | 2024-01-11 | 2024-05-17 | 中国农业科学院农业基因组研究所 | 一种入侵生物多组学数据库构建方法及系统 |
Family Cites Families (32)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CA2044616A1 (en) | 1989-10-26 | 1991-04-27 | Roger Y. Tsien | Dna sequencing |
| US5641658A (en) | 1994-08-03 | 1997-06-24 | Mosaic Technologies, Inc. | Method for performing amplification of nucleic acid with two primers bound to a single solid support |
| US6090592A (en) | 1994-08-03 | 2000-07-18 | Mosaic Technologies, Inc. | Method for performing amplification of nucleic acid on supports |
| AU6846698A (en) | 1997-04-01 | 1998-10-22 | Glaxo Group Limited | Method of nucleic acid amplification |
| AU6846798A (en) | 1997-04-01 | 1998-10-22 | Glaxo Group Limited | Method of nucleic acid sequencing |
| AR021833A1 (es) | 1998-09-30 | 2002-08-07 | Applied Research Systems | Metodos de amplificacion y secuenciacion de acido nucleico |
| US20020150909A1 (en) | 1999-02-09 | 2002-10-17 | Stuelpnagel John R. | Automated information processing in randomly ordered arrays |
| CN101525660A (zh) | 2000-07-07 | 2009-09-09 | 维西根生物技术公司 | 实时序列测定 |
| EP1354064A2 (en) | 2000-12-01 | 2003-10-22 | Visigen Biotechnologies, Inc. | Enzymatic nucleic acid synthesis: compositions and methods for altering monomer incorporation fidelity |
| AR031640A1 (es) | 2000-12-08 | 2003-09-24 | Applied Research Systems | Amplificacion isotermica de acidos nucleicos en un soporte solido |
| US7057026B2 (en) | 2001-12-04 | 2006-06-06 | Solexa Limited | Labelled nucleotides |
| US20040002090A1 (en) | 2002-03-05 | 2004-01-01 | Pascal Mayer | Methods for detecting genome-wide sequence variations associated with a phenotype |
| DK3363809T3 (da) | 2002-08-23 | 2020-05-04 | Illumina Cambridge Ltd | Modificerede nukleotider til polynukleotidsekvensering |
| DK3147292T3 (en) | 2002-08-23 | 2018-12-03 | Illumina Cambridge Ltd | LABELED NUCLEOTIDES |
| GB0321306D0 (en) | 2003-09-11 | 2003-10-15 | Solexa Ltd | Modified polymerases for improved incorporation of nucleotide analogues |
| US20110059865A1 (en) | 2004-01-07 | 2011-03-10 | Mark Edward Brennan Smith | Modified Molecular Arrays |
| EP1790202A4 (en) | 2004-09-17 | 2013-02-20 | Pacific Biosciences California | APPARATUS AND METHOD FOR ANALYZING MOLECULES |
| EP1828412B2 (en) | 2004-12-13 | 2019-01-09 | Illumina Cambridge Limited | Improved method of nucleotide detection |
| JP4990886B2 (ja) | 2005-05-10 | 2012-08-01 | ソレックサ リミテッド | 改良ポリメラーゼ |
| US8045998B2 (en) | 2005-06-08 | 2011-10-25 | Cisco Technology, Inc. | Method and system for communicating using position information |
| GB0514936D0 (en) | 2005-07-20 | 2005-08-24 | Solexa Ltd | Preparation of templates for nucleic acid sequencing |
| GB0517097D0 (en) | 2005-08-19 | 2005-09-28 | Solexa Ltd | Modified nucleosides and nucleotides and uses thereof |
| US7405281B2 (en) | 2005-09-29 | 2008-07-29 | Pacific Biosciences Of California, Inc. | Fluorescent nucleotide analogs and uses therefor |
| GB0522310D0 (en) | 2005-11-01 | 2005-12-07 | Solexa Ltd | Methods of preparing libraries of template polynucleotides |
| EP2021503A1 (en) | 2006-03-17 | 2009-02-11 | Solexa Ltd. | Isothermal methods for creating clonal single molecule arrays |
| CA2648149A1 (en) | 2006-03-31 | 2007-11-01 | Solexa, Inc. | Systems and devices for sequence by synthesis analysis |
| US20080242560A1 (en) | 2006-11-21 | 2008-10-02 | Gunderson Kevin L | Methods for generating amplified nucleic acid arrays |
| US7595882B1 (en) | 2008-04-14 | 2009-09-29 | Geneal Electric Company | Hollow-core waveguide-based raman systems and methods |
| US9453258B2 (en) | 2011-09-23 | 2016-09-27 | Illumina, Inc. | Methods and compositions for nucleic acid sequencing |
| WO2016064703A1 (en) * | 2014-10-21 | 2016-04-28 | Life Technologies Corporation | Methods, systems, and computer-readable media for blind deconvolution dephasing of nucleic acid sequencing data |
| KR20200115590A (ko) * | 2018-01-26 | 2020-10-07 | 퀀텀-에스아이 인코포레이티드 | 서열화 디바이스들을 위한 머신 학습 가능형 펄스 및 염기 호출 |
| US11783917B2 (en) * | 2019-03-21 | 2023-10-10 | Illumina, Inc. | Artificial intelligence-based base calling |
-
2022
- 2022-07-28 JP JP2023579782A patent/JP2024532049A/ja active Pending
- 2022-07-28 KR KR1020237043770A patent/KR20240037882A/ko unknown
- 2022-07-28 AU AU2022319125A patent/AU2022319125A1/en active Pending
- 2022-07-28 CA CA3223746A patent/CA3223746A1/en active Pending
- 2022-07-28 IL IL309786A patent/IL309786A/en unknown
- 2022-07-28 EP EP22761681.0A patent/EP4377960A1/en active Pending
- 2022-07-28 WO PCT/US2022/038729 patent/WO2023009758A1/en active Application Filing
Also Published As
| Publication number | Publication date |
|---|---|
| KR20240037882A (ko) | 2024-03-22 |
| AU2022319125A1 (en) | 2024-01-18 |
| CA3223746A1 (en) | 2023-02-02 |
| EP4377960A1 (en) | 2024-06-05 |
| JP2024532049A (ja) | 2024-09-05 |
| WO2023009758A1 (en) | 2023-02-02 |
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