SG11201903272XA - Method and systems for the representation and processing of bioinformatics data using reference sequences - Google Patents
Method and systems for the representation and processing of bioinformatics data using reference sequencesInfo
- Publication number
- SG11201903272XA SG11201903272XA SG11201903272XA SG11201903272XA SG11201903272XA SG 11201903272X A SG11201903272X A SG 11201903272XA SG 11201903272X A SG11201903272X A SG 11201903272XA SG 11201903272X A SG11201903272X A SG 11201903272XA SG 11201903272X A SG11201903272X A SG 11201903272XA
- Authority
- SG
- Singapore
- Prior art keywords
- pct
- international
- data
- october
- reference sequences
- Prior art date
Links
- 238000000034 method Methods 0.000 title abstract 4
- 241001383291 Carex sylvatica subsp. sylvatica Species 0.000 abstract 1
- 238000012268 genome sequencing Methods 0.000 abstract 1
- 230000008520 organization Effects 0.000 abstract 1
Classifications
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F16/00—Information retrieval; Database structures therefor; File system structures therefor
- G06F16/20—Information retrieval; Database structures therefor; File system structures therefor of structured data, e.g. relational data
- G06F16/22—Indexing; Data structures therefor; Storage structures
- G06F16/2282—Tablespace storage structures; Management thereof
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F16/00—Information retrieval; Database structures therefor; File system structures therefor
- G06F16/20—Information retrieval; Database structures therefor; File system structures therefor of structured data, e.g. relational data
- G06F16/23—Updating
- G06F16/2365—Ensuring data consistency and integrity
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F16/00—Information retrieval; Database structures therefor; File system structures therefor
- G06F16/20—Information retrieval; Database structures therefor; File system structures therefor of structured data, e.g. relational data
- G06F16/28—Databases characterised by their database models, e.g. relational or object models
- G06F16/284—Relational databases
- G06F16/285—Clustering or classification
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F21/00—Security arrangements for protecting computers, components thereof, programs or data against unauthorised activity
- G06F21/60—Protecting data
- G06F21/602—Providing cryptographic facilities or services
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F21/00—Security arrangements for protecting computers, components thereof, programs or data against unauthorised activity
- G06F21/60—Protecting data
- G06F21/62—Protecting access to data via a platform, e.g. using keys or access control rules
- G06F21/6218—Protecting access to data via a platform, e.g. using keys or access control rules to a system of files or objects, e.g. local or distributed file system or database
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F21/00—Security arrangements for protecting computers, components thereof, programs or data against unauthorised activity
- G06F21/60—Protecting data
- G06F21/62—Protecting access to data via a platform, e.g. using keys or access control rules
- G06F21/6218—Protecting access to data via a platform, e.g. using keys or access control rules to a system of files or objects, e.g. local or distributed file system or database
- G06F21/6245—Protecting personal data, e.g. for financial or medical purposes
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F3/00—Input arrangements for transferring data to be processed into a form capable of being handled by the computer; Output arrangements for transferring data from processing unit to output unit, e.g. interface arrangements
- G06F3/01—Input arrangements or combined input and output arrangements for interaction between user and computer
- G06F3/048—Interaction techniques based on graphical user interfaces [GUI]
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06F—ELECTRIC DIGITAL DATA PROCESSING
- G06F7/00—Methods or arrangements for processing data by operating upon the order or content of the data handled
-
- 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
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/10—Ploidy or copy number detection
-
- 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
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
-
- 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
-
- 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
- G16B30/10—Sequence alignment; Homology search
-
- 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
- G16B30/20—Sequence assembly
-
- 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
-
- 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
- G16B45/00—ICT specially adapted for bioinformatics-related data visualisation, e.g. displaying of maps or networks
-
- 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
- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
-
- 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
- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
- G16B50/10—Ontologies; Annotations
-
- 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
- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
- G16B50/30—Data warehousing; Computing architectures
-
- 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
- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
- G16B50/40—Encryption of genetic data
-
- 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
- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
- G16B50/50—Compression of genetic data
-
- 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
- G16B99/00—Subject matter not provided for in other groups of this subclass
-
- H—ELECTRICITY
- H03—ELECTRONIC CIRCUITRY
- H03M—CODING; DECODING; CODE CONVERSION IN GENERAL
- H03M7/00—Conversion of a code where information is represented by a given sequence or number of digits to a code where the same, similar or subset of information is represented by a different sequence or number of digits
- H03M7/30—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction
- H03M7/3084—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction using adaptive string matching, e.g. the Lempel-Ziv method
- H03M7/3086—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction using adaptive string matching, e.g. the Lempel-Ziv method employing a sliding window, e.g. LZ77
-
- H—ELECTRICITY
- H03—ELECTRONIC CIRCUITRY
- H03M—CODING; DECODING; CODE CONVERSION IN GENERAL
- H03M7/00—Conversion of a code where information is represented by a given sequence or number of digits to a code where the same, similar or subset of information is represented by a different sequence or number of digits
- H03M7/30—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction
- H03M7/70—Type of the data to be coded, other than image and sound
Landscapes
- Engineering & Computer Science (AREA)
- Physics & Mathematics (AREA)
- Theoretical Computer Science (AREA)
- Life Sciences & Earth Sciences (AREA)
- Health & Medical Sciences (AREA)
- General Health & Medical Sciences (AREA)
- Medical Informatics (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Spectroscopy & Molecular Physics (AREA)
- Bioinformatics & Computational Biology (AREA)
- Biotechnology (AREA)
- Evolutionary Biology (AREA)
- Biophysics (AREA)
- Databases & Information Systems (AREA)
- Bioethics (AREA)
- General Engineering & Computer Science (AREA)
- General Physics & Mathematics (AREA)
- Analytical Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Chemical & Material Sciences (AREA)
- Data Mining & Analysis (AREA)
- Software Systems (AREA)
- Genetics & Genomics (AREA)
- Molecular Biology (AREA)
- Computer Security & Cryptography (AREA)
- Computer Hardware Design (AREA)
- Computer Vision & Pattern Recognition (AREA)
- Public Health (AREA)
- Evolutionary Computation (AREA)
- Epidemiology (AREA)
- Artificial Intelligence (AREA)
- Human Computer Interaction (AREA)
- Signal Processing (AREA)
- Management, Administration, Business Operations System, And Electronic Commerce (AREA)
- Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Compression, Expansion, Code Conversion, And Decoders (AREA)
- Apparatus Associated With Microorganisms And Enzymes (AREA)
- Television Signal Processing For Recording (AREA)
- Labeling Devices (AREA)
Abstract
INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property 1111111111111 0 11011111111111 OH 10 1 0 1111111 1111 010 111110111111110 1110111111 Organization International Bureau (10) International Publication Number (43) International Publication Date .....0\"\" WO 2018/071080 A2 19 April 2018 (19.04.2018) WIP0 1 PCT (51) International Patent Classification: (74) Agent: BILICKI, Byron et al.; The Bilicki Law Firm, P.C., GOOF 19/20 (2011.01) 1285 North Main Street, Jamestown, NY 14701 (US). (21) International Application Number: (81) Designated States (unless otherwise indicated, for every PCT/US2017/041591 kind of national protection available): AE, AG, AL, AM, (22) International Filing Date: AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, 11 July 2017 (11.07.2017) 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, (25) Filing Language: English HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, (26) Publication Language: English 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, (30) Priority Data: OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, PCT/EP2016/074311 SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, 11 October 2016 (11.10.2016) EP TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. PCT/EP2016/074297 (84) Designated States (unless otherwise indicated, for every 11 October 2016 (11.10.2016) EP kind of regional protection available): ARIPO (BW, GH, PCT/EP2016/074307 GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, ST, SZ, TZ, 11 October 2016 (11.10.2016) EP UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, PCT/EP2016/074301 — 11 October 2016 (11.10.2016) EP TM), European (AL, AT, BE, BG, CH, CY, CZ, DE, DK, PCT/US2017/017841 EE, ES, FI, FR, GB, GR, HR, HU, IE, IS, IT, LT, LU, LV, 14 February 2017 (14.02.2017) US MC, MK, MT, NL, NO, PL, PT, RO, RS, SE, SI, SK, SM, PCT/US2017/017842 TR), OAPI (BF, BJ, CF, CG, CI, CM, GA, GN, GQ, GW, KM, ML, MR, NE, SN, TD, TG). 14 February 2017 (14.02.2017) US = Applicant: GENOMSYS SA [CH/CH]; chemin de la Raye Declarations under Rule 4.17: (71) = 13, 1024 Ecublens VD (CH). — as to the identity of the inventor (Rule 4.17(i)) (72) Inventor; and Published: (71) Applicant: BALUCH, Mohamed, Khoso [US/US]; 4439 — without international search report and to be republished Woodsedge Ct, Chantilly, VA 20151 (US). upon receipt of that report (Rule 48.2(g)) = Inventors: ALBERTI, Claudio; Chemin des Esserts 1, = (72) — 1213 Petit-Lancy (CH). ZOIA, Giorgio; Chemin des Croix- = Rouges 10, 1007 Lausanne (CH). RENZI, Daniele; Route Aloys-Fauquez 105, 1018 Lausanne (CH). = = = Title: METHOD AND SYSTEMS FOR THE REPRESENTATION AND PROCESSING OF BIOINFORMATICS DATA (54) = USING REFERENCE SEQUENCES = = The left-most read has N alignments The right-most read has M alignments = • ' / •-.. _ N, / / Reference <= Ili a, b, aN, bm GC 0 11 Figure 15. IN © . - 6,-- t) (57) : Method and apparatus for the representation and processing of genome sequence data, produced by genome sequencing 1-1 machines, when aligned on one or more reference sequences. Sequence reads are coded by aligning them with respect to pre-existing or constructed reference sequences. After the alignment, the coding process is composed of a classification of the reads into data classes, ei followed by the coding of each data class in terms of a multiplicity of descriptors layers. Specific source models and entropy coders 0 are used for the coding of the sub-sets of descriptors used to represent each data class.
Applications Claiming Priority (7)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
PCT/EP2016/074311 WO2018068830A1 (en) | 2016-10-11 | 2016-10-11 | Method and system for the transmission of bioinformatics data |
PCT/EP2016/074307 WO2018068829A1 (en) | 2016-10-11 | 2016-10-11 | Method and apparatus for compact representation of bioinformatics data |
PCT/EP2016/074297 WO2018068827A1 (en) | 2016-10-11 | 2016-10-11 | Efficient data structures for bioinformatics information representation |
PCT/EP2016/074301 WO2018068828A1 (en) | 2016-10-11 | 2016-10-11 | Method and system for storing and accessing bioinformatics data |
PCT/US2017/017841 WO2018071054A1 (en) | 2016-10-11 | 2017-02-14 | Method and system for selective access of stored or transmitted bioinformatics data |
PCT/US2017/017842 WO2018071055A1 (en) | 2016-10-11 | 2017-02-14 | Method and apparatus for the compact representation of bioinformatics data |
PCT/US2017/041591 WO2018071080A2 (en) | 2016-10-11 | 2017-07-11 | Method and systems for the representation and processing of bioinformatics data using reference sequences |
Publications (1)
Publication Number | Publication Date |
---|---|
SG11201903272XA true SG11201903272XA (en) | 2019-05-30 |
Family
ID=61905752
Family Applications (3)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG11201903270RA SG11201903270RA (en) | 2016-10-11 | 2017-02-14 | Method and system for selective access of stored or transmitted bioinformatics data |
SG11201903272XA SG11201903272XA (en) | 2016-10-11 | 2017-07-11 | Method and systems for the representation and processing of bioinformatics data using reference sequences |
SG11201903271UA SG11201903271UA (en) | 2016-10-11 | 2017-07-11 | Method and systems for the indexing of bioinformatics data |
Family Applications Before (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG11201903270RA SG11201903270RA (en) | 2016-10-11 | 2017-02-14 | Method and system for selective access of stored or transmitted bioinformatics data |
Family Applications After (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
SG11201903271UA SG11201903271UA (en) | 2016-10-11 | 2017-07-11 | Method and systems for the indexing of bioinformatics data |
Country Status (17)
Country | Link |
---|---|
US (6) | US20200042735A1 (en) |
EP (3) | EP3526694A4 (en) |
JP (4) | JP2020505702A (en) |
KR (4) | KR20190073426A (en) |
CN (6) | CN110168651A (en) |
AU (3) | AU2017342688A1 (en) |
BR (7) | BR112019007359A2 (en) |
CA (3) | CA3040138A1 (en) |
CL (6) | CL2019000972A1 (en) |
CO (6) | CO2019003639A2 (en) |
EA (2) | EA201990916A1 (en) |
IL (3) | IL265879B2 (en) |
MX (2) | MX2019004130A (en) |
PE (7) | PE20191058A1 (en) |
PH (6) | PH12019550060A1 (en) |
SG (3) | SG11201903270RA (en) |
WO (4) | WO2018071054A1 (en) |
Families Citing this family (28)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
GB2526598B (en) * | 2014-05-29 | 2018-11-28 | Imagination Tech Ltd | Allocation of primitives to primitive blocks |
US11574287B2 (en) | 2017-10-10 | 2023-02-07 | Text IQ, Inc. | Automatic document classification |
US11030324B2 (en) * | 2017-11-30 | 2021-06-08 | Koninklijke Philips N.V. | Proactive resistance to re-identification of genomic data |
WO2019191083A1 (en) * | 2018-03-26 | 2019-10-03 | Colorado State University Research Foundation | Apparatuses, systems and methods for generating and tracking molecular digital signatures to ensure authenticity and integrity of synthetic dna molecules |
EP3803881A1 (en) * | 2018-05-31 | 2021-04-14 | Koninklijke Philips N.V. | System and method for allele interpretation using a graph-based reference genome |
CN108753765B (en) * | 2018-06-08 | 2020-12-08 | 中国科学院遗传与发育生物学研究所 | Genome assembly method for constructing ultra-long continuous DNA sequence |
US20200058379A1 (en) * | 2018-08-20 | 2020-02-20 | The Board Of Trustees Of The Leland Stanford Junior University | Systems and Methods for Compressing Genetic Sequencing Data and Uses Thereof |
GB2585816A (en) * | 2018-12-12 | 2021-01-27 | Univ York | Proof-of-work for blockchain applications |
US20210074381A1 (en) * | 2019-09-11 | 2021-03-11 | Enancio | Method for the compression of genome sequence data |
CN110797087B (en) * | 2019-10-17 | 2020-11-03 | 南京医基云医疗数据研究院有限公司 | Sequencing sequence processing method and device, storage medium and electronic equipment |
JP2022553199A (en) * | 2019-10-18 | 2022-12-22 | コーニンクレッカ フィリップス エヌ ヴェ | Systems and methods for effective compression, representation, and decompression of diverse tabular data |
CN111243663B (en) * | 2020-02-26 | 2022-06-07 | 西安交通大学 | Gene variation detection method based on pattern growth algorithm |
CN111370070B (en) * | 2020-02-27 | 2023-10-27 | 中国科学院计算技术研究所 | Compression processing method for big data gene sequencing file |
US12006539B2 (en) | 2020-03-17 | 2024-06-11 | Western Digital Technologies, Inc. | Reference-guided genome sequencing |
US12014802B2 (en) * | 2020-03-17 | 2024-06-18 | Western Digital Technologies, Inc. | Devices and methods for locating a sample read in a reference genome |
US11837330B2 (en) | 2020-03-18 | 2023-12-05 | Western Digital Technologies, Inc. | Reference-guided genome sequencing |
EP3896698A1 (en) * | 2020-04-15 | 2021-10-20 | Genomsys SA | Method and system for the efficient data compression in mpeg-g |
CN111459208A (en) * | 2020-04-17 | 2020-07-28 | 南京铁道职业技术学院 | Control system and method for electric energy of subway power supply system |
IL298101A (en) * | 2020-09-14 | 2023-01-01 | Illumina Inc | Custom data files for personalized medicine |
CN112836355B (en) * | 2021-01-14 | 2023-04-18 | 西安科技大学 | Method for predicting coal face roof pressure probability |
ES2930699A1 (en) * | 2021-06-10 | 2022-12-20 | Veritas Intercontinental S L | GENOMIC ANALYSIS METHOD IN A BIOINFORMATIC PLATFORM (Machine-translation by Google Translate, not legally binding) |
CN113670643B (en) * | 2021-08-30 | 2023-05-12 | 四川虹美智能科技有限公司 | Intelligent air conditioner testing method and system |
CN113643761B (en) * | 2021-10-13 | 2022-01-18 | 苏州赛美科基因科技有限公司 | Extraction method for data required by interpretation of second-generation sequencing result |
US20230187020A1 (en) * | 2021-12-15 | 2023-06-15 | Illumina Software, Inc. | Systems and methods for iterative and scalable population-scale variant analysis |
CN115391284B (en) * | 2022-10-31 | 2023-02-03 | 四川大学华西医院 | Method, system and computer readable storage medium for quickly identifying gene data file |
CN116541348B (en) * | 2023-03-22 | 2023-09-26 | 河北热点科技股份有限公司 | Intelligent data storage method and terminal query integrated machine |
CN116739646B (en) * | 2023-08-15 | 2023-11-24 | 南京易联阳光信息技术股份有限公司 | Method and system for analyzing big data of network transaction |
CN117153270B (en) * | 2023-10-30 | 2024-02-02 | 吉林华瑞基因科技有限公司 | Gene second-generation sequencing data processing method |
Family Cites Families (54)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US6303297B1 (en) * | 1992-07-17 | 2001-10-16 | Incyte Pharmaceuticals, Inc. | Database for storage and analysis of full-length sequences |
JP3429674B2 (en) | 1998-04-28 | 2003-07-22 | 沖電気工業株式会社 | Multiplex communication system |
EP1410301A4 (en) * | 2000-04-12 | 2008-01-23 | Cleveland Clinic Foundation | System for identifying and analyzing expression of are-containing genes |
FR2820563B1 (en) * | 2001-02-02 | 2003-05-16 | Expway | COMPRESSION / DECOMPRESSION PROCESS FOR A STRUCTURED DOCUMENT |
US20040153255A1 (en) * | 2003-02-03 | 2004-08-05 | Ahn Tae-Jin | Apparatus and method for encoding DNA sequence, and computer readable medium |
DE10320711A1 (en) * | 2003-05-08 | 2004-12-16 | Siemens Ag | Method and arrangement for setting up and updating a user interface for accessing information pages in a data network |
WO2005024562A2 (en) * | 2003-08-11 | 2005-03-17 | Eloret Corporation | System and method for pattern recognition in sequential data |
US7805282B2 (en) * | 2004-03-30 | 2010-09-28 | New York University | Process, software arrangement and computer-accessible medium for obtaining information associated with a haplotype |
WO2006052242A1 (en) * | 2004-11-08 | 2006-05-18 | Seirad, Inc. | Methods and systems for compressing and comparing genomic data |
US20130332133A1 (en) * | 2006-05-11 | 2013-12-12 | Ramot At Tel Aviv University Ltd. | Classification of Protein Sequences and Uses of Classified Proteins |
SE531398C2 (en) | 2007-02-16 | 2009-03-24 | Scalado Ab | Generating a data stream and identifying positions within a data stream |
KR101369745B1 (en) * | 2007-04-11 | 2014-03-07 | 삼성전자주식회사 | Method and apparatus for multiplexing and demultiplexing asynchronous bitstreams |
US8832112B2 (en) * | 2008-06-17 | 2014-09-09 | International Business Machines Corporation | Encoded matrix index |
US20110264377A1 (en) * | 2008-11-14 | 2011-10-27 | John Gerald Cleary | Method and system for analysing data sequences |
US20100217532A1 (en) * | 2009-02-25 | 2010-08-26 | University Of Delaware | Systems and methods for identifying structurally or functionally significant amino acid sequences |
DK2494060T3 (en) * | 2009-10-30 | 2016-08-01 | Synthetic Genomics Inc | Coding of text for nucleic acid sequences |
EP2362657B1 (en) * | 2010-02-18 | 2013-04-24 | Research In Motion Limited | Parallel entropy coding and decoding methods and devices |
WO2011143231A2 (en) * | 2010-05-10 | 2011-11-17 | The Broad Institute | High throughput paired-end sequencing of large-insert clone libraries |
EP3657507A1 (en) * | 2010-05-25 | 2020-05-27 | The Regents of The University of California | Bambam: parallel comparative analysis of high-throughput sequencing data |
CN103329138A (en) * | 2011-01-19 | 2013-09-25 | 皇家飞利浦电子股份有限公司 | Method for processing genomic data |
US8982879B2 (en) * | 2011-03-09 | 2015-03-17 | Annai Systems Inc. | Biological data networks and methods therefor |
US20140249764A1 (en) * | 2011-06-06 | 2014-09-04 | Koninklijke Philips N.V. | Method for Assembly of Nucleic Acid Sequence Data |
HUE063990T2 (en) * | 2011-06-16 | 2024-02-28 | Ge Video Compression Llc | Entropy coding supporting mode switching |
US8707289B2 (en) * | 2011-07-20 | 2014-04-22 | Google Inc. | Multiple application versions |
WO2013050612A1 (en) * | 2011-10-06 | 2013-04-11 | Fraunhofer-Gesellschaft zur Förderung der angewandten Forschung e.V. | Entropy coding buffer arrangement |
AU2012335955A1 (en) * | 2011-11-07 | 2014-07-03 | QIAGEN Redwood City, Inc. | Methods and systems for identification of causal genomic variants |
KR101922129B1 (en) * | 2011-12-05 | 2018-11-26 | 삼성전자주식회사 | Method and apparatus for compressing and decompressing genetic information using next generation sequencing(NGS) |
CN104246689B (en) * | 2011-12-08 | 2020-06-02 | 凡弗3基因组有限公司 | Distributed system providing dynamic indexing and visualization of genomic data |
EP2608096B1 (en) * | 2011-12-24 | 2020-08-05 | Tata Consultancy Services Ltd. | Compression of genomic data file |
US9600625B2 (en) * | 2012-04-23 | 2017-03-21 | Bina Technologies, Inc. | Systems and methods for processing nucleic acid sequence data |
CN103049680B (en) * | 2012-12-29 | 2016-09-07 | 深圳先进技术研究院 | gene sequencing data reading method and system |
US9679104B2 (en) * | 2013-01-17 | 2017-06-13 | Edico Genome, Corp. | Bioinformatics systems, apparatuses, and methods executed on an integrated circuit processing platform |
WO2014145503A2 (en) * | 2013-03-15 | 2014-09-18 | Lieber Institute For Brain Development | Sequence alignment using divide and conquer maximum oligonucleotide mapping (dcmom), apparatus, system and method related thereto |
JP6054790B2 (en) * | 2013-03-28 | 2016-12-27 | 三菱スペース・ソフトウエア株式会社 | Gene information storage device, gene information search device, gene information storage program, gene information search program, gene information storage method, gene information search method, and gene information search system |
GB2512829B (en) * | 2013-04-05 | 2015-05-27 | Canon Kk | Method and apparatus for encoding or decoding an image with inter layer motion information prediction according to motion information compression scheme |
WO2014186604A1 (en) * | 2013-05-15 | 2014-11-20 | Edico Genome Corp. | Bioinformatics systems, apparatuses, and methods executed on an integrated circuit processing platform |
KR101522087B1 (en) * | 2013-06-19 | 2015-05-28 | 삼성에스디에스 주식회사 | System and method for aligning genome sequnce considering mismatch |
CN103336916B (en) * | 2013-07-05 | 2016-04-06 | 中国科学院数学与系统科学研究院 | A kind of sequencing sequence mapping method and system |
US20150032711A1 (en) * | 2013-07-06 | 2015-01-29 | Victor Kunin | Methods for identification of organisms, assigning reads to organisms, and identification of genes in metagenomic sequences |
KR101493982B1 (en) * | 2013-09-26 | 2015-02-23 | 대한민국 | Coding system for cultivar identification and coding method using thereof |
CN104699998A (en) * | 2013-12-06 | 2015-06-10 | 国际商业机器公司 | Method and device for compressing and decompressing genome |
US10902937B2 (en) * | 2014-02-12 | 2021-01-26 | International Business Machines Corporation | Lossless compression of DNA sequences |
US9916313B2 (en) * | 2014-02-14 | 2018-03-13 | Sap Se | Mapping of extensible datasets to relational database schemas |
US9886561B2 (en) * | 2014-02-19 | 2018-02-06 | The Regents Of The University Of California | Efficient encoding and storage and retrieval of genomic data |
US9354922B2 (en) * | 2014-04-02 | 2016-05-31 | International Business Machines Corporation | Metadata-driven workflows and integration with genomic data processing systems and techniques |
US20150379195A1 (en) * | 2014-06-25 | 2015-12-31 | The Board Of Trustees Of The Leland Stanford Junior University | Software haplotying of hla loci |
GB2527588B (en) * | 2014-06-27 | 2016-05-18 | Gurulogic Microsystems Oy | Encoder and decoder |
US20160019339A1 (en) * | 2014-07-06 | 2016-01-21 | Mercator BioLogic Incorporated | Bioinformatics tools, systems and methods for sequence assembly |
US10230390B2 (en) * | 2014-08-29 | 2019-03-12 | Bonnie Berger Leighton | Compressively-accelerated read mapping framework for next-generation sequencing |
US10116632B2 (en) * | 2014-09-12 | 2018-10-30 | New York University | System, method and computer-accessible medium for secure and compressed transmission of genomic data |
US20160125130A1 (en) * | 2014-11-05 | 2016-05-05 | Agilent Technologies, Inc. | Method for assigning target-enriched sequence reads to a genomic location |
US20180181706A1 (en) * | 2015-06-16 | 2018-06-28 | Gottfried Wilhelm Leibniz Universitaet Hannover | Method for Compressing Genomic Data |
CN105956417A (en) * | 2016-05-04 | 2016-09-21 | 西安电子科技大学 | Similar base sequence query method based on editing distance in cloud environment |
CN105975811B (en) * | 2016-05-09 | 2019-03-15 | 管仁初 | A kind of gene sequencing device intelligently compared |
-
2017
- 2017-02-14 SG SG11201903270RA patent/SG11201903270RA/en unknown
- 2017-02-14 CN CN201780062919.5A patent/CN110168651A/en active Pending
- 2017-02-14 WO PCT/US2017/017841 patent/WO2018071054A1/en active Search and Examination
- 2017-02-14 JP JP2019540510A patent/JP2020505702A/en not_active Withdrawn
- 2017-02-14 US US16/341,426 patent/US20200042735A1/en not_active Abandoned
- 2017-02-14 MX MX2019004130A patent/MX2019004130A/en unknown
- 2017-02-14 KR KR1020197013567A patent/KR20190073426A/en unknown
- 2017-02-14 PE PE2019000804A patent/PE20191058A1/en unknown
- 2017-02-14 WO PCT/US2017/017842 patent/WO2018071055A1/en active Application Filing
- 2017-02-14 CA CA3040138A patent/CA3040138A1/en not_active Abandoned
- 2017-02-14 BR BR112019007359A patent/BR112019007359A2/en not_active IP Right Cessation
- 2017-02-14 EP EP17859972.6A patent/EP3526694A4/en not_active Withdrawn
- 2017-02-14 AU AU2017342688A patent/AU2017342688A1/en not_active Abandoned
- 2017-07-11 EA EA201990916A patent/EA201990916A1/en unknown
- 2017-07-11 EP EP17860868.3A patent/EP3526707A4/en not_active Withdrawn
- 2017-07-11 US US16/337,639 patent/US20190214111A1/en not_active Abandoned
- 2017-07-11 CN CN201780063013.5A patent/CN110506272B/en active Active
- 2017-07-11 SG SG11201903272XA patent/SG11201903272XA/en unknown
- 2017-07-11 BR BR112019007357A patent/BR112019007357A2/en not_active Application Discontinuation
- 2017-07-11 AU AU2017341684A patent/AU2017341684A1/en not_active Abandoned
- 2017-07-11 PE PE2019000802A patent/PE20191056A1/en unknown
- 2017-07-11 SG SG11201903271UA patent/SG11201903271UA/en unknown
- 2017-07-11 PE PE2019000805A patent/PE20191227A1/en unknown
- 2017-07-11 WO PCT/US2017/041585 patent/WO2018071079A1/en active Search and Examination
- 2017-07-11 BR BR112019007363A patent/BR112019007363A2/en not_active Application Discontinuation
- 2017-07-11 BR BR112019007360A patent/BR112019007360A2/en not_active Application Discontinuation
- 2017-07-11 JP JP2019540513A patent/JP2020500383A/en not_active Withdrawn
- 2017-07-11 JP JP2019540512A patent/JP2019537172A/en not_active Withdrawn
- 2017-07-11 IL IL265879A patent/IL265879B2/en unknown
- 2017-07-11 CN CN201780062885.XA patent/CN110114830B/en active Active
- 2017-07-11 JP JP2019540511A patent/JP7079786B2/en active Active
- 2017-07-11 MX MX2019004128A patent/MX2019004128A/en unknown
- 2017-07-11 US US16/337,642 patent/US11404143B2/en active Active
- 2017-07-11 EA EA201990917A patent/EA201990917A1/en unknown
- 2017-07-11 CA CA3040147A patent/CA3040147A1/en not_active Abandoned
- 2017-07-11 WO PCT/US2017/041591 patent/WO2018071080A2/en unknown
- 2017-07-11 CA CA3040145A patent/CA3040145A1/en not_active Abandoned
- 2017-07-11 KR KR1020197013419A patent/KR20190069469A/en not_active Application Discontinuation
- 2017-07-11 EP EP17860980.6A patent/EP3526657A4/en active Pending
- 2017-07-11 KR KR1020197013418A patent/KR20190062541A/en active Search and Examination
- 2017-07-11 PE PE2019000803A patent/PE20191057A1/en unknown
- 2017-07-11 AU AU2017341685A patent/AU2017341685A1/en not_active Abandoned
- 2017-07-11 CN CN201780063014.XA patent/CN110121577B/en active Active
- 2017-12-14 BR BR112019016230A patent/BR112019016230A2/en not_active Application Discontinuation
- 2017-12-14 US US16/485,623 patent/US20190385702A1/en active Pending
- 2017-12-14 PE PE2019001667A patent/PE20200323A1/en unknown
- 2017-12-14 KR KR1020197026863A patent/KR20190117652A/en not_active Application Discontinuation
- 2017-12-14 CN CN201780086529.1A patent/CN110603595B/en active Active
- 2017-12-15 CN CN201780086770.4A patent/CN110678929B/en active Active
- 2017-12-15 BR BR112019016232A patent/BR112019016232A2/en not_active Application Discontinuation
- 2017-12-15 US US16/485,649 patent/US20200051667A1/en active Pending
- 2017-12-15 PE PE2019001669A patent/PE20200226A1/en unknown
-
2018
- 2018-02-14 BR BR112019016236A patent/BR112019016236A2/en unknown
- 2018-02-14 PE PE2019001668A patent/PE20200227A1/en unknown
- 2018-02-14 US US16/485,670 patent/US20200051665A1/en active Pending
-
2019
- 2019-04-08 IL IL265928A patent/IL265928B/en active IP Right Grant
- 2019-04-10 CL CL2019000972A patent/CL2019000972A1/en unknown
- 2019-04-10 CL CL2019000968A patent/CL2019000968A1/en unknown
- 2019-04-10 CL CL2019000973A patent/CL2019000973A1/en unknown
- 2019-04-11 CO CONC2019/0003639A patent/CO2019003639A2/en unknown
- 2019-04-11 CO CONC2019/0003638A patent/CO2019003638A2/en unknown
- 2019-04-11 PH PH12019550060A patent/PH12019550060A1/en unknown
- 2019-04-11 IL IL265972A patent/IL265972A/en unknown
- 2019-04-11 CO CONC2019/0003595A patent/CO2019003595A2/en unknown
- 2019-04-11 PH PH12019550058A patent/PH12019550058A1/en unknown
- 2019-04-11 PH PH12019550059A patent/PH12019550059A1/en unknown
- 2019-04-11 PH PH12019550057A patent/PH12019550057A1/en unknown
- 2019-04-15 CO CONC2019/0003842A patent/CO2019003842A2/en unknown
- 2019-08-12 CL CL2019002275A patent/CL2019002275A1/en unknown
- 2019-08-12 CL CL2019002276A patent/CL2019002276A1/en unknown
- 2019-08-12 CL CL2019002277A patent/CL2019002277A1/en unknown
- 2019-08-13 PH PH12019501879A patent/PH12019501879A1/en unknown
- 2019-08-13 PH PH12019501881A patent/PH12019501881A1/en unknown
- 2019-09-12 CO CONC2019/0009922A patent/CO2019009922A2/en unknown
- 2019-09-12 CO CONC2019/0009920A patent/CO2019009920A2/en unknown
Also Published As
Similar Documents
Publication | Publication Date | Title |
---|---|---|
SG11201903272XA (en) | Method and systems for the representation and processing of bioinformatics data using reference sequences | |
SG11201908571UA (en) | Leveraging sequence-based fecal microbial community survey data to identify a composite biomarker for colorectal cancer | |
SG11201903895XA (en) | Blockchain data processing method and apparatus | |
SG11201804190YA (en) | Method and system for blockchain variant using digital signatures | |
SG11201907090WA (en) | Affine motion information derivation | |
SG11201903141QA (en) | Business processing method and apparatus | |
SG11201806190TA (en) | Isotachophoresis for purification of nucleic acids | |
SG11201811338VA (en) | A novel botulinum neurotoxin and its derivatives | |
SG11201807334SA (en) | Methods, compositions, and devices for information storage | |
SG11201901550WA (en) | Method and apparatus for data processing | |
SG11201811709WA (en) | Compounds, compositions, and methods for the treatment of disease | |
SG11201903604PA (en) | Iot security service | |
SG11201805136TA (en) | Group b adenovirus encoding an anti-tcr-complex antibody or fragment | |
SG11201804696RA (en) | Techniques for metadata processing | |
SG11201805562QA (en) | Genomic infrastructure for on-site or cloud-based dna and rna processing and analysis | |
SG11201806322QA (en) | Maytansinoid derivatives, conjugates thereof, and methods of use | |
SG11201803593QA (en) | Engineered nucleic-acid targeting nucleic acids | |
SG11201811343SA (en) | System and methods for detecting online fraud | |
SG11201407888RA (en) | Method of sequence determination using sequence tags | |
SG11201903287PA (en) | Anti-respiratory syncytial virus antibodies, and methods of their generation and use | |
SG11201905463TA (en) | Abstract enclave identity | |
SG11201901168UA (en) | Apparatuses and methods including ferroelectric memory and for operating ferroelectric memory | |
SG11201809872TA (en) | Using hardware based secure isolated region to prevent piracy and cheating on electronic devices | |
SG11201808420PA (en) | Method for separation of magnesium and calcium ions from saline water, for improving the quality of soft and desalinated waters | |
SG11201804841VA (en) | Hardware integrity check |