BR112019008530A2 - plataforma de análise de genoma - Google Patents

plataforma de análise de genoma

Info

Publication number
BR112019008530A2
BR112019008530A2 BR112019008530A BR112019008530A BR112019008530A2 BR 112019008530 A2 BR112019008530 A2 BR 112019008530A2 BR 112019008530 A BR112019008530 A BR 112019008530A BR 112019008530 A BR112019008530 A BR 112019008530A BR 112019008530 A2 BR112019008530 A2 BR 112019008530A2
Authority
BR
Brazil
Prior art keywords
integrated circuit
fpga
perform
processing steps
analysis platform
Prior art date
Application number
BR112019008530A
Other languages
English (en)
Inventor
Ptashek Amnon
Visvanath Arun
Ojard Eric
De Beer Jacobus
David Hahm Mark
Ruehle Michael
Mehio Rami
Catreux Severine
Jain Varun
Original Assignee
Illumina 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 Illumina Inc filed Critical Illumina Inc
Publication of BR112019008530A2 publication Critical patent/BR112019008530A2/pt

Links

Classifications

    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10Sequence alignment; Homology search
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/20Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/40Population genetics; Linkage disequilibrium
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/20Sequence assembly
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B50/00ICT programming tools or database systems specially adapted for bioinformatics
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B50/00ICT programming tools or database systems specially adapted for bioinformatics
    • G16B50/30Data warehousing; Computing architectures
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B50/00ICT programming tools or database systems specially adapted for bioinformatics
    • G16B50/40Encryption of genetic data
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B50/00ICT programming tools or database systems specially adapted for bioinformatics
    • G16B50/50Compression of genetic data
    • GPHYSICS
    • G06COMPUTING; CALCULATING OR COUNTING
    • G06FELECTRIC DIGITAL DATA PROCESSING
    • G06F21/00Security arrangements for protecting computers, components thereof, programs or data against unauthorised activity
    • G06F21/70Protecting specific internal or peripheral components, in which the protection of a component leads to protection of the entire computer
    • G06F21/71Protecting specific internal or peripheral components, in which the protection of a component leads to protection of the entire computer to assure secure computing or processing of information
    • G06F21/76Protecting specific internal or peripheral components, in which the protection of a component leads to protection of the entire computer to assure secure computing or processing of information in application-specific integrated circuits [ASIC] or field-programmable devices, e.g. field-programmable gate arrays [FPGA] or programmable logic devices [PLD]

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Theoretical Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • Medical Informatics (AREA)
  • Genetics & Genomics (AREA)
  • Chemical & Material Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Bioethics (AREA)
  • Databases & Information Systems (AREA)
  • Molecular Biology (AREA)
  • Ecology (AREA)
  • Physiology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Abstract

trata-se de um sistema, método e aparelho para executar uma análise bioinformática em dados de sequência genética. particularmente, é fornecida uma plataforma de análise de genoma para executar um pipeline de análise de sequência. a plataforma de análise de genoma inclui um ou mais dentre um primeiro circuito integrado, sendo que cada primeiro circuito integrado forma uma unidade de processamento central (cpu) que é responsiva a um ou mais algoritmos de software que são configurados para instruir a cpu a realizar um primeiro conjunto de etapas de processamento genômico do pipeline de análise de sequência. adicionalmente, também é fornecido um segundo circuito integrado, sendo que cada segundo circuito integrado forma um arranjo de portas programáveis em campo (fpga), em que o fpga é configurado por firmware para dispor um conjunto de circuitos lógicos digitais conectados diretamente que são interconectados por uma pluralidade de interconexões físicas para realizar um segundo conjunto de etapas de processamento genômico do pipeline de análise de sequência, sendo que o conjunto de circuitos lógicos digitais conectados diretamente de cada fpga está disposto como um conjunto de mecanismos de processamento para realizar o segundo conjunto de etapas de processamento genômico. uma memória compartilhada também é fornecida.
BR112019008530A 2016-10-28 2017-10-27 plataforma de análise de genoma BR112019008530A2 (pt)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201662414637P 2016-10-28 2016-10-28
PCT/US2017/058890 WO2018081654A1 (en) 2016-10-28 2017-10-27 Bioinformatics systems, apparatuses, and methods for performing secondary and/or tertiary processing

Publications (1)

Publication Number Publication Date
BR112019008530A2 true BR112019008530A2 (pt) 2019-07-09

Family

ID=60331697

Family Applications (1)

Application Number Title Priority Date Filing Date
BR112019008530A BR112019008530A2 (pt) 2016-10-28 2017-10-27 plataforma de análise de genoma

Country Status (8)

Country Link
US (2) US20180121601A1 (pt)
EP (1) EP3532967A1 (pt)
CN (1) CN110121747B (pt)
AU (2) AU2017348382A1 (pt)
BR (1) BR112019008530A2 (pt)
CA (1) CA3042239A1 (pt)
SG (2) SG11201903858XA (pt)
WO (1) WO2018081654A1 (pt)

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Also Published As

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CN110121747A (zh) 2019-08-13
AU2022218629A1 (en) 2022-09-15
AU2022218629B2 (en) 2024-04-04
SG10201913208QA (en) 2020-02-27
WO2018081654A1 (en) 2018-05-03
AU2017348382A1 (en) 2019-06-20
US20210183468A1 (en) 2021-06-17
US20180121601A1 (en) 2018-05-03
EP3532967A1 (en) 2019-09-04
CA3042239A1 (en) 2018-05-03
SG11201903858XA (en) 2019-05-30
CN110121747B (zh) 2024-05-28

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