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WO2003031565A3 - Integrated system and method for analysis of genomic sequence data - Google Patents

Integrated system and method for analysis of genomic sequence data Download PDF

Info

Publication number
WO2003031565A3
WO2003031565A3 PCT/IL2002/000818 IL0200818W WO03031565A3 WO 2003031565 A3 WO2003031565 A3 WO 2003031565A3 IL 0200818 W IL0200818 W IL 0200818W WO 03031565 A3 WO03031565 A3 WO 03031565A3
Authority
WO
WIPO (PCT)
Prior art keywords
genomic
data
genomic sequence
analysis
preprocessed
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.)
Ceased
Application number
PCT/IL2002/000818
Other languages
French (fr)
Other versions
WO2003031565A2 (en
Inventor
Isaac Bentwich
Yitzhak Mouyal
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.)
Rosetta Genomics Ltd
Original Assignee
Rosetta Genomics Ltd
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
Priority claimed from US09/976,911 external-priority patent/US20060129330A1/en
Application filed by Rosetta Genomics Ltd filed Critical Rosetta Genomics Ltd
Priority to EP02800693A priority Critical patent/EP1442292A2/en
Priority to AU2002334367A priority patent/AU2002334367A1/en
Publication of WO2003031565A2 publication Critical patent/WO2003031565A2/en
Publication of WO2003031565A3 publication Critical patent/WO2003031565A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

Links

Classifications

    • 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

Landscapes

  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biophysics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Testing And Monitoring For Control Systems (AREA)

Abstract

A system and method for analysis of genomic sequence data utilizing genomic sequence similarity assessment in compressed data space, the method including: obtaining genomic data, preprocessing genomic data into preprocessed genomic data, compressing at least part of the preprocessed genomic data, storing compressed preprocessed genomic data, indexing compressed preprocessed genomic data, and analyzing genomic data, based at least in part on the indexing, the analyzing also including assessing genomic sequence similarity, based at least in part on the indexing.
PCT/IL2002/000818 2001-10-12 2002-10-10 Integrated system and method for analysis of genomic sequence data Ceased WO2003031565A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP02800693A EP1442292A2 (en) 2001-10-12 2002-10-10 Integrated system and method for analysis of genomic sequence data
AU2002334367A AU2002334367A1 (en) 2001-10-12 2002-10-10 Integrated system and method for analysis of genomic sequence data

Applications Claiming Priority (12)

Application Number Priority Date Filing Date Title
US32911201P 2001-10-12 2001-10-12
US32911501P 2001-10-12 2001-10-12
US32911401P 2001-10-12 2001-10-12
US32911001P 2001-10-12 2001-10-12
US32911101P 2001-10-12 2001-10-12
US60/329,110 2001-10-12
US60/329,114 2001-10-12
US60/329,115 2001-10-12
US09/976,911 2001-10-12
US60/329,111 2001-10-12
US09/976,911 US20060129330A1 (en) 2001-10-12 2001-10-12 System and method for graphically representing genomic sequence data
US60/329,112 2001-10-12

Publications (2)

Publication Number Publication Date
WO2003031565A2 WO2003031565A2 (en) 2003-04-17
WO2003031565A3 true WO2003031565A3 (en) 2004-03-04

Family

ID=27559744

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/IL2002/000818 Ceased WO2003031565A2 (en) 2001-10-12 2002-10-10 Integrated system and method for analysis of genomic sequence data

Country Status (3)

Country Link
EP (1) EP1442292A2 (en)
AU (1) AU2002334367A1 (en)
WO (1) WO2003031565A2 (en)

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US11823774B2 (en) 2016-03-15 2023-11-21 Genomics, PLC Compression/decompression method and apparatus for genomic variant call data

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2013006776A2 (en) * 2011-07-06 2013-01-10 President And Fellows Of Harvard University Systems and methods for genetic data compression
WO2013178801A2 (en) * 2012-06-01 2013-12-05 European Molecular Biology Laboratory High-capacity storage of digital information in dna
GB2507751A (en) 2012-11-07 2014-05-14 Ibm Storing data files in a file system which provides reference data files
CN113037292A (en) * 2021-02-02 2021-06-25 深圳市汉云科技有限公司 Data compression method and data decompression method of structured database and communication equipment

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
BENSON ET AL.: "GenBank", NUCLEIC ACIDS RESEARCH, vol. 25, no. 1, 1997, pages 1 - 6, XP002967189 *
WILLIAMS ET AL.: "Compression of nucleotide databases for fast searching", COMPUTER APPLICATIONS IN THE BIOSCIENCES, vol. 13, no. 5, 1997, pages 549 - 554, XP002967190 *

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US11823774B2 (en) 2016-03-15 2023-11-21 Genomics, PLC Compression/decompression method and apparatus for genomic variant call data

Also Published As

Publication number Publication date
AU2002334367A1 (en) 2003-04-22
EP1442292A2 (en) 2004-08-04
WO2003031565A2 (en) 2003-04-17

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